DEVITA ROBERT (US)
O'SHEA PAUL (US)
DUFFY LORNA (GB)
SULEMAN ABID (GB)
BARTHOLOMEUS JOHAN (CA)
MCGEE PHILIPPE (CA)
DANSEREAU JULIEN (CA)
SANTANDREA JEFFREY (CA)
Docket No. MITO-010-PCT PCT APPLICATION CLAIMS What is claimed is: 1. A compound having a structure represented by a formula: , wherein X1 is halogen, or a salt thereof. 2. The compound of claim 1, wherein X1 is fluoro. 3. The compound of claim 1, wherein the compound has a structure represented by a formula: , or a salt thereof. 4. The compound of claim 1, wherein the compound has a structure represented by a formula: , or a salt thereof. 5. The compound of claim 1, wherein the compound is: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. 6. A compound having a structure represented by a formula: , wherein X1 is halogen, or a salt thereof. 7. The compound of claim 6, wherein X1 is fluoro. 8. The compound of claim 6, wherein the compound is: , or a salt thereof. 9. The compound of claim 6, wherein the compound is: , or a salt thereof. 10. The compound of claim 6, wherein the compound is: , or a salt thereof. 11. A compound having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , wherein each of R1a, R1b, R1c, selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1- C4) dialkylamino, provided that at least one of R1a, R1b, R1c, and R1d is not hydrogen, or a salt thereof. 12. The compound of claim 11, wherein at least one of R1a, R1b, R1c, and R1d is halogen. 13. The compound of claim 11, wherein at least one of R1a, R1b, R1c, and R1d is fluoro. 14. The compound of claim 11, wherein R1c is halogen. 15. The compound of claim 11, wherein R1c is fluoro. 16. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 17. The compound of claim 11, wherein the compound has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 18. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 19. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 20. The compound of claim 11, wherein the compound has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. 21. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 22. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 23. The compound of claim 11, wherein the compound has a structure represented by a formula: , or a salt thereof. 24. The compound of claim 11, wherein the compound is: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 25. A compound having a structure represented by a formula: , wherein X2 is a halogen; and wherein R2 is ‒C(O)(C1-C4 alkyl), or a salt thereof. 26. The compound of claim 25, wherein X2 is bromo. 27. The compound of claim 25, wherein R2 is ‒C(O)CH3. 28. The compound of claim 25, wherein the compound is: , or a salt thereof. 29. The compound of claim 25, wherein the compound is selected from: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. 30. A compound having a structure: , or a salt thereof. 31. A compound having a structure represented by a formula: , wherein m is 0 or 1; wherein X2 is a halogen; wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; and wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1- C4) dialkylamino, or a salt thereof. 32. The compound of claim 30, wherein m is 1. 33. The compound of claim 30, wherein X2 is bromo. 34. The compound of claim 30, wherein Z is ‒O‒. 35. The compound of claim 30, wherein at least one of R1a, R1b, R1c, and R1d is halogen. Docket No. MITO-010-PCT PCT APPLICATION 36. The compound of claim 30, wherein at least one of R1a, R1b, R1c, and R1d is fluoro. 37. The compound of claim 30, wherein R1c is halogen. 38. The compound of claim 30, wherein R1c is fluoro. 39. The compound of claim 30, wherein the compound has a structure represented by a formula: 40. The compound of claim 30, wherein the compound has a structure represented by a formula: , or a salt thereof. 41. The compound of claim 30, wherein the compound has a structure represented by a formula: , or a salt thereof. 42. The compound of claim 30, wherein the compound has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 43. The compound of claim 30, wherein the compound has a structure represented by a formula: , or a salt thereof. 44. The compound of claim 30, wherein the compound is: , or a salt thereof. 45. The compound of claim 30, wherein the compound is: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 46. A method comprising: (a) activating an alcohol having a structure represented by a formula: , wherein m is 0 or 1; wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1- C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein Cy1 is a 3- to 10-membered nitrogen-linked heterocycle substituted with 0, 1, 2, 3, or 4 groups independently selected from halogen,‒CN,‒NH2,‒OH,‒NO2,‒ C(O)(C1-C4 alkyl), C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof, thereby forming an activated alcohol; and (b) displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 47. The method of claim 46, wherein the alcohol is activated by a tosylate or a mesylate. 48. The method of claim 46, wherein the activating step is in the presence of a base. 49. The method of claim 48, wherein the base is an amine base. 50. The method of claim 48, wherein the base is triethylamine or N,N- diisopropylethylamine (DIPEA). 51. The method of claim 46, wherein the activating step is in an aprotic solvent. 52. The method of claim 51, wherein the polar solvent is dichloromethane. 53. The method of claim 46, wherein the activating step is at a temperature of from about -10 ⁰C to about 10 ⁰C. 54. The method of claim 46, wherein the activating step is at a temperature of about 0 ⁰C. 55. The method of claim 46, wherein the activating step is for a time period of from about 1.0 hour to about 3.0 hours. 56. The method of claim 46, wherein the activating step is for a time period of about 1.5 hours. 57. The method of claim 46, wherein the activating step is with stirring. 58. The method of claim 46, wherein the alcohol has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. 59. The method of claim 46, wherein the alcohol has a structure represented by a formula: , or a salt thereof. 60. The method of claim 46, wherein the alcohol has a structure represented by a formula: wherein R1c is a non- or a salt thereof. 61. The method of claim 46, wherein the alcohol has a structure represented by a formula: , wherein Q is selected form wherein R11, when present, is selected from hydrogen and C1-C4 alkyl; and wherein each of R10a, R10b, R10c, and R10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof. Docket No. MITO-010-PCT PCT APPLICATION 62. The method of claim 61, wherein the alcohol has a structure represented by a formula: , or a salt thereof. 63. The method of claim 61, wherein the alcohol has a structure represented by a formula: O CH3 , or a salt thereof. 64. The method of claim 46, the displacing step is performed at an elevated temperature. 65. The method of claim 64, wherein the elevated temperature is of from about 35 ⁰C to about 55 ⁰C. 66. The method of claim 64, wherein the elevated temperature is about 45 ⁰C. 67. The method of claim 64, wherein the elevated temperature is maintained for a time period of from about 1 hour to about 3 hours. 68. The method of claim 64, wherein the elevated temperature is maintained for a time period of about 2 hours. 69. The method of claim 46, wherein the amine is ammonia. 70. The method of claim 46, wherein the amine is (2,4-dimethyoxyphenyl)methanamine, benzophenone imine, or benzylamine. 71. The method of claim 46, wherein the amine is a protected amine. Docket No. MITO-010-PCT PCT APPLICATION 72. The method of claim 71, wherein the method further comprises deprotecting the protected amine. 73. The method of claim 72, wherein deprotecting is via the addition of an acid. 74. The method of claim 73, wherein the acid is trifluoroacetic acid or hydrochloric acid. 75. The method of claim 72, wherein deprotecting is via hydrogenation. 76. The method of claim 46, wherein m is 1. 77. The method of claim 46, wherein Z is ‒O‒. 78. The method of claim 46, wherein at least one of R1a, R1b, R1c, and R1d is a non- hydrogen group. 79. The method of claim 46, wherein at least one of R1a, R1b, R1c, and R1d is halogen. 80. The method of claim 46, wherein at least one of R1a, R1b, R1c, and R1d is fluoro. 81. The method of claim 46, wherein R1c is a non-hydrogen group. 82. The method of claim 46, wherein R1c is halogen. 83. The method of claim 46, wherein R1c is fluoro. 84. The method of claim 46, wherein Cy1 is selected from pyrrolidinyl, imidazolidinyl, piperidinyl, piperazinyl, and morpholinyl. 85. The method of claim 46, wherein Cy1 is a structure represented by a formula: , wherein Q is selected form ‒CH2‒, ‒O‒, and ‒NR11‒; wherein R11, when present, is selected from hydrogen and C1-C4 alkyl; wherein each of R10a, R10b, R10c, and R10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 Docket No. MITO-010-PCT PCT APPLICATION cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein each of R12a, R12b, R12c, and R12d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. 86. The method of claim 85, wherein Q is ‒O‒. 87. The method of claim 85, wherein each of R12a, R12b, R12c, and R12d is hydrogen. 88. The method of claim 85, wherein Cy1 is a structure represented by a formula: . 89. The method of claim 85, represented by a formula: . 90. The method of claim 46, epoxidizing a chromane derivative having a structure represented by a formula: , wherein X2 is a halogen; and wherein R2 is ‒C(O)(C1-C4 alkyl) or a residue of a chiral auxiliary group; and or a salt thereof, and reacting the epoxide with a cyclic amine having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION Cy1‒H, thereby providing the alcohol. 91. The method of claim 90, wherein R2 is ‒C(O)CH3. 92. The method of claim 90, wherein epoxidizing is in the presence of a base. 93. The method of claim 92, wherein the base is sodium methoxide. 94. The method of claim 90, wherein epoxidizing is in the presence of an aprotic solvent. 95. The method of claim 94, wherein the aprotic solvent is diethyl ether. 96. The method of claim 90, wherein the chromane derivative has a structure: , or a salt thereof. 97. The method of claim 90, further comprising coupling a halo-chromanol derivative having a structure represented by a formula: , or a salt thereof, and either a chiral auxiliary agent or a compound having a structure: R2‒R13, wherein R13 is selected from ‒OH, ‒O(C1-C4 alkyl), and ‒O(C2-C4 alkenyl), thereby providing the chromane derivative. Docket No. MITO-010-PCT PCT APPLICATION 98. The method of claim 97, wherein the halo-chromanol derivative is coupled to the chiral auxiliary agent. 99. The method of claim 98, wherein the chiral auxiliary agent is selected from (R)-2- phenylpropanoic acid, (1R)-(+)-campanic aid, (R)-(+)-2-methyl-2-propanesulfinamide, (S)-(- )-1-phenylethylamine, (1R, 2S)-(+)-pseudoephedrin, (R)-(+)-1-phenylethylamine, (1R, 2S)-(- )-ephedrine, (-)-nicotine, (1S, 2R)-(+)-norephedrine, (S)-(-)-2-methyl-2-propanesulfinamide, (S)-4-benzyl-2-oxazolidinone, (1R,2S)-(-)-ephedrine hydrochloride, (R)-4-benzyl-2- oxazolidinone, (1R, 2R)-(-)-pseudoephedrine, (1R, 2S)-(-)-N-methylephedrine, (1S, 2R)-(+)- ephedrine hydrochloride, (S)-(-)-4-isopropyl-2-oxazolidinone, (1S)-(-)-2,10-camphorsultam, (S)-(+)-4-phenyl-2-oxazolidinone, L(-)-malic acid, (-)-quinine, (S)-(-)-3-boc-2,2- dimethyloxazolidine-4-carboxaldehyde, (1S,2R)-(+)-N-methylephedrine, (R)-(-)-4-phenyl-2- oxazolidinone, (-)-shikimic acid, (S)-(+)-4-benzyl-3-propionyl-2-oxazolidinone, (R)-4- benzylthiazolidine-2-thione, (S)-4-isopropylthiazolidine-2-thione, (1S,2S)-(+)- norpseudoephedrine, (R)-(-)-mandelic acid, D-(-)-N-methylglucamine, (2S,3S)-(+)-di-o- benzoyltartaric acid, (4R,5S)-(+)-4-methyl-5-phenyl-2-oxazolidinone, (1S)-(+)-camphor-10- sulfonic acid, (S)-4-(4-aminobenzyl)-2(1H)-oxazolidinone, (R)-4-isopropylthiazolidine-2- thione, (R)-(+)-3-boc-2,3-dimethyloxazolidine-4-carboxaldehyde, methyl (R)-(+)-3-boc-2,2- dimethyl-4-oxazolidinecarboxylate, methyl (S)-(-)-3-boc-2,2-dimethyl-4- oxazolidinecarboxylate, (S)-4-benzyloxazolidine-2-thione, (R)-4-phenylthiazolidine-2-thione, (R)-4-benzyloxazolidine-2-thione, (R)-(+)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)-4- methyl-2-oxazolidinone, (S)-(+)-3-acetyl-4-benzyl-2-oxazolidinone, (4S,5R)-(-)-cis-4,5- diphenyl-2-oxazolidinone, (4R,5S)-(+)-cis-4,5-diphenyl-2-oxazolidinone, (+)-cinchonine, (2R,3R)-(-)-di-o-4-toluoyl-L-tartaric acid, (-)-quinic acid, (S)-(-)-2-methyl-2- propanesulfinamide solution, (S)-4-benzylthiazolidine-2-thione, (S)-(+)-S-methyl-S- phenylsulfoximine, (+)-N,N-diethylnorephedrine hydrochloride, (R)-(+)-4-isopropyl-5,5- diphenyl-2-oxazolidinone, (R)-(+)-4-tert-butyl-2-oxazolidinone, (S)-(+)-3- (benzyloxycarbonyl)-5-oxo-4-oxazolidineacetic acid, (S)-(+)-4-isopropyl-3-propionyl-2- oxazolidinone, (R)-4-benzyl-3-chloroacetyl-2-oxazolidinone, (R)-(+)-5,5-diphenyl-4-methyl- 2-oxazolidinone, (S)-4-tert-butyl-2-oxazolidinone, (S)-(-)-4-isopropyl-2-oxazolidinethione, (R)-(-)-4-benzyl-3-propionyl-2-oxazoldinone, (R)-(+)-3-(benzyloxycarbonyl)-4- oxazolidinecarboxylic acid, (4S,5R)-(-)-4-methyl-5-phenyl-2-oxazolidinone, (S)-(-)-3- (benzyloxycarbonyl)-4-oxazolidinecarboxylic acid, (S)-(-)-4-isopropyl-5,5-dimethyl-2- oxazolidinone, (R)-(+)-4-isopropyl-5,5-dimethyl-2-oxazolidinone, (3aS-cis)-(-)-3,3a,8,8a- Docket No. MITO-010-PCT PCT APPLICATION tetrahydro-2H-inden[1,2-d]oxazol-2-one, (S)-(-)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)- (+)-3-(benzyloxycarbonyl)-5-oxo-4-oxazolidinepropionic acid, (S)-(+)-5,5-dimethyl-4- phenyl-2-oxazolidinone, (S)-(-)-5,5-diphenyl-4-(phenylmethyl)-2-oxazolidinone, (R)-(+)-4- (hydroxymethyl)-2-oxazolidinone benzoate, (4S)-4-(chloromethyl)-3-[(1R)-1-phenylethyl]-2- oxazolidinone, and (5R)-(hydroxymethyl-3-[(1R)-1-phenylethyl]-2-oxazolidinone. 100. The method of claim 98, wherein the chiral auxiliary agent is (R)-2-phenylpropanoic acid. 101. The method of claim 98, wherein the coupling step is performed in the presence of a coupling agent. 102. The method of claim 101, wherein the coupling agent is selected form dicyclohexyl carbodiimide (DCC), 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), and diisopropylcarbodiimide (DIC). 103. The method of claim 101, wherein the coupling agent is DCC. 104. The method of claim 98, wherein the coupling step is performed in the presence of an activating agent. 105. The method of claim 104, wherein the activating agent is selected from pyridine, triethylamine, and 4-dimethylaminopyridine (DMAP). 106. The method of claim 104, wherein the activating agent is DMAP. 107. The method of claim 98, wherein the coupling step is performed in a polar solvent. 108. The method of claim 107, wherein the polar solvent is selected from dichloromethane, methyl tert-butyl ether (MTBE), cyclopentyl methyl ether (CPME), actic anhydride, and acetonitrile. 109. The method of claim 97, wherein the halo-chromanol derivative is coupled to the compound having a structure: R2‒R13. 110. The method of claim 109, wherein R13 is ‒O(C2-C4 alkenyl). Docket No. MITO-010-PCT PCT APPLICATION 111. The method of claim 109, wherein the halo-chromanol derivative is coupled to the compound having a structure: . 112. The method of claim 109, is in the presence of an enzyme. 113. The method of claim 112, wherein the enzyme is Novozyme 435 or Novozyme 51032. 114. The method of claim 109, wherein coupling is in the presence of an aprotic solvent. 115. The method of claim 114, wherein the aprotic solvent is methyl tert-butyl ether (MTBE). 116. The method of claim 109, wherein coupling is at an elevated temperature. 117. The method of claim 116, wherein the elevated temperature is at about 30 °C. 118. The method of claim 97, wherein the halo-chromanol derivative has a structure: , or a salt thereof. 119. The method of claim 97, further comprising reacting a chromene derivative having a structure represented by a formula: , with a halogenating agent in a protic solvent, thereby providing the halo-chromanol derivative. Docket No. MITO-010-PCT PCT APPLICATION 120. The method of claim 119, wherein the halogen source is N-bromosuccinimide (NBS). 121. The method of claim 119, wherein the protic solvent is an alcohol. 122. The method of claim 119, wherein the protic solvent is water. 123. The method of claim 119, further comprising dehydrating a chromanol derivative having a structure represented by a formula: , thereby providing the chromene 124. The method of claim 123, wherein dehydrating is via reaction with an acid. 125. The method of claim 124, wherein the acid is 4-methylbenzenesulfonic acid. 126. The method of claim 123, further comprising reducing a chromanone derivative having a structure represented by a formula: , thereby providing the chromanol 127. The method of claim 126, wherein reducing is via addition of a reducing agent. 128. The method of claim 127, wherein the reducing agent is sodium borohydride. 129. The method of claim 126, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION wherein X3 is a halogen; and wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically 130. The method of claim 46, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , 3 wherein X is a halogen; and wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a pharmaceutically acceptable salt thereof. 131. The method of claim 130, wherein coupling is in the presence of a base. 132. The method of claim 131, wherein the base is an amine base. 133. The method of claim 132, wherein the amine base is selected from diethylamine, triethylamine, diisopropylamine, and diisopropylethylamine. 134. The method of claim 130, wherein coupling is in a protic solvent. 135. The method of claim 134, wherein the protic solvent is an alcohol. 136. The method of claim 135, wherein the alcohol is n-butanol. 137. The method of claim 130, wherein coupling is at a temperature of from about 150 ⁰C to about 190 ⁰C. 138. The method of claim 130, wherein coupling is at a temperature of about 170 ⁰C. 139. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 140. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. Docket No. MITO-010-PCT PCT APPLICATION 141. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 142. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 143. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 144. The method of claim 46, wherein the chromanamine derivative has a structure represented by a forfmula: , wherein R1c is a non-hydrogen group, Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. 145. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 146. The method of claim 46, wherein the chromanamine derivative has a structure represented by a formula: , or a salt thereof. 147. A method comprising: (a) epoxidizing a chromane derivative having a structure represented by a formula: , wherein m is 0 or 1; wherein X2 is a halogen; and wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 Docket No. MITO-010-PCT PCT APPLICATION haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein R2 is ‒C(O)(C1-C4 alkyl) or a residue of a chiral auxiliary group, or a salt thereof; and (b) reacting the epoxide with a cyclic amine having a structure represented by a formula: Cy1‒H, wherein Cy1 is a 3- to 10-membered nitrogen-linked heterocycle substituted with 0, 1, 2, 3, or 4 groups independently selected from halogen,‒CN,‒NH2,‒OH,‒NO2,‒C(O)(C1-C4 alkyl), C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, thereby making an alcohol having a structure represented by a formula: , or a salt thereof. 148. The method of claim 147, wherein the epoxidation step is performed at room temperature. 149. The method of claim 147, wherein the epoxidation step is for a time period of from about 2 hours to about 8 hours. 150. The method of claim 147, wherein the epoxidation step is for a time period of about 4 hours. 151. The method of claim 147, wherein the epoxidation step is performed in an aprotic solvent. Docket No. MITO-010-PCT PCT APPLICATION 152. The method of claim 151, wherein the aprotic solvent is diethyl ether. 153. The method of claim 147, wherein the epoxide is formed via addition of a base. 154. The method of claim 153, wherein the base is sodium methoxide. 155. The method of claim 147, wherein X2 is bromo. 156. The method of claim 147, wherein R2 is the residue of the chiral auxiliary group. 157. The method of claim 156, wherein the chiral auxiliary group is selected from (R)-2- phenylpropanoic acid, (1R)-(+)-campanic aid, (R)-(+)-2-methyl-2-propanesulfinamide, (S)-(- )-1-phenylethylamine, (1R, 2S)-(+)-pseudoephedrin, (R)-(+)-1-phenylethylamine, (1R, 2S)-(- )-ephedrine, (-)-nicotine, (1S, 2R)-(+)-norephedrine, (S)-(-)-2-methyl-2-propanesulfinamide, (S)-4-benzyl-2-oxazolidinone, (1R,2S)-(-)-ephedrine hydrochloride, (R)-4-benzyl-2- oxazolidinone, (1R, 2R)-(-)-pseudoephedrine, (1R, 2S)-(-)-N-methylephedrine, (1S, 2R)-(+)- ephedrine hydrochloride, (S)-(-)-4-isopropyl-2-oxazolidinone, (1S)-(-)-2,10-camphorsultam, (S)-(+)-4-phenyl-2-oxazolidinone, L(-)-malic acid, (-)-quinine, (S)-(-)-3-boc-2,2- dimethyloxazolidine-4-carboxaldehyde, (1S,2R)-(+)-N-methylephedrine, (R)-(-)-4-phenyl-2- oxazolidinone, (-)-shikimic acid, (S)-(+)-4-benzyl-3-propionyl-2-oxazolidinone, (R)-4- benzylthiazolidine-2-thione, (S)-4-isopropylthiazolidine-2-thione, (1S,2S)-(+)- norpseudoephedrine, (R)-(-)-mandelic acid, D-(-)-N-methylglucamine, (2S,3S)-(+)-di-o- benzoyltartaric acid, (4R,5S)-(+)-4-methyl-5-phenyl-2-oxazolidinone, (1S)-(+)-camphor-10- sulfonic acid, (S)-4-(4-aminobenzyl)-2(1H)-oxazolidinone, (R)-4-isopropylthiazolidine-2- thione, (R)-(+)-3-boc-2,3-dimethyloxazolidine-4-carboxaldehyde, methyl (R)-(+)-3-boc-2,2- dimethyl-4-oxazolidinecarboxylate, methyl (S)-(-)-3-boc-2,2-dimethyl-4- oxazolidinecarboxylate, (S)-4-benzyloxazolidine-2-thione, (R)-4-phenylthiazolidine-2-thione, (R)-4-benzyloxazolidine-2-thione, (R)-(+)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)-4- methyl-2-oxazolidinone, (S)-(+)-3-acetyl-4-benzyl-2-oxazolidinone, (4S,5R)-(-)-cis-4,5- diphenyl-2-oxazolidinone, (4R,5S)-(+)-cis-4,5-diphenyl-2-oxazolidinone, (+)-cinchonine, (2R,3R)-(-)-di-o-4-toluoyl-L-tartaric acid, (-)-quinic acid, (S)-(-)-2-methyl-2- propanesulfinamide solution, (S)-4-benzylthiazolidine-2-thione, (S)-(+)-S-methyl-S- phenylsulfoximine, (+)-N,N-diethylnorephedrine hydrochloride, (R)-(+)-4-isopropyl-5,5- diphenyl-2-oxazolidinone, (R)-(+)-4-tert-butyl-2-oxazolidinone, (S)-(+)-3- (benzyloxycarbonyl)-5-oxo-4-oxazolidineacetic acid, (S)-(+)-4-isopropyl-3-propionyl-2- oxazolidinone, (R)-4-benzyl-3-chloroacetyl-2-oxazolidinone, (R)-(+)-5,5-diphenyl-4-methyl- Docket No. MITO-010-PCT PCT APPLICATION 2-oxazolidinone, (S)-4-tert-butyl-2-oxazolidinone, (S)-(-)-4-isopropyl-2-oxazolidinethione, (R)-(-)-4-benzyl-3-propionyl-2-oxazoldinone, (R)-(+)-3-(benzyloxycarbonyl)-4- oxazolidinecarboxylic acid, (4S,5R)-(-)-4-methyl-5-phenyl-2-oxazolidinone, (S)-(-)-3- (benzyloxycarbonyl)-4-oxazolidinecarboxylic acid, (S)-(-)-4-isopropyl-5,5-dimethyl-2- oxazolidinone, (R)-(+)-4-isopropyl-5,5-dimethyl-2-oxazolidinone, (3aS- - - tetrahydro-2H-inden[1,2-d]oxazol-2-one, (S)-(-)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)- (+)-3-(benzyloxycarbonyl)-5-oxo-4-oxazolidinepropionic acid, (S)-(+)-5,5-dimethyl-4- phenyl-2-oxazolidinone, (S)-(-)-5,5-diphenyl-4-(phenylmethyl)-2-oxazolidinone, (R)-(+)-4- (hydroxymethyl)-2-oxazolidinone benzoate, (4S)-4-(chloromethyl)-3-[(1R)-1-phenylethyl]-2- oxazolidinone, and (5R)-(hydroxymethyl-3-[(1R)-1-phenylethyl]-2-oxazolidinone. 158. The method of claim 156, wherein the residue of the chiral auxiliary group is: . 159. The method of claim 147, (C1-C4 alkyl). 160. The method of claim 159, wherein R2 is ‒C(O)CH3. 161. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: . 162. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: . Docket No. MITO-010-PCT PCT APPLICATION 163. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: . 164. The method of claim 147, derivative has a structure represented by a formula: , wherein R1c is a non-hydrogen 165. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: . 166. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: . 167. The method of claim 147, wherein the chromane derivative has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION . 168. The method of claim 147, from a pyrrolidinyl, imidazolidinyl, piperidinyl, piperazinyl, and morpholinyl ring, and is substituted with 0, 1, 2, 3, 4, 5, 6, 7, or 8 groups independently selected from halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1- C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. 169. The method of claim 147, wherein the cyclic amine has a structure represented by a formula: R12c R12d R10d , wherein Q is selected form wherein R11, when present, is selected from hydrogen and C1-C4 alkyl; wherein each of R10a, R10b, R10c, and R10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein each of R12a, R12b, R12c, and R12d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. 170. The method of claim 169, wherein Q is ‒O‒. 171. The method of claim 169, wherein each of R12a, R12b, R12c, and R12d is hydrogen. Docket No. MITO-010-PCT PCT APPLICATION 172. The method of claim 169, wherein the cyclic amine has a structure represented by a formula: . 173. The method of claim 169, amine has a structure represented by a formula: . 174. The method of claim 147, coupling a halo-chromanol derivative having a structure represented by a formula: , or a salt thereof, and either a or a compound having a structure: R2‒R13, wherein R13 is selected from ‒OH, ‒O(C1-C4 alkyl), and ‒O(C2-C4 alkenyl), thereby providing the chromane derivative. 175. The method of claim 174, further comprising reacting a chromene derivative having a structure represented by a formula: , and a halogen source in a protic solvent, thereby providing the halo-chromanol derivative. Docket No. MITO-010-PCT PCT APPLICATION 176. The method of claim 175, further comprising dehydrating a chromanol derivative having a structure represented by a formula: , thereby providing the chromene 177. The method of claim 176, further comprising reducing a chromanone derivative having a structure represented by a formula: , thereby providing the 178. The method of claim 147, further comprising activating the alcohol, thereby forming an activated alcohol, and displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: , or a salt thereof. 179. The method of claim 178, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , wherein X3 is a halogen; and Docket No. MITO-010-PCT PCT APPLICATION wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically 180. The method of claim 147, wherein the alcohol has a structure represented by a formula: , or a salt thereof. 181. The method of claim 147, wherein the alcohol has a structure represented by a formula: , or a salt thereof. 182. The method of claim 147, wherein the alcohol has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION wherein R1c is a non- or a salt thereof. 183. The method of claim 147, wherein the alcohol has a structure represented by a formula: , wherein Q is selected form wherein R11, when present, is selected from hydrogen and C1-C4 alkyl; and wherein each of R10a, R10b, R10c, and R10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof. 184. The method of claim 183, wherein the alcohol has a structure represented by a formula: , or a salt thereof. Docket No. MITO-010-PCT PCT APPLICATION 185. The method of claim 183, wherein the alcohol has a structure represented by a formula: O CH3 , or a salt thereof. 186. A method comprising activating a chromanol derivative having a structure represented by a formula: , wherein m is 0 or 1; wherein Q is selected form ‒CH2‒, ‒O‒, and ‒NR11‒; wherein R11, when present, is selected from hydrogen and C1-C4 alkyl; wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1- C4) dialkylamino; and wherein each of R10a, R10b, R10c, and R10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof, thereby forming an activated alcohol, and displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: , or a salt thereof. 187. The method of claim 186, further comprising reducing a chromenone derivative having a structure represented by a formula: , or a salt thereof, thereby 188. The method of claim 187, wherein reducing is via dynamic kinetic resolution. 189. The method of claim 187, wherein the chromenone derivative has a structure represented by a formula: , or a salt thereof. 190. The method of claim 187, further comprising reacting a di-halide having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , wherein each of X2 and X2’ is or a salt thereof, and a cyclic amine having a structure represented by a formula: , or a salt thereof, and eliminating thereby providing the chromenone derivative. 191. The method of claim 190, wherein the di-halide has a structure represented by a formula: , or a salt thereof. 192. The method of claim 190, further comprising di-halogenating a chromanone derivative having a structure represented by a formula: , or a salt thereof, thereby providing the di-halide. 193. The method of claim 192, wherein the chromanone derivative has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 194. The method of claim 192, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , wherein X3 is a halogen; and wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically acceptable salt thereof. 195. The method of claim 186, further comprising reducing a chromanone derivative having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof, thereby 196. The method of claim 195, wherein the chromanone derivative has a structure represented by a formula: , or a salt thereof. 197. The method of claim 195, further comprising reacting a halide having a structure represented by a formula: , wherein X2 is a halogen, or a salt thereof, and a cyclic amine having a structure represented by a formula: , or a salt thereof, thereby providing the chromanone derivative. 198. The method of claim 197, wherein the halide has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , or a salt thereof. 199. The method of claim 197, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , wherein X3 is a halogen; and wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically acceptable salt thereof. 200. The method of claim 186, further comprising coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION wherein X3 is a halogen; and wherein R3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically 201. The method of claim 200, wherein the pyrrolopyridine has a structure: , or a pharmaceutically acceptable salt thereof. 202. A compound having a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; and wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1- C4) dialkylamino, or a salt thereof. 203. The compound of claim 202, wherein the compound has a structure represented by formula: , or a salt thereof. 204. A compound having a structure represented by a formula: or a salt thereof. 205. A method comprising mesylation of an alcohol compound to form a mesylate compound, the alcohol compound having a structure represented by the following formula: Docket No. MITO-010-PCT PCT APPLICATION wherein Z is selected from and wherein each of R1a, R1b, R1c, and R1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1- C4) dialkylamino, or a salt thereof. 206. The method according to claim 205, wherein the structure of the alcohol compound is represented by formula: , or a salt thereof. 207. The method according to claim 206 further comprising: reacting the mesylate compound with a benzylamine to obtain a benzylamine structure represented by formula: , or a salt thereof. Docket No. MITO-010-PCT PCT APPLICATION 208. The method according to claim 207 further comprising: obtaining from the benzylamine structure a chromanamine derivative having a structure represented by formula: , or a salt thereof. 209. The method according to claim 208, wherein the structure of the chromanamine derivative is represented by formula: , or a salt thereof. 210. A method comprising obtaining a chromanamine derivative by reducing a compound having a structure represented by formula: or a salt thereof. 211. A method of synthesizing a compound having a structure according to formula: Docket No. MITO-010-PCT PCT APPLICATION , or a pharmaceutically 212. A method of synthesizing a compound having a structure according to formula: , or a pharmaceutically 213. A method of synthesizing a compound having a structure according to formula: , or a pharmaceutically |
Docket No. MITO-010-PCT PCT APPLICATION a identified in the Examples). In some embodiments, compositions comprise one or a combination of compounds made by the process of synthesis steps disclosed herein. E. METHODS OF MAKING THE COMPOUNDS [0378] In some embodiments, provided herein are methods comprising: (a) activating an alcohol having a structure represented by a formula: , wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1- C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein Cy 1 is a 3- to 10-membered nitrogen-linked heterocycle substituted with 0, 1, 2, 3, or 4 groups independently selected from halogen,‒CN,‒NH2,‒OH,‒NO2,‒C(O)(C1-C4 alkyl), C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1- C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof, thereby forming an activated alcohol; and (b) displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , [0379] In some further embodiments, the alcohol is activated by a tosylate or a mesylate. [0380] In some further embodiments, the activating step is in the presence of a base. In a further embodiment, the base is an amine base. In a still further embodiment, the base is triethylamine or N,N-diisopropylethylamine (DIPEA). [0381] In some further embodiments, the activating step is in an aprotic solvent. In a further embodiment, the polar solvent is dichloromethane. [0382] In some further embodiments, the activating step is at a temperature of from about -10 ⁰C to about 10 ⁰C. In a further embodiment, the activating step is at a temperature of from about -10 ⁰C to about 8 ⁰C, about -10 ⁰C to about 6 ⁰C, about -10 ⁰C to about 4 ⁰C, about -10 ⁰C to about 2 ⁰C, about -10 ⁰C to about 0 ⁰C, about -10 ⁰C to about -2 ⁰C, about -10 ⁰C to about -4 ⁰C, about -10 ⁰C to about -6 ⁰C, about -10 ⁰C to about -8 ⁰C, 8 about -8 ⁰C to about 8 ⁰C, about -6 ⁰C to about 8 ⁰C, about -4 ⁰C to about 8 ⁰C, about -2 ⁰C to about 8 ⁰C, about 0 ⁰C to about 8 ⁰C, about 2 ⁰C to about 8 ⁰C, about 4 ⁰C to about 8 ⁰C, about 6 ⁰C to about 8 ⁰C, about -8 ⁰C to about 6 ⁰C, about -6 ⁰C to about 4 ⁰C, about -4 ⁰C to about 2 ⁰C, or about -2 ⁰C to about 0 ⁰C. In a still further embodiment, the activating step is at a temperature of about 0 ⁰C. [0383] In some further embodiments, the activating step is for a time period of from about 1.0 hour to about 3.0 hours. In a further embodiment, the activating step is for a time period of from about 1.0 hour to about 2.5 hours, about 1.0 hour to about 2.0 hours, about 1.0 hour to about 1.5 hours, about 1.5 hour to about 3.0 hours, about 2.0 hour to about 3.0 hours, about 2.5 hour to about 3.0 hours, or about 1.5 hour to about 2.5 hours. In a still further embodiment, the activating step is for a time period of about 1.5 hours. [0384] In some further embodiments, the activating step is with stirring. [0385] In some further embodiments, the alcohol has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. [0386] In some further embodiments, the alcohol has a structure represented by a formula: , [0387] In some further embodiments, the alcohol has a structure represented by a formula: , hydrogen group, or a salt thereof. [0388] In some further embodiments, the alcohol has a structure represented by a formula: , form ‒CH 2 ‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; and wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2- C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof. [0389] In some further embodiments, the alcohol has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. [0390] In some further embodiments, the alcohol has a structure represented by a formula: O CH 3 , [0391] In some embodiments, the displacing step is performed at an elevated temperature. In a further embodiment, the elevated temperature is of from about 35 ⁰C to about 55 ⁰C. In a still further embodiment, the elevated temperature is of from about 35 ⁰C to about 50 ⁰C, about 35 ⁰C to about 45 ⁰C, about 35 ⁰C to about 40 ⁰C, about 40 ⁰C to about 55 ⁰C, about 45 ⁰C to about 55 ⁰C, about 50 ⁰C to about 55 ⁰C, or about 40 ⁰C to about 50 ⁰C. In yet a further embodiment, the elevated temperature is about 45 ⁰C. [0392] In some embodiments, the elevated temperature is maintained for a time period of from about 1 hour to about 3 hours. In a further embodiment, the elevated temperature is maintained for a time period of from about 1 hour to about 2.5 hours, about 1 hour to about 2 hours, about 1 hour to about 1.5 hours, about 1.5 hour to about 3 hours, about 2 hour to about 3 hours, about 2.5 hour to about 3 hours, or about 1.5 hour to about 2.5 hours. In a still further embodiment, the elevated temperature is maintained for a time period of about 2 hours. [0393] In some embodiments, the amine is ammonia. In a further embodiment, the amine is (2,4-dimethyoxyphenyl)methanamine, benzophenone imine, or benzylamine. [0394] In some embodiments, the amine is a protected amine. In a further embodiment, the method further comprises deprotecting the protected amine. In a still further embodiment, deprotecting is via the addition of an acid (e.g., trifluoroacetic acid, hydrochloric acid). In yet a further aspect, deprotecting is via hydrogenation. [0395] In some embodiments, m is 1. [0396] In some embodiments, Z is ‒O‒. [0397] In some embodiments, at least one of R 1a , R 1b , R 1c , and R 1d is a non-hydrogen group. In a further embodiment, at least one of R 1a , R 1b , R 1c , and R 1d is halogen. In a still further embodiment, at least one of R 1a , R 1b , R 1c , and R 1d is fluoro. Docket No. MITO-010-PCT PCT APPLICATION [0398] In some embodiments, R 1c is a non-hydrogen group. In a further embodiment, R 1c is halogen. In a still further embodiment, R 1c is fluoro. [0399] In some embodiments, Cy 1 is selected from pyrrolidinyl, imidazolidinyl, piperidinyl, piperazinyl, and morpholinyl. In a still further embodiment, Cy 1 is a structure represented by a formula: , form ‒CH2‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1- C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein each of R 12a , R 12b , R 12c , and R 12d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. [0400] In some embodiments, Q is ‒O‒. [0401] In some embodiments, each of R 12a , R 12b , R 12c , and R 12d is hydrogen. [0402] In some embodiments, Cy 1 is a structure represented by a formula: . [0403] In some embodiments, Cy 1 is a structure represented by a formula: . [0404] In some embodiments, the method further comprises epoxidizing a chromane derivative having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , and wherein R 2 is ‒C(O)(C1-C4 alkyl) or a residue of a chiral auxiliary group, or a salt thereof, and reacting the epoxide with a cyclic amine having a structure represented by a formula: Cy 1 ‒H, thereby providing the alcohol. [0405] In some embodiments, R 2 is ‒C(O)CH 3 . [0406] In some embodiments, epoxidizing is in the presence of a base. In a further embodiment, the base is sodium methoxide. [0407] In some embodiments, epoxidizing is in the presence of an aprotic solvent. In a further embodiment, the aprotic solvent is diethyl ether. [0408] In some embodiments, the chromane derivative has a structure: , or a salt thereof. [0409] In some embodiments, the method further comprises coupling a halo-chromanol derivative having a structure represented by a formula: , or a salt thereof, and either a chiral auxiliary agent or a compound having a structure: R 2 ‒R 13 , Docket No. MITO-010-PCT PCT APPLICATION wherein R 13 is selected from ‒OH, ‒O(C1-C4 alkyl), and ‒O(C2-C4 alkenyl), thereby providing the chromane derivative. [0410] In some embodiments, the halo-chromanol derivative is coupled to the chiral auxiliary agent. Examples of chiral auxiliary agents include, but are not limited to, (R)-2- phenylpropanoic acid, (1R)-(+)-campanic aid, (R)-(+)-2-methyl-2-propanesulfinamide, (S)-(- )-1-phenylethylamine, (1R, 2S)-(+)-pseudoephedrin, (R)-(+)-1-phenylethylamine, (1R, 2S)-(- )-ephedrine, (-)-nicotine, (1S, 2R)-(+)-norephedrine, (S)-(-)-2-methyl-2-propanesulfinamide, (S)-4-benzyl-2-oxazolidinone, (1R,2S)-(-)-ephedrine hydrochloride, (R)-4-benzyl-2- oxazolidinone, (1R, 2R)-(-)-pseudoephedrine, (1R, 2S)-(-)-N-methylephedrine, (1S, 2R)-(+)- ephedrine hydrochloride, (S)-(-)-4-isopropyl-2-oxazolidinone, (1S)-(-)-2,10-camphorsultam, (S)-(+)-4-phenyl-2-oxazolidinone, L(-)-malic acid, (-)-quinine, (S)-(-)-3-boc-2,2- dimethyloxazolidine-4-carboxaldehyde, (1S,2R)-(+)-N-methylephedrine, (R)-(-)-4-phenyl-2- oxazolidinone, (-)-shikimic acid, (S)-(+)-4-benzyl-3-propionyl-2-oxazolidinone, (R)-4- benzylthiazolidine-2-thione, (S)-4-isopropylthiazolidine-2-thione, (1S,2S)-(+)- norpseudoephedrine, (R)-(-)-mandelic acid, D-(-)-N-methylglucamine, (2S,3S)-(+)-di-o- benzoyltartaric acid, (4R,5S)-(+)-4-methyl-5-phenyl-2-oxazolidinone, (1S)-(+)-camphor-10- sulfonic acid, (S)-4-(4-aminobenzyl)-2(1H)-oxazolidinone, (R)-4-isopropylthiazolidine-2- thione, (R)-(+)-3-boc-2,3-dimethyloxazolidine-4-carboxaldehyde, methyl (R)-(+)-3-boc-2,2- dimethyl-4-oxazolidinecarboxylate, methyl (S)-(-)-3-boc-2,2-dimethyl-4- oxazolidinecarboxylate, (S)-4-benzyloxazolidine-2-thione, (R)-4-phenylthiazolidine-2-thione, (R)-4-benzyloxazolidine-2-thione, (R)-(+)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)-4- methyl-2-oxazolidinone, (S)-(+)-3-acetyl-4-benzyl-2-oxazolidinone, (4S,5R)-(-)-cis-4,5- diphenyl-2-oxazolidinone, (4R,5S)-(+)-cis-4,5-diphenyl-2-oxazolidinone, (+)-cinchonine, (2R,3R)-(-)-di-o-4-toluoyl-L-tartaric acid, (-)-quinic acid, (S)-(-)-2-methyl-2- propanesulfinamide solution, (S)-4-benzylthiazolidine-2-thione, (S)-(+)-S-methyl-S- phenylsulfoximine, (+)-N,N-diethylnorephedrine hydrochloride, (R)-(+)-4-isopropyl-5,5- diphenyl-2-oxazolidinone, (R)-(+)-4-tert-butyl-2-oxazolidinone, (S)-(+)-3- (benzyloxycarbonyl)-5-oxo-4-oxazolidineacetic acid, (S)-(+)-4-isopropyl-3-propionyl-2- oxazolidinone, (R)-4-benzyl-3-chloroacetyl-2-oxazolidinone, (R)-(+)-5,5-diphenyl-4-methyl- 2-oxazolidinone, (S)-4-tert-butyl-2-oxazolidinone, (S)-(-)-4-isopropyl-2-oxazolidinethione, (R)-(-)-4-benzyl-3-propionyl-2-oxazoldinone, (R)-(+)-3-(benzyloxycarbonyl)-4- oxazolidinecarboxylic acid, (4S,5R)-(-)-4-methyl-5-phenyl-2-oxazolidinone, (S)-(-)-3- (benzyloxycarbonyl)-4-oxazolidinecarboxylic acid, (S)-(-)-4-isopropyl-5,5-dimethyl-2- oxazolidinone, (R)-(+)-4-isopropyl-5,5-dimethyl-2-oxazolidinone, (3aS-cis)-(-)-3,3a,8,8a- Docket No. MITO-010-PCT PCT APPLICATION tetrahydro-2H-inden[1,2-d]oxazol-2-one, (S)-(-)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)- (+)-3-(benzyloxycarbonyl)-5-oxo-4-oxazolidinepropionic acid, (S)-(+)-5,5-dimethyl-4- phenyl-2-oxazolidinone, (S)-(-)-5,5-diphenyl-4-(phenylmethyl)-2-oxazolidinone, (R)-(+)-4- (hydroxymethyl)-2-oxazolidinone benzoate, (4S)-4-(chloromethyl)-3-[(1R)-1-phenylethyl]-2- oxazolidinone, and (5R)-(hydroxymethyl-3-[(1R)-1-phenylethyl]-2-oxazolidinone. In a further embodiment, the chiral auxiliary agent is (R)-2-phenylpropanoic acid. [0411] In some embodiments, the coupling step is performed in the presence of a coupling agent. Examples of coupling agents include, but are not limited to, dicyclohexyl carbodiimide (DCC), 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), and diisopropylcarbodiimide (DIC). In a further embodiment, the coupling agent is DCC. [0412] In some embodiments, the coupling step is performed in the presence of an activating agent. Examples of activating agents include, but are not limited to, pyridine, triethylamine, and 4-dimethylaminopyridine (DMAP). In a further embodiment, the activating agent is DMAP. [0413] In some embodiments, the coupling step is performed in a polar solvent. Examples of polar solvents include, but are not limited to, dichloromethane, methyl tert-butyl ether (MTBE), cyclopentyl methyl ether (CPME), actic anhydride, and acetonitrile. [0414] In some embodiments, the halo-chromanol derivative is coupled to the compound having a structure: R 2 ‒R 13 . [0415] In some embodiments, R 13 is ‒O(C2-C4 alkenyl). [0416] In some embodiments, the halo-chromanol derivative is coupled to a compound having a structure: . [0417] In some embodiments, coupling is in the presence of an enzyme. In a further embodiment, the enzyme is Novozyme 435 or Novozyme 51032. In a still further embodiment, the enzyme is Novozyme 435. [0418] In some embodiments, coupling is in the presence of an aprotic solvent. In a further embodiment, the aprotic solvent is methyl tert-butyl ether (MTBE). Docket No. MITO-010-PCT PCT APPLICATION [0419] In some embodiments, coupling is at an elevated temperature. In a further embodiment, the elevated temperature is at about 30 °C. [0420] In some embodiments, the halo-chromanol derivative has a structure: , [0421] In some embodiments, the method further comprises reacting a chromene derivative having a structure represented by a formula: , agent in a protic solvent, thereby providing the halo-chromanol derivative. [0422] In some embodiments, the halogen source is N-bromosuccinimide (NBS). [0423] In some embodiments, the protic solvent is an alcohol. In a further embodiment, the protic solvent is water. [0424] In some embodiments, the method further comprises dehydrating a chromanol derivative having a structure represented by a formula: , thereby providing the chromene derivative. [0425] In some embodiments, dehydrating is via reaction with an acid. In a further embodiment, the acid is 4-methylbenzenesulfonic acid. [0426] In some embodiments, the method further comprises reducing a chromanone derivative having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , the chromanol derivative. [0427] In some embodiments, reducing is via addition of a reducing agent. In a further embodiment, the reducing agent is sodium borohydride. [0428] In some embodiments, the method further comprises coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , a halogen; and wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a salt thereof. [0429] In some embodiments, the method further comprises coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , wherein X 3 is a halogen; and wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or Docket No. MITO-010-PCT PCT APPLICATION a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , salt thereof. [0430] In some embodiments, coupling is in the presence of a base. In a further embodiment, the base is an amine base. Examples of amine bases include, but are not limited to, diethylamine, triethylamine, diisopropylamine, and diisopropylethylamine. [0431] In some embodiments, coupling is in a protic solvent. In a further embodiment, the protic solvent is an alcohol. In a still further embodiment, the alcohol is n-butanol. [0432] In some embodiments, coupling is at a temperature of from about 150 ⁰C to about 190 ⁰C. In a further embodiment, coupling is at a temperature of from about 150 ⁰C to about 180 ⁰C, about 150 ⁰C to about 170 ⁰C, about 150 ⁰C to about 160 ⁰C, about 160 ⁰C to about 190 ⁰C, about 170 ⁰C to about 190 ⁰C, about 180 ⁰C to about 190 ⁰C, about 160 ⁰C to about 180 ⁰C, or about 165 ⁰C to about 175 ⁰C. In a still further embodiment, coupling is at a temperature of about 170 ⁰C. [0433] In some embodiments, the chromanamine derivative has a structure represented by a formula: , or a salt thereof. [0434] In some embodiments, the chromanamine derivative has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , [0435] In some embodiments, the chromanamine derivative has a structure represented by a formula: , [0436] In some embodiments, the chromanamine derivative has a structure represented by a formula: , [0437] In some embodiments, the chromanamine derivative has a structure represented by a formula: , or a salt thereof. [0438] In some embodiments, the chromanamine derivative has a structure represented by a forfmula: Docket No. MITO-010-PCT PCT APPLICATION , group, or a salt thereof. [0439] In some embodiments, the chromanamine derivative has a structure represented by a formula: , [0440] In some embodiments, the chromanamine derivative has a structure represented by a formula: , [0441] In some embodiment, provided herein are methods comprising: (a) epoxidizing a chromane derivative having a structure represented by a formula: , wherein m is 0 or 1; wherein X 2 is a halogen; and wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein R 2 is ‒C(O)(C1-C4 alkyl) or a residue of a chiral auxiliary group, or a salt thereof; and (b) reacting the epoxide with a cyclic amine having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION Cy 1 ‒H, wherein Cy 1 is a 3- to 10-membered nitrogen-linked heterocycle substituted with 0, 1, 2, 3, or 4 groups independently selected from halogen,‒CN,‒NH2,‒OH,‒NO2,‒C(O)(C1-C4 alkyl), C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1- C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, thereby making an alcohol having a structure represented by a formula: , [0442] In some embodiments, the epoxidation step is performed at room temperature. [0443] In some embodiments, the epoxidation step is for a time period of from about 2 hours to about 8 hours. In a further embodiment, the epoxidation step is for a time period of from about 2 hours to about 7 hours, about 2 hours to about 6 hours, about 2 hours to about 5 hours, about 2 hours to about 4 hours, about 2 hours to about 3 hours, about 3 hours to about 8 hours, about 4 hours to about 8 hours, about 5 hours to about 8 hours, about 6 hours to about 8 hours, about 7 hours to about 8 hours, about 3 hours to about 7 hours, about 4 hours to about 6 hours, or about 4.5 hours to about 5.5 hours. In a still further embodiment, the epoxidation step is for a time period of about 4 hours. [0444] In some embodiments, the epoxidation step is performed in an aprotic solvent. In a further embodiment, the aprotic solvent is diethyl ether. [0445] In some embodiments, the epoxide is formed via addition of a base. In a further embodiment, the base is sodium methoxide. [0446] In some embodiments, X 2 is bromo. [0447] In some embodiments, R 2 is the residue of the chiral auxiliary group. Examples of chiral auxiliary agents include, but are not limited to, (R)-2-phenylpropanoic acid, (1R)-(+)- campanic aid, (R)-(+)-2-methyl-2-propanesulfinamide, (S)-(-)-1-phenylethylamine, (1R, 2S)- (+)-pseudoephedrin, (R)-(+)-1-phenylethylamine, (1R, 2S)-(-)-ephedrine, (-)-nicotine, (1S, 2R)-(+)-norephedrine, (S)-(-)-2-methyl-2-propanesulfinamide, (S)-4-benzyl-2-oxazolidinone, (1R,2S)-(-)-ephedrine hydrochloride, (R)-4-benzyl-2-oxazolidinone, (1R, 2R)-(-)- pseudoephedrine, (1R, 2S)-(-)-N-methylephedrine, (1S, 2R)-(+)-ephedrine hydrochloride, (S)- Docket No. MITO-010-PCT PCT APPLICATION (-)-4-isopropyl-2-oxazolidinone, (1S)-(-)-2,10-camphorsultam, (S)-(+)-4-phenyl-2- oxazolidinone, L(-)-malic acid, (-)-quinine, (S)-(-)-3-boc-2,2-dimethyloxazolidine-4- carboxaldehyde, (1S,2R)-(+)-N-methylephedrine, (R)-(-)-4-phenyl-2-oxazolidinone, (-)- shikimic acid, (S)-(+)-4-benzyl-3-propionyl-2-oxazolidinone, (R)-4-benzylthiazolidine-2- thione, (S)-4-isopropylthiazolidine-2-thione, (1S,2S)-(+)-norpseudoephedrine, (R)-(-)- mandelic acid, D-(-)-N-methylglucamine, (2S,3S)-(+)-di-o-benzoyltartaric acid, (4R,5S)-(+)- 4-methyl-5-phenyl-2-oxazolidinone, (1S)-(+)-camphor-10-sulfonic acid, (S)-4-(4- aminobenzyl)-2(1H)-oxazolidinone, (R)-4-isopropylthiazolidine-2-thione, (R)-(+)-3-boc-2,3- dimethyloxazolidine-4-carboxaldehyde, methyl (R)-(+)-3-boc-2,2-dimethyl-4- oxazolidinecarboxylate, methyl (S)-(-)-3-boc-2,2-dimethyl-4-oxazolidinecarboxylate, (S)-4- benzyloxazolidine-2-thione, (R)-4-phenylthiazolidine-2-thione, (R)-4-benzyloxazolidine-2- thione, (R)-(+)-4-benzyl-5,5-dimethyl-2-oxazolidinone, (S)-4-methyl-2-oxazolidinone, (S)- (+)-3-acetyl-4-benzyl-2-oxazolidinone, (4S,5R)-(-)-cis-4,5-diphenyl-2-oxazolidinone, (4R,5S)-(+)-cis-4,5-diphenyl-2-oxazolidinone, (+)-cinchonine, (2R,3R)-(-)-di-o-4-toluoyl-L- tartaric acid, (-)-quinic acid, (S)-(-)-2-methyl-2-propanesulfinamide solution, (S)-4- benzylthiazolidine-2-thione, (S)-(+)-S-methyl-S-phenylsulfoximine, (+)-N,N- diethylnorephedrine hydrochloride, (R)-(+)-4-isopropyl-5,5-diphenyl-2-oxazolidinone, (R)- (+)-4-tert-butyl-2-oxazolidinone, (S)-(+)-3-(benzyloxycarbonyl)-5-oxo-4-oxazolidineacetic acid, (S)-(+)-4-isopropyl-3-propionyl-2-oxazolidinone, (R)-4-benzyl-3-chloroacetyl-2- oxazolidinone, (R)-(+)-5,5-diphenyl-4-methyl-2-oxazolidinone, (S)-4-tert-butyl-2- oxazolidinone, (S)-(-)-4-isopropyl-2-oxazolidinethione, (R)-(-)-4-benzyl-3-propionyl-2- oxazoldinone, (R)-(+)-3-(benzyloxycarbonyl)-4-oxazolidinecarboxylic acid, (4S,5R)-(-)-4- methyl-5-phenyl-2-oxazolidinone, (S)-(-)-3-(benzyloxycarbonyl)-4-oxazolidinecarboxylic acid, (S)-(-)-4-isopropyl-5,5-dimethyl-2-oxazolidinone, (R)-(+)-4-isopropyl-5,5-dimethyl-2- oxazolidinone, (3aS-cis)-(-)-3,3a,8,8a-tetrahydro-2H-inden[1,2-d]oxazol-2-o ne, (S)-(-)-4- benzyl-5,5-dimethyl-2-oxazolidinone, (S)-(+)-3-(benzyloxycarbonyl)-5-oxo-4- oxazolidinepropionic acid, (S)-(+)-5,5-dimethyl-4-phenyl-2-oxazolidinone, (S)-(-)-5,5- diphenyl-4-(phenylmethyl)-2-oxazolidinone, (R)-(+)-4-(hydroxymethyl)-2-oxazolidinone benzoate, (4S)-4-(chloromethyl)-3-[(1R)-1-phenylethyl]-2-oxazolidinone , and (5R)- (hydroxymethyl-3-[(1R)-1-phenylethyl]-2-oxazolidinone. In a further embodiment, the chiral auxiliary agent is (R)-2-phenylpropanoic acid. [0448] In some embodiments, the residue of the chiral auxiliary group is: Docket No. MITO-010-PCT PCT APPLICATION . embodiments, R 2 is ‒C(O)(C1-C4 alkyl). In a further embodiment, R 2 is ‒ C(O)CH3. [0450] In some embodiments, the chromane derivative has a structure represented by a formula: . the chromane derivative has a structure represented by a formula: . some the chromane derivative has a structure represented by a formula: . [0453] In some embodiments, the chromane derivative has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION wherein R 1c is a non-hydrogen group. [0454] In some embodiments, the chromane derivative has a structure represented by a formula: the chromane derivative has a structure represented by a . the chromane derivative has a structure represented by a formula: . [0457] In some embodiments, Cy 1 is selected from a pyrrolidinyl, imidazolidinyl, piperidinyl, piperazinyl, and morpholinyl ring, and is substituted with 0, 1, 2, 3, 4, 5, 6, 7, or 8 groups independently selected from halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1- C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. [0458] In some embodiments, the cyclic amine has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION R 12c R 12d R 10d NH , form ‒CH2‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1- C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein each of R 12a , R 12b , R 12c , and R 12d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino. [0459] In some embodiments, Q is ‒O‒. [0460] In some embodiments, each of R 12a , R 12b , R 12c , and R 12d is hydrogen. [0461] In some embodiments, the cyclic amine has a structure represented by a formula: . some embodiments, the cyclic amine has a structure represented by a formula: . [0463] In some embodiments, the method further comprises coupling a halo-chromanol derivative having a structure represented by a formula: , or a salt thereof, and either a chiral auxiliary agent or a compound having a structure: R 2 ‒R 13 , Docket No. MITO-010-PCT PCT APPLICATION wherein R 13 is selected from ‒OH, ‒O(C1-C4 alkyl), and ‒O(C2-C4 alkenyl), thereby providing the chromane derivative. [0464] In some embodiments, the method further comprises reacting a chromene derivative having a structure represented by a formula: , in a protic solvent, thereby providing the halo-chromanol derivative. [0465] In some embodiments, the method further comprises dehydrating a chromanol derivative having a structure represented by a formula: , the chromene derivative. [0466] In some embodiments, the method further comprises reducing a chromanone derivative having a structure represented by a formula: , the chromanol derivative. [0467] In some embodiments, the method further comprises activating the alcohol, thereby forming an activated alcohol, and displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. [0468] In some embodiments, the method further comprises coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , a halogen; and wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , salt thereof. [0469] In some embodiments, the alcohol has a structure represented by a formula: , or a [0470] In some embodiments, the alcohol has a structure represented by a formula: , or a salt thereof. [0471] In some embodiments, the alcohol has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , hydrogen group, or a salt thereof. [0472] In some embodiments, the alcohol has a structure represented by a formula: , form ‒CH 2 ‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; and wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2- C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof. [0473] In some embodiments, the alcohol has a structure represented by a formula: , or a [0474] In some embodiments, the alcohol has a structure represented by a formula: O CH 3 , or a salt thereof. Docket No. MITO-010-PCT PCT APPLICATION [0475] In some embodiments, provided herein are methods comprising the mesylation of the alcohol of paragraphs [0470]-[0475] to obtain a structure represented by formula: , [0476] In some embodiments, the mesylation structure is represented by formula: , [0477] In some embodiments, provided herein are methods comprising reacting a mesylate structure (such as, those presented in paragraphs [0476] and/or [0477]) with a benzylamine to obtain a benzylamine structure represented by formula: , each of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, provided that at least one of R 1a , R 1b , R 1c , and R 1d is not hydrogen, or a salt thereof. [0479] In some embodiments, the benzylamine structure is represented by formula: Docket No. MITO-010-PCT PCT APPLICATION , of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, provided that at least one of R 1a , R 1b , R 1c , and R 1d is not hydrogen, or a salt thereof. [0480] In some embodiments, the benzylamine structure is represented by formula: , X is a halogen. [0481] In some embodiments, the benzylamine structure represented by formula: [0482] In some embodiments, the benzylamine structure may be reduced to obtain the chromanamine derivative having a structure represented by formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. [0483] In some embodiments, the chromanamine derivative has a structure represented by the following formula: , group, or a salt thereof. [0484] In some embodiments, the chromanamine derivative has a structure represented by formula: , [0485] In some embodiments, the chromanamine derivative has a structure represented by formula: , or a [0486] In some embodiments, provided herein are methods comprising activating a chromanol derivative (e.g., from the alcohol of paragraphs [0470]-[0475]) having a structure represented by a formula: , wherein m is 0 or 1; wherein Q is selected form ‒CH 2 ‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; wherein Z is selected from ‒CH2‒, ‒O‒, Docket No. MITO-010-PCT PCT APPLICATION and ‒NH‒; wherein each of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; and wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH 2 , ‒OH, ‒NO 2 , C1-C4 alkyl, C2- C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof, thereby forming an activated alcohol, and displacing the activated alcohol via addition of an amine, thereby providing a chromanamine derivative having a structure represented by a formula: , or a [0487] In some embodiments, the method further comprises reducing a chromenone derivative having a structure represented by a formula: , or a salt thereof, thereby providing the chromanol derivative. In some embodiments, reducing is via dynamic kinetic resolution. [0488] In some embodiments, the chromenone derivative has a structure represented by a formula: , Docket No. MITO-010-PCT PCT APPLICATION or a salt thereof. [0489] In some embodiments, the method further comprises reacting a di-halide having a structure represented by a formula: , and X 2’ is independently halogen, or a salt thereof, and a cyclic amine having a structure represented by a formula: , and eliminating a halide group, thereby providing the chromenone derivative. [0490] In some embodiments, the di-halide has a structure represented by a formula: , or a salt thereof. [0491] In some embodiments, the method further comprises di-halogenating a chromanone derivative having a structure represented by a formula: , or a salt thereof, thereby providing the di-halide. [0492] In some embodiments, the chromanone derivative has a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , [0493] In some embodiments, the method further comprises coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: , a halogen; and wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a pharmaceutically acceptable salt thereof. [0494] In some embodiments, the method further comprises reducing a chromanone derivative having a structure represented by a formula: , or a salt thereof, thereby providing the chromanol derivative. Docket No. MITO-010-PCT PCT APPLICATION [0495] In some embodiments, the chromanone derivative has a structure represented by a formula: , [0496] In some embodiments, the method further comprises reacting a halide having a structure represented by a formula: , or a salt thereof, and a cyclic amine having a structure represented by a formula: , or a salt thereof, thereby providing the chromanone derivative. [0497] In some embodiments, the halide has a structure represented by a formula: , or a salt thereof. [0498] In some embodiments, the method further comprises coupling the chromanamine derivative and a pyrrolopyrimidine having a structure represented by a formula: Docket No. MITO-010-PCT PCT APPLICATION , a halogen; and wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl, or a salt thereof, thereby providing a pyrrolopyridine having a structure represented by a formula: , or a salt thereof. [0499] In some embodiments, the method provides a pyrrolopyridine having a structure: , salt thereof. [0500] In some embodiments, the method provides a pyrrolopyridine having a structure: , Docket No. MITO-010-PCT PCT APPLICATION or a pharmaceutically acceptable salt thereof. [0501] In some embodiments, the method provides a pyrrolopyridine having a structure: , salt thereof. [0502] The compounds of this invention can be prepared by employing reactions as shown in the following schemes, in addition to other standard manipulations that are known in the literature, exemplified in the experimental sections or clear to one skilled in the art. For clarity, examples having a single substituent are shown where multiple substituents are allowed under the definitions disclosed herein. [0503] Reactions used to generate the compounds of this invention are prepared by employing reactions as shown in the following Reaction Schemes, as described and exemplified below. In certain specific examples, the disclosed compounds can be prepared by Routes I-VII, as described and exemplified below. The following examples are provided so that the invention might be more fully understood, are illustrative only, and should not be construed as limiting. 1. ROUTE I [0504] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. SCHEME 1A.
Docket No. MITO-010-PCT PCT APPLICATION [0505] Compounds are represented in generic form, with substituents as noted in compound descriptions elsewhere herein. A more specific example is set forth below. SCHEME 1B. [0506] In some embodiments, compounds of type 1.8, and similar compounds, can be prepared according to reaction Scheme 1B above. Thus, compounds of type 1.5 can be prepared by reduction of an appropriate ketone, e.g., 1.5 as shown above. Appropriate ketones are commercially available or prepared by methods known to one skilled in the art. The reduction is carried out in the presence of an appropriate reducing agent, e.g., sodium borohydride, in an appropriate solvent, e.g., dichloromethane (DCM), in an appropriate solvent, e.g., methanol (MeOH). Compounds of type 1.7 can be prepared by dehydration of an appropriate alcohol, e.g., 1.6 as shown above. The dehdration is carried out in the presence of an appropriate acid, e.g., 4-methylbenzenesulfonic acid. Compounds of type 1.8 can be prepared by halohydrin formation from an appropriate alkene, e.g., 1.17as shown above. The halohydrin formation is carried out in the presence of an appropriate halide source, e.g., N- Docket No. MITO-010-PCT PCT APPLICATION bromosuccinimide (NBS), an appropriate hydroxide source, e.g., water, in an appropriate solvent, e.g., tetrahydrofuran (THF). As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 1.1, 1.2, and 1.3), can be substituted in the reaction to provide compounds similar to Formula 1.4. 2. ROUTE 2 [0507] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. SCHEME 2A. [0508] Compounds are represented in generic form, with substituents as noted in compound descriptions elsewhere herein. More specific examples are set forth below. SCHEME 2B. SCHEME 2C. Docket No. MITO-010-PCT PCT APPLICATION [0509] In some embodiments, compounds of type 2.6 and 2.8, and similar compounds, can be prepared according to reaction Scheme 2B and Scheme 2C above, respectively. Thus, compounds of type 2.6 and 2.8 can be prepared by a coupling reaction between an appropriate halohydrin, e.g., 2.4 as shown above, and an appropriate carboxylate, e.g., 2.5 and 2.6 as shown above. Appropriate carboxylates are commercially available or prepared by methods known to one skilled in the art. The coupling reaction is carried out in the presence of an appropriate coupling agent, e.g., N,N’-dicyclohexylcarbodiimide (DCC), and an appropriate activating agent, e.g., 4-dimethylaminopyridine (DMAP), in an appropriate solvent, dichloromethane (DCM). Alternatively, the coupling reaction is carried out in the presence of an appropriate enzyme, e.g., Novozyme 435, in an appropriate solvent, e.g., methyl tert-butyl ether (MTBE), at an appropriate temperature, e.g., 30 °C. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 2.1 and 2.2), can be substituted in the reaction to provide compounds similar to Formula 2.3. 3. R OUTE 3 [0510] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. SCHEME 3A. Docket No. MITO-010-PCT PCT APPLICATION [0511] Compounds are represented in generic form, with substituents as noted in compound descriptions elsewhere herein. A more specific example is set forth below. SCHEME 3B. prepared according to reaction Scheme 3B above. Thus, compounds of type 3.6 can be prepared by epoxidation of an appropriate halide, e.g., 3.5 as shown above. The epoxidation reaction is carried out in the presence of an appropriate base, e.g., sodium methoxide, in an appropriate solvent, e.g., diethyl ether. Compounds of type 3.8 can be prepared by addition of an appropriate cyclic amine, e.g., 3.7 as shown above. Appropriate cyclic amines are commercially available or prepared by methods known to those of skill in the art. The addition is carried out in the presence of an appropriate base, e.g., triethylamine, in an appropriate solvent, e.g., toluene, at an appropriate temperature, e.g., 90 °C, for an appropriate period of time, e.g., 3 hours. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 3.1, 3.2, and 3.3), can be substituted in the reaction to provide compounds similar to Formula 3.4. 4. R OUTE 4 [0513] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. SCHEME 4A. Docket No. MITO-010-PCT PCT APPLICATION [0514] Compounds are represented in generic form, with substituents as noted in compound descriptions elsewhere herein. A more specific example is set forth below. SCHEME 4B. compounds, can be prepared according to reaction Scheme 4B above. Thus, compounds of type 4.4 can be prepared by rearrangement of an appropriate chromanol derivative, e.g., 4.3 as shown above. The rearrangement is carried out via addition of an appropriate activating agent, e.g., mesyl chloride, in an appropriate base, e.g., triethylamine, in an appropriate solvent, e.g., dichloromethane, at an appropriate temperature, e.g., 0 °C, followed by addition of an appropriate acid, e.g., trifluoroacetic acid, at an appropriate temperature, e.g., 70 °C. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 4.1), can be substituted in the reaction to provide compounds similar to Formula 4.2. 5. ROUTE 5 [0516] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. S CHEME 5A.
Docket No. MITO-010-PCT PCT APPLICATION [0517] Compounds are represented in generic form, with substituents as noted in compound descriptions elsewhere herein. A more specific example is set forth below. S CHEME 5B. [0518] In some embodiments, compounds of type 5.10, and similar compounds, can be prepared according to reaction Scheme 5B above. Thus, compounds of type 5.7 can be prepared by halogenation of an appropriate tetrahydropyranone, e.g., 5.6 as shown above. Appropriate tetrahydropyranones are commercially available or prepared by methods known to one of skill in the art. The halogenation is carried out in the presence of an appropriate halide source, e.g., bromine, in an appropriate solvent, e.g., dichloromethane (DCM). Compounds of type 5.8 can be prepared by elimination of an appropriate halide, e.g., 5.7 as shown above, followed by substitution with an appropriate amine, e.g., 5.8 as shown above. Appropriate amines are commercially available or prepared by methods known to one of skill in the art. The elimination/substitution reaction is carried out in the presence of an appropriate base, e.g., potassium carbonate, in an appropriate solvent, e.g., acetonitrile. Compounds of type 5.9 can be prepared by reduction of an appropriate α, β-unsaturated Docket No. MITO-010-PCT PCT APPLICATION ketone, e.g., 5.8 as shown above. The reduction is carried out in the presence of an appropriate reducing agent, e.g., sodium borohydride, in an appropriate solvent, e.g., methanol. See, e.g., Venkati et al. (2002) Synthetic Communications 32(14): 2227-2235. Compounds of type 5.10 can be prepared by a nucleophilic substitution reaction of an appropriate hyroxy analog, e.g., 5.9 as shown above. The nucleophilic substitution reaction is carried out by converting the hydroxyl group to a leaving group using, for example, mesyl chloride, in the presence of an appropriate base, e.g., diisopropylethylamine, in an appropriate solvent, e.g., dimethylformamide, followed by displacement and inversion of the stereocenter using an appropriate nucleophile, e.g., sodium azide, at an appropriate temperature, e.g., 70 °C. The azide can then be reduced using an appropriate reducing agent, e.g., hydrogen gas, in the presence of an appropriate catalyst, e.g., palladium on carbon, in an appropriate solvent, e.g., methanol. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 5.1, 5.2, 5.3, 5.4, and 5.5), can be substituted in the reaction to provide N-(3-substituted-chroman-4- yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine compounds similar to Formula 5.6. 6. ROUTE 6 [0519] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. SCHEME 6A. Docket No. MITO-010-PCT PCT APPLICATION [0520] form, with substituents as noted in compound descriptions elsewhere herein. A more specific example is set forth below. SCHEME 6B. [0521] In some embodiments, compounds of type 6.9, and similar compounds, can be prepared according to reaction Scheme 6B above. Thus, compounds of type 6.7 can be prepared by halogenation of an appropriate tetrahydropyranone, e.g., 6.6 as shown above. Appropriate tetrahydropyranones are commercially available or prepared by methods known to one of skill in the art. The halogenation is carried out in the presence of an appropriate halide source, e.g., bromine, in an appropriate solvent, e.g., dichloromethane (DCM). Compounds of type 6.9 can be prepared by a substitution reaction between an appropriate halide, e.g., 6.7 as shown above, and an appropriate amine, e.g., 6.8 as shown above. Appropriate amines are commercially available or prepared by methods known to one of skill in the art. The substitution reaction is carried out in the presence of an appropriate base, e.g., potassium carbonate, in an appropriate solvent, e.g., acetonitrile. Compounds of type 6.10 can be prepared by reduction of an appropriate ketone, e.g., 5.9 as shown above. The reduction is carried out in the presence of an appropriate reducing agent, e.g., sodium Docket No. MITO-010-PCT PCT APPLICATION borohydride, in an appropriate solvent, e.g., methanol. See, e.g., Venkati et al. (2002) Synthetic Communications 32(14): 2227-2235. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 6.1, 6.2, 6.3, and 6.4), can be substituted in the reaction to provide N-(3-substituted-chroman- 4-yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine compounds similar to Formula 6.5. 7. ROUTE 7 [0522] In some embodiments, N-(3-substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin- 4-amine compounds can be prepared as shown below. S CHEME 7A. Cy 1 1a m Z are as descriptions elsewhere herein. A more specific example is set forth below. S CHEME 7B. [0524] In some embodiments, compounds of type 7.6, and similar compounds, can be prepared according to reaction Scheme 7B above. Thus, compounds of type 7.6 can be prepared by a coupling reaction between an appropriate amine, e.g., 7.4 as shown above, and Docket No. MITO-010-PCT PCT APPLICATION an appropriate aryl halide, e.g., 7.5 as shown above. The coupling reaction is carried out in the presence of an appropriate base, e.g., diisopropylethylamine (DIPEA), in an appropriate solvent, e.g., n-butanol, at an appropriate temperature, e.g., 170 °C. As can be appreciated by one skilled in the art, the above reaction provides an example of a generalized approach wherein compounds similar in structure to the specific reactants above (compounds similar to compounds of type 7.1 and 7.2), can be substituted in the reaction to provide N-(3- substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine compounds similar to Formula 7.3. [0525] Compounds and compositions described herein are generally useful for modulating the activity of PINK1. In some embodiments, the compounds and compositions described herein inhibit the activity of PINK1. The disclosure relates to a method of modulating PINK1 comprising contacting a cell expressing PINK1 with one or a plurality of compositions or pharmaceutical compositions disclosed herein. In some embodiments, the step of contacting comprising contacting for a time period sufficient to associate and to modulate the biological effect of PINK1 in the cell. In some embodiments the time period is about 5 minutes, 10 mintue, 20 minutes, 30 minutes, 1 hour, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 16, or about 18 hours or more. In some embodiments, the cell is positioned in vitro. In some embdiments, the cell is within a subject, such as a human or dog. [0526] The foregoing description illustrates and describes the disclosure. Additionally, the disclosure shows and describes only the preferred embodiments but, as mentioned above, it is to be understood that it is capable to use in various other combinations, modifications, and environments and is capable of changes or modifications within the scope of the invention concepts as expressed herein, commensurate with the above teachings and/or the skill or knowledge of the relevant art. The embodiments described herein above are further intended to explain best modes known by applicant and to enable others skilled in the art to utilize the disclosure in such, or other, embodiments and with the various modifications required by the particular applications or uses thereof. Accordingly, the description is not intended to limit the invention to the form disclosed herein. Also, it is intended to the appended claims be construed to include alternative embodiments. [0527] All publications and patent applications cited in this specification are herein incorporated by reference, and for any and all purposes, as if each individual publication or patent application were specifically and individually indicated to be incorporated by reference. In the event of an inconsistency between the present disclosure and any Docket No. MITO-010-PCT PCT APPLICATION publications or patent application incorporated herein by reference, the present disclosure controls. F. PHARMACEUTICAL COMPOSITIONS [0528] In some embodiments, the present disclosure provides a pharmaceutical composition comprising a compound described herein and one or more pharmaceutically acceptable carriers or excipients. [0529] In some embodiments, the present disclosure provides a pharmaceutical composition comprising a compound being prepared by a method described herein (e.g., a N-(3- substituted-chroman-4-yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine ) and one or more pharmaceutically acceptable carriers or excipients. [0530] In some embodiments, the present disclosure provides a pharmaceutical composition comprising an effective amount of a compound having a structure: , or a pharmaceutically acceptable salt thereof, and a pharmaceutically acceptable carrier, wherein the compound has an enantiomeric purity of at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 99%, or greater than 99%. In some embodiments, the compound can be provided in percent enantiomeric excess (e.e.). Thus, in various embodiments, the enantiomeric excess of the desired enantiomer of the disclosed pyrrolopyrimidine compounds is at least about 50%, at least about 60%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 98%, or at least about 99%. [0531] In some embodiments, the present disclosure provides a pharmaceutical composition comprising an effective amount of a compound of formula: Docket No. MITO-010-PCT PCT APPLICATION , Q is selected form ‒CH 2 ‒, ‒O‒, and ‒NR 11 ‒; wherein R 11 , when present, is selected from hydrogen and C1-C4 alkyl; wherein Z is selected from ‒CH2‒, ‒O‒, and ‒NH‒; wherein each of R 1a , R 1b , R 1c , and R 1d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino; wherein R 3 is selected from C1-C6 haloalkyl, C1-C6 haloalkoxy, C1-C6 halohydroxy alkyl, and an unsubstituted 3- to 6-membered cycloalkyl; and wherein each of R 10a , R 10b , R 10c , and R 10d is independently selected from hydrogen, halogen, ‒CN, ‒NH2, ‒OH, ‒NO2, C1-C4 alkyl, C2-C4 alkenyl, C1-C4 haloalkyl, C1-C4 cyanoalkyl, C1-C4 hydroxyalkyl, C1-C4 haloalkoxy, C1-C4 alkoxy, C1-C4 alkylamino, and (C1-C4)(C1-C4) dialkylamino, or a salt thereof, wherein the compound has an enantiomeric purity of at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 99%, or greater than 99%. In some embodiments, the compound can be provided in percent enantiomeric excess (e.e.). Thus, in various embodiments, the enantiomeric excess of the desired enantiomer of the disclosed pyrrolopyrimidine compounds is at least about 50%, at least about 60%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 98%, or at least about 99%. [0532] Pharmaceutically acceptable salts of the compounds are conventional acid-addition salts or base-addition salts that retain the biological effectiveness and properties of the compounds and are formed from suitable non-toxic organic or inorganic acids or organic or inorganic bases. Exemplary acid-addition salts include those derived from inorganic acids such as hydrochloric acid, hydrobromic acid, hydroiodic acid, sulfuric acid, sulfamic acid, phosphoric acid and nitric acid, and those derived from organic acids such as p- toluenesulfonic acid, salicylic acid, methanesulfonic acid, oxalic acid, succinic acid, citric acid, malic acid, lactic acid, fumaric acid, and the like. Example base-addition salts include those derived from ammonium, potassium, sodium and, quaternary ammonium hydroxides, Docket No. MITO-010-PCT PCT APPLICATION such as for example, tetramethylammonium hydroxide. Chemical modification of a pharmaceutical compound into a salt is a known technique to obtain improved physical and chemical stability, hygroscopicity, flowability and solubility of compounds. See, e.g., H. Ansel et. al., Pharmaceutical Dosage Forms and Drug Delivery Systems (6th Ed.1995) at pp. 196 and 1456-1457. [0533] The pharmaceutical compositions comprise the compounds prepared by the methods disclosed herein with or in a pharmaceutically acceptable carrier. A pharmaceutically acceptable carrier refers to sterile aqueous or nonaqueous solutions, dispersions, suspensions or emulsions, as well as sterile powders for reconstitution into sterile injectable solutions or dispersions just prior to use. Examples of suitable aqueous and nonaqueous carriers, diluents, solvents or vehicles include water, ethanol, polyols (such as glycerol, propylene glycol, polyethylene glycol and the like), carboxymethylcellulose and suitable mixtures thereof, vegetable oils (such as olive oil) and injectable organic esters such as ethyl oleate. The compounds can be formulated with pharmaceutically acceptable carriers or diluents as well as any other known adjuvants and excipients in accordance with conventional techniques such as those disclosed in Remington: The Science and Practice of Pharmacy, 19th Edition, Gennaro, Ed., Mack Publishing Co., Easton, Pa., 1995. [0534] In further embodiments, the pharmaceutical composition is administered to a mammal. In still further embodiments, the mammal is a human. In an even further embodiment, the human is a patient. [0535] In further embodiments, the pharmaceutical composition is administered following identification of the mammal in need of treatment of a disorder associated with PINK1 kinase activity. In still further embodiments, the mammal has been diagnosed with a need for treatment of a disorder associated with PINK1 kinase activity prior to the administering step. [0536] In various embodiments, the disclosed pharmaceutical compositions comprise the disclosed compounds (including pharmaceutically acceptable salt(s) thereof) as an active ingredient, a pharmaceutically acceptable carrier, and, optionally, other therapeutic ingredients or adjuvants. The instant compositions include those suitable for oral, rectal, topical, and parenteral (including subcutaneous, intramuscular, and intravenous) administration, although the most suitable route in any given case will depend on the particular host, and nature and severity of the conditions for which the active ingredient is being administered. The pharmaceutical compositions can be conveniently presented in unit dosage form and prepared by any of the methods well known in the art of pharmacy. Docket No. MITO-010-PCT PCT APPLICATION [0537] The pharmaceutical compositions typically include one or more compounds described herein, which can be used in combination with one another and/or with other active agents known to be useful in treating a disease associated neurodegeneration (e.g., Parkinson’s disease, such as levodopa or amantadine, dopamine agonists (e.g., bromocriptine, pergolide, pramipexole, ropinirole, piribedil, cabergoline, apomorphine, lisuride, tetrabenazine), MAO- B modulators (e.g., selegiline or rasagiline), amantadine, anticholinergics, antipsychotics (e.g., clozapine, haloperidol), cholinesterase modulators, modafinil, or non-steroidal anti- inflammatory drugs), or with adjunctive agents that may not be effective alone, but may contribute to the efficacy of the active agent. The pharmaceutical compositions may also inclue one or more active agents known to be useful in treating a cardiomyopathy such as Angiotensin Converting Enzyme Modulators (e.g., Enalipril, Lisinopril), Angiotensin Receptor Blockers (e.g., Losartan, Valsartan), Beta Blockers (e.g., Lopressor, Toprol-XL), Digoxin, or Diuretics (e.g., Lasixdisease associated neurodegeneration, such as those described above. [0538] The pharmaceutical compositions comprise may, additionally or alternatively, include one or more active agent selected from "cognitive enhancing drugs," such as those that improve impaired human cognitive abilities of the brain (namely, thinking, learning, and memory). Cognitive enhancing drugs may work by altering the availability of neurochemicals (e.g., neurotransmitters, enzymes, and hormones), by improving oxygen supply, by stimulating nerve growth, or by inhibiting nerve damage. Examples of cognitive enhancing drugs include a compound that increases the activity of acetylcholine such as, but not limited to, an acetylcholine receptor agonist (e.g., a nicotinic α-7 receptor agonist or allosteric modulator, an α4β2 nicotinic receptor agonist or allosteric modulators), an acetylcholinesterase inhibitor (e.g., donepezil, rivastigmine, and galantamine), a butyrylcholinesterase inhibitor, an N-methyl-D-aspartate (NMDA) receptor antagonist (e.g., memantine), an activity-dependent neuroprotective protein (ADNP) agonist, a serotonin 5- HT1A receptor agonist (e.g., xaliproden), a 5-HT4 receptor agonist, a 5-HT6 receptor antagonist, a serotonin 1A receptor antagonist, a histamine H3 receptor antagonist, a calpain inhibitor, a vascular endothelial growth factor (VEGF) protein or agonist, a trophic growth factor, an anti-apoptotic compound, an AMPA-type glutamate receptor activator, a L-type or N-type calcium channel blocker or modulator, a potassium channel blocker, a hypoxia inducible factor (HIF) activator, a HIF prolyl 4-hydroxylase inhibitor, an antiinflammatory agent, an inhibitor of amyloid Aβ peptide or amyloid plaque, an inhibitor of tau hyperphosphorylation, a phosphodiesterase 5 inhibitor (e.g., tadalafil, sildenafil), a Docket No. MITO-010-PCT PCT APPLICATION phosphodiesterase 4 inhibitor, a monoamine oxidase inhibitor, or pharmaceutically acceptable salt thereof. Specific examples of such cognitive enhancing drugs include, but are not limited to, cholinesterase inhibitors such as donepezil (Aricept®), rivastigmine (Exelon®), galanthamine (Reminyl®), N-methyl-D-aspartate antagonists such as memantine (Namenda®). At least one cognitive enhancing drug can be administered simultaneously with the antibodies of the present invention or sequentially with the antibodies of the present invention (and in any order) including those agents currently recognized, or in the future being recognized, as useful to treat the disease or condition being treated by an antibody of the present invention). Additionally, it is believed that the combinations described herein may have additive or synergistic effects when used in the abovedescribed treatment. The additional agent also can be an agent that imparts a beneficial attribute to the therapeutic composition, e.g., an agent that affects the viscosity of the composition. [0539] In some embodiments, co-administration includes administering one active agent within about 0.5, 1, 2, 4, 6, 8, 10, 12, 16, 20, or 24 hours of a second active agent. Co- administration includes administering two active agents simultaneously, approximately simultaneously (e.g., within about 1, 5, 10, 15, 20, or 30 minutes of each other), or sequentially in any order. In embodiments, co-administration can be accomplished by co- formulation, i.e., preparing a single pharmaceutical composition including both active agents. In other embodiments, the active agents can be formulated separately. In embodiments, the active and/or adjunctive agents may be linked or conjugated to one another. In embodiments, the compounds described herein may be combined with treatments for neurodegeneration such as surgery. In some embodiments, the compounds described herein may be combined with treatments for cardiomyopathy such as surgery. [0540] In certain embodiments, provided is a method by administering any of the pharmaceutical compositions disclosed herein, wherein the pharmaceutical composition may include two or more compounds disclosed herein. In some cases, one of the compounds in the pharmaceutical compositions is one of the above disclosed active agents known to be useful in treating a disease associated neurodegeneration. In further embodiments, provided is a method of treatment comprising manufacturing and/or synthesizing one or more of compound disclosed herein (e.g., a compound, including final compounds (such as, the pyrrolopyridine compounds disclosed herein), intermediate compounds disclosed herein, and salts thereof); and administering any of the pharmaceutical compositions disclosed herein, wherein the pharmaceutical composition may include one or more of the compounds disclosed herein. Docket No. MITO-010-PCT PCT APPLICATION [0541] The choice of carrier will be determined in part by the particular method used to administer the composition. Accordingly, there is a wide variety of suitable formulations of the pharmaceutical composition of the present invention. The following formulations for oral, aerosol, parenteral, subcutaneous, intravenous, intraarterial, intramuscular, intraperitoneal, intrathecal, rectal, and vaginal administration are merely exemplary and are in no way limiting. [0542] Formulations suitable for oral administration can consist of (a) liquid solutions, such as an effective amount of the compound dissolved in diluents, such as water, saline, or orange juice; (b) capsules, sachets, tablets, lozenges, and troches, each containing a predetermined amount of the active ingredient, as solids or granule; (c) powders; (d) suspensions in an appropriate liquid; and (e) suitable emulsions. Liquid formulations may include diluents, such as water, cyclodextrin, dimethyl sulfoxide and alcohols, for example, ethanol, benzyl alcohol, propylene glycol, glycerin, and the polyethylene alcohols including polyethylene glycol, either with or without the addition of a pharmaceutically acceptable surfactant, suspending agent, or emulsifying agent. Capsule forms can be of the ordinary hard-or soft- shelled gelatin type containing, for example, surfactants, lubricants, and inert fillers, such as lactose, sucrose, calcium phosphate, and corn starch. Tablet forms can include one or more of the following: lactose, sucrose, mannitol, corn starch, potato starch, alginic acid, microcrystalline cellulose, acacia, gelatin, guar gum, colloidal silicon dioxide, croscarmellose sodium, talc, magnesium stearate, calcium stearate, zinc stearate, stearic acid, and other excipients, colorants, diluents, buffering agents, disintegrating agents, moistening agents, preservatives, flavoring agents, and pharmacologically compatible carriers. Lozenge forms can comprise the active ingredient in a flavor, usually sucrose and acacia or tragacanth, as well as pastilles comprising the active ingredient in an inert base, such as gelatin and glycerin, or sucrose and acadia, emulsions, and gels containing, the addition to the active ingredient in an inert base, such as gelatin and glycerin, or sucrose and acadia, emulsions, and gels containing, in addition to the active ingredient, such carriers as are known in the art. [0543] The compounds prepared by the methods of the present disclosure, alone or in combination with other suitable components, can be made into aerosol formulations to be administered via inhalation. These aerosol formulations can be placed into pressurized acceptable propellants, such as dichlorodifluoromethane, propane, and nitrogen. They also may be formulated as pharmaceuticals for non-pressured preparations, such as in a nebulizer or an atomizer. Docket No. MITO-010-PCT PCT APPLICATION [0544] Formulations suitable for parenteral administration include aqueous and non-aqueous, isotonic sterile injection solutions, which can contain anti-oxidants, buffers, bacteriostats, and solutes that render the formulation isotonic with the blood of the intended recipient, and aqueous and non-aqueous sterile suspensions that can include suspending agents, solubilizers, thickening agents, stabilizers, and preservatives. The compound can be administered in a physiologically acceptable diluent in a pharmaceutical carrier, such as a sterile liquid or mixture of liquids, including water, saline, aqueous dextrose and related sugar solutions, an alcohol, such as ethanol, isopropanol, or hexadecyl alcohol, glycols, such as propylene glycol or polyethylene glycol such as poly(ethyleneglycol) 400, glycerol ketals, such as 2,2- dimethyl-1, 3-dioxolane-4-methanol, ethers, an oil, a fatty acid, a fatty acid ester or glyceride, or an acetylated fatty acid glyceride with or without the addition of a pharmaceutically acceptable surfactant, such as a soap or a detergent, suspending agent, such as pectin, carbomers, methylcellulose, hydroxypropylmethylcellulose, or carboxymethylcelluslose, or emulsifying agents and other pharmaceutical adjuvants. [0545] Oils that can be used in parenteral formulations include petroleum, animal, vegetable, or synthetic oils. Specific examples of oils include peanut, soybean, sesame, cottonseed, corn, olive, petrolatum, and mineral. Suitable fatty acids for use in parenteral formulations include oleic acid, stearic acid, and isostearic acid. Ethyl oleate and isopropyl myristate are examples of suitable fatty acid esters. Suitable soaps for use in parenteral formulations include fatty alkali metal, ammonium, and triethanolamine salts, and suitable detergents include (a) cationic detergents such as, for example. dimethyldialkylammonium halides, and alkylpyridinium halides, (b) anionic detergents such as, for example, alkyl, aryl, and olefin sulfonates, alkyl olefin, ether, and monoglyceride sulfates, and sulfosuccinates, (c) nonionic detergents such as, for example, fatty amine oxides, fatty acid alkanolamides, and polyoxyethylene polypropylene copolymers, (d) amphoteric detergents such as, for example, alkyl β-aminopropionates, and 2-alkylimidazoline quaternary ammonium salts, and (e) mixtures thereof. [0546] The parenteral formulations typically contain from about 0.5% to about 25% by weight of the active ingredient in solution. Suitable preservatives and buffers can be used in such formulations. In order to minimize or eliminate irritation at the site of injection, such compositions may contain one or more nonionic surfactants having a hydrophile-lipophile balance (HLB) of from about 12 to about 17. The quantity of surfactant in such formulations ranges from about 5% to about 15% by weight. Suitable surfactants include polyethylene sorbitan fatty acid esters, such as sorbitan monooleate and the high molecular weight adducts Docket No. MITO-010-PCT PCT APPLICATION of ethylene oxide with a hydrophobic base, formed by the condensation of propylene oxide with propylene glycol. [0547] For parenteral administration of the the pharmaceutical composition (including subcutaneous, intradermal, intravenous, intramuscular, and intraperitoneal), the pharmaceutical composition may be an aqueous or an oil-based composition. Aqueous compositions may include a sterile diluent such as water, saline solution, a pharmaceutically acceptable polyol such as glycerol, propylene glycol, or other synthetic solvents; an antibacterial and/or antifungal agent such as benzyl alcohol, methyl paraben, chlorobutanol, phenol, thimerosal, and the like; an antioxidant such as ascorbic acid or sodium bisulfite; a chelating agent such as etheylenediaminetetraacetic acid; a buffer such as acetate, citrate, or phosphate; and/or an agent for the adjustment of tonicity such as sodium chloride, dextrose, or a polyalcohol such as mannitol or sorbitol. The pH of the aqueous solution may be adjusted with acids or bases such as hydrochloric acid or sodium hydroxide. Oil-based compositions (e.g., solutions or suspensions) may further comprise sesame, peanut, olive oil, or mineral oil. The pharmaceutical compositions may be presented in unit-dose or multi-dose containers, for example sealed ampoules and vials, and may be stored in a freeze-dried (lyophilized) condition requiring only the addition of the sterile liquid carried, for example, water for injections, immediately prior to use. Extemporaneous injection solutions and suspensions may be prepared from sterile powders, granules, and tablets. [0548] Pharmaceutically acceptable excipients are also well-known to those who are skilled in the art. The choice of excipient will be determined in part by the particular compound, as well as by the particular method used to administer the composition. Accordingly, there is a wide variety of suitable formulations of the pharmaceutical composition of the present disclosure. The following methods and excipients are merely exemplary and are in no way limiting. The pharmaceutically acceptable excipients preferably do not interfere with the action of the active ingredients and do not cause adverse side-effects. Suitable carriers and excipients include solvents such as water, alcohol, and propylene glycol, solid absorbants and diluents, surface active agents, suspending agent, tableting binders, lubricants, flavors, and coloring agents. [0549] Non-limiting examples of suitable compressible diluents include microcrystalline cellulose (MCC), cellulose derivatives, cellulose powder, cellulose esters (i.e., acetate and butyrate mixed esters), ethyl cellulose, methyl cellulose, hydroxypropyl cellulose, hydroxypropyl methylcellulose, sodium carboxymethylcellulose, corn starch, phosphated corn starch, pregelatinized corn starch, rice starch, potato starch, tapioca starch, starch- Docket No. MITO-010-PCT PCT APPLICATION lactose, starch-calcium carbonate, sodium starch glycolate, glucose, fructose, lactose, lactose monohydrate, sucrose, xylose, lactitol, mannitol, malitol, sorbitol, xylitol, maltodextrin, and trehalose. Non-limiting examples of suitable abrasively brittle diluents include dibasic calcium phosphate (anhydrous or dihydrate), calcium phosphate tribasic, calcium carbonate, and magnesium carbonate. [0550] In another embodiment, the excipient may be a binder. Suitable binders include, but are not limited to, starches, pregelatinized starches, gelatin, polyvinylpyrrolidone, cellulose, methylcellulose, sodium carboxymethylcellulose, ethylcellulose, polyacrylamides, polyvinyloxoazolidone, polyvinylalcohols, C 12 -C 18 fatty acid alcohol, polyethylene glycol, polyols, saccharides, and combinations of two or more thereof. [0551] In a further embodiment, the excipient may be a filler. Examples of fillers include, but are not limited to, carbohydrates, inorganic compounds, and polyvinylpyrrolidone. By way of non-limiting example, the filler may be calcium sulfate, both di- and tri-basic, starch, calcium carbonate, magnesium carbonate, microcrystalline cellulose, dibasic calcium phosphate, magnesium carbonate, magnesium oxide, calcium silicate, talc, modified starches, lactose, sucrose, mannitol, sorbitol, or a combination thereof. [0552] In still another embodiment, the excipient may be a buffering agent. Non-limiting examples of suitable buffering agents include, but are not limited to, phosphates, carbonates, citrates, tris buffers, and buffered saline salts (e.g., Tris buffered saline or phosphate buffered saline). In various embodiments, the excipient may be a pH modifier. By way of non-limiting example, the pH modifying agent may be sodium carbonate, sodium bicarbonate, sodium citrate, citric acid, and/or phosphoric acid. In a further embodiment, the excipient may be a disintegrant. The disintegrant may be non-effervescent or effervescent. Examples of non- effervescent disintegrants include, but are not limited to, starches such as corn starch, potato starch, pregelatinized and modified starches thereof, sweeteners, clays, such as bentonite, micro-crystalline cellulose, alginates, sodium starch glycolate, gums such as agar, guar, locust bean, karaya, pecitin, and tragacanth. Non-limiting examples of effervescent disintegrants include sodium bicarbonate in combination with citric acid and sodium bicarbonate in combination with tartaric acid. [0553] In another alternate embodiment, the excipient may be a preservative. Non-limiting examples of suitable preservatives include antioxidants, such as BHA, BHT, vitamin A, vitamin C, vitamin E, or retinyl pa Imitate, citric acid, sodium citrate; chelators such as EDTA or EGTA; and antimicrobials, such as parabens, chlorobutanol, or phenol. Docket No. MITO-010-PCT PCT APPLICATION [0554] In a further embodiment, the excipient may be a lubricant. Nonlimiting examples of suitable lubricants include minerals such as talc or silica; and fats such as vegetable stearin, magnesium stearate, or stearic acid. [0555] In an alternate embodiment, the excipient may be a flavoring agent. Flavoring agents may be chosen from synthetic flavor oils and flavoring aromatics and/or natural oils, extracts from plants, leaves, flowers, fruits, and combinations thereof. [0556] In still a further embodiment, the excipient may comrpise a coloring agent. Suitable color additives include, but are not limited to, food, drug and cosmetic colors (FD&C), drug and cosmetic colors (D&C), or external drug and cosmetic colors (Ext. D&C). [0557] The formulations can be presented in unit-dose or multi-dose sealed containers, such as ampules and vials, and can be stored in a freeze-dried (lyophilized) condition requiring only the addition of the sterile liquid excipient, for example, water, for injections, immediately prior to use. Extemporaneous injection solutions and suspensions can be prepared from sterile powders, granules, and tablets. The requirements for effective pharmaceutical carriers for injectable compositions are well known to those of ordinary skill in the art. See Pharmaceutics and Pharmacy Practice, J.B. Lippincott Co., Philadelphia, PA, Banker and Chalmers, Eds., 238-250 (1982) and ASHP Handbook on Injectable Drugs, Toissel, 4 th ed., 622-630 (1986). [0558] Formulations suitable for topical administration include lozenges comprising the active ingredient in a flavor, usually sucrose and acacia or tragacanth; pastilles comprising the active ingredient in an inert base, such as gelatin and glycerin, or sucrose and acacia; and mouthwashes comprising the active ingredient in a suitable liquid carrier; as well as creams, emulsions, and gels containing, in addition to the active ingredient, such carriers as are known in the art. [0559] Additionally, formulations suitable for rectal administration may be presented as suppositories by mixing with a variety of bases such as emulsifying bases or water-soluble bases. Formulations suitable for vaginal administration may be presented as pessaries, tampons, creams, gels, pastes, foams, or spray formulas containing, in addition to the active ingredient, such carriers as are known in the art to be appropriate. [0560] One skilled in the art will appreciate that suitable methods of exogenously administering a compound of the present disclosure to an animal are available, and, although more than one route can be used to administer a particular compound, a particular route can provide a more immediate and more effective reaction than another route. Docket No. MITO-010-PCT PCT APPLICATION [0561] As regards these applications, the present method includes the administration to an animal, particularly a mammal, and more particularly a human, of a therapeutically effective amount of the compound effective in the treatment (e.g., prophylactic or therapeutic) of a disorder associated with PINK1 kinase activity. The method also includes the administration of a therapeutically effect amount of the compound for the treatment of patient having a predisposition for being afflicted with a disorder associated with PINK1 kinase activity. The dose administered to an animal, particularly a human, in the context of the present invention should be sufficient to affect a therapeutic response in the animal over a reasonable timeframe. One skilled in the art will recognize that dosage will depend upon a variety of factors including the condition of the animal, the body weight of the animal, as well as the severity and stage of the disorder. [0562] The total amount of the compound of the present disclosure administered in a typical treatment is preferably from about 1 mg/kg to about 100 mg/kg of body weight for mice, and from about 10 mg/kg to about 50 mg/kg of body weight, and from about 20 mg/kg to about 40 mg/kg of body weight for humans per daily dose. This total amount is typically, but not necessarily, administered as a series of smaller doses over a period of about one time per day to about three times per day for about 24 months, and over a period of twice per day for about 12 months. [0563] The one or more compound(s) (e.g., a pyrrolopyridine compound disclosed herein, an intermediate compound disclosed herein, and/or a salt htereof) of the present disclosure may be administered in an amount from about 1 μg/kg to about 500 mg/kg. In some embodiments, a compound disclosed herein may be administered in an amount (e.g., present in the pharmaceutical composition in an amount) from about 1 mg/kg to about 500 mg/kg, about 1 to about 450 mg/kg, about 1 to about 400 mg/kg, about 1 to about 350 mg/kg, about 1 to about 300 mg/kg, about 1 to about 250 mg/kg, about 1 to about 200 mg/kg, about 1 to about 150 mg/kg, about 1 to about 125 mg/kg, about 1 to about 100 mg/kg, about 1 to about 80 mg/kg, about 1 to about 60 mg/kg, about 1 to about 50 mg/kg, about 1 to about 40 mg/kg, about 1 to about 30 mg/kg, about 1 to about 20 mg/kg, about 1 to about 10 mg/kg, about 1 to about 5 mg/kg; from about 20 to about 500 mg/kg, about 20 to about 450 mg/kg, about 20 to about 400 mg/kg, about 20 to about 350 mg/kg, about 20 to about 300 mg/kg, about 20 to about 250 mg/kg, about 20 to about 200 mg/kg, about 20 to about 150 mg/kg, about 20 to about 125 mg/kg, about 20 to about 100 mg/kg, about 20 to about 80 mg/kg, about 20 to about 60 mg/kg, about 20 to about 50 mg/kg; from about 60 to about 500 mg/kg, about 60 to about 450 mg/kg, about 60 to about 400 mg/kg, about 60 to about 350 mg/kg, about 60 to Docket No. MITO-010-PCT PCT APPLICATION about 300 mg/kg, about 60 to about 250 mg/kg, about 60 to about 200 mg/kg, about 60 to about 150 mg/kg, about 60 to about 125 mg/kg, about 60 to about 100 mg/kg; from about 120 to about 500 mg/kg, about 120 to about 450 mg/kg, about 120 to about 400 mg/kg, about 120 to about 350 mg/kg, about 120 to about 300 mg/kg, about 120 to about 250 mg/kg, about 120 to about 200 mg/kg; from about 180 to about 500 mg/kg, about 180 to about 450 mg/kg, about 180 to about 400 mg/kg, about 180 to about 350 mg/kg, about 180 to about 300 mg/kg, about 180 to about 250 mg/kg; from about 240 to about 500 mg/kg, about 240 to about 450 mg/kg, about 240 to about 400 mg/kg, about 240 to about 350 mg/kg, about 240 to about 300 mg/kg; from about 300 to about 500 mg/kg, about 300 to about 450 mg/kg, about 300 to about 400 mg/kg, about 300 to about 350 mg/kg; from about 360 to about 500 mg/kg, about 360 to about 450 mg/kg, about 360 to about 400 mg/kg, about 400 to about 500 mg/kg, about 450 to about 500 mg/kg, or any range or subrange thereof. In any of the above, kg is a kilograms of a subject administered the any of the pharmaceutical compositions or compositions disclosed herein. [0564] In additional embodiments, a compound disclosed herein may be administered in an amount (e.g., present in the pharmaceutical composition in an amount) from about 1 mg to about 500 mg, about 1 to about 450 mg, about 1 to about 400 mg, about 1 to about 350 mg, about 1 to about 300 mg, about 1 to about 250 mg, about 1 to about 200 mg, about 1 to about 150 mg, about 1 to about 125 mg, about 1 to about 100 mg, about 1 to about 80 mg, about 1 to about 60 mg, about 1 to about 50 mg, about 1 to about 40 mg, about 1 to about 30 mg, about 1 to about 20 mg, about 1 to about 10 mg, about 1 to about 5 mg; from about 20 to about 500 mg, about 20 to about 450 mg, about 20 to about 400 mg, about 20 to about 350 mg, about 20 to about 300 mg, about 20 to about 250 mg, about 20 to about 200 mg, about 20 to about 150 mg, about 20 to about 125 mg, about 20 to about 100 mg, about 20 to about 80 mg, about 20 to about 60 mg, about 20 to about 50 mg; from about 60 to about 500 mg, about 60 to about 450 mg, about 60 to about 400 mg, about 60 to about 350 mg, about 60 to about 300 mg, about 60 to about 250 mg, about 60 to about 200 mg, about 60 to about 150 mg, about 60 to about 125 mg, about 60 to about 100 mg; from about 120 to about 500 mg, about 120 to about 450 mg, about 120 to about 400 mg, about 120 to about 350 mg, about 120 to about 300 mg, about 120 to about 250 mg, about 120 to about 200 mg; from about 180 to about 500 mg, about 180 to about 450 mg, about 180 to about 400 mg, about 180 to about 350 mg, about 180 to about 300 mg, about 180 to about 250 mg; from about 240 to about 500 mg, about 240 to about 450 mg, about 240 to about 400 mg, about 240 to about 350 mg, about 240 to about 300 mg; from about 300 to about 500 mg, about 300 to about 450 mg, Docket No. MITO-010-PCT PCT APPLICATION about 300 to about 400 mg, about 300 to about 350 mg; from about 360 to about 500 mg, about 360 to about 450 mg, about 360 to about 400 mg, about 400 to about 500 mg, about 450 to about 500 mg, or any range or subrange thereof. [0565] In further embodiments, a compound disclosed herein may be administered in an amount (e.g., present in the pharmaceutical composition in an amount) from about 1 μg/kg to about 1 mg/kg, about 1 to about 900 μg/kg, about 1 to about 850 μg/kg, about 1 to about 800 μg/kg, about 1 to about 750 μg/kg, about 1 to about 700 μg/kg, about 1 to about 650 μg/kg, about 1 to about 600 μg/kg, about 1 to about 550 μg/kg, about 1 to about 500 μg/kg, about 1 to about 450 μg/kg, about 1 to about 400 μg/kg, about 1 to about 350 μg/kg, about 1 to about 300 μg/kg, about 1 to about 250 μg/kg, about 1 to about 200 μg/kg, about 1 to about 150 μg/kg, about 1 to about 100 μg/kg, about 1 to about 50 μg/kg, about 1 to about 30 μg/kg, about 1 to about 20 μg/kg, about 1 to about 100 μg/kg; from about 50 μg/kg to about 1 mg/kg, about 50 to about 900 μg/kg, about 50 to about 850 μg/kg, about 50 to about 800 μg/kg, about 50 to about 750 μg/kg, about 50 to about 700 μg/kg, about 50 to about 650 μg/kg, about 50 to about 600 μg/kg, about 50 to about 550 μg/kg, about 50 to about 500 μg/kg, about 50 to about 450 μg/kg, about 50 to about 400 μg/kg, about 50 to about 350 μg/kg, about 50 to about 300 μg/kg, about 50 to about 250 μg/kg, about 50 to about 200 μg/kg, about 50 to about 150 μg/kg, about 50 to about 100 μg/kg; from about 100 μg/kg to about 1 mg/kg, about 100 to about 900 μg/kg, about 100 to about 850 μg/kg, about 100 to about 800 μg/kg, about 100 to about 750 μg/kg, about 100 to about 700 μg/kg, about 100 to about 650 μg/kg, about 100 to about 600 μg/kg, about 100 to about 550 μg/kg, about 100 to about 500 μg/kg, about 100 to about 450 μg/kg, about 100 to about 400 μg/kg, about 100 to about 350 μg/kg, about 100 to about 300 μg/kg, about 100 to about 250 μg/kg, about 100 to about 200 μg/kg, about 100 to about 150 μg/kg; from about 150 μg/kg to about 1 mg/kg, about 150 to about 900 μg/kg, about 150 to about 850 μg/kg, about 150 to about 800 μg/kg, about 150 to about 750 μg/kg, about 150 to about 700 μg/kg, about 150 to about 650 μg/kg, about 150 to about 600 μg/kg, about 150 to about 550 μg/kg, about 150 to about 500 μg/kg, about 150 to about 450 μg/kg, about 150 to about 400 μg/kg, about 150 to about 350 μg/kg, about 150 to about 300 μg/kg, about 150 to about 250 μg/kg; from about 200 μg/kg to about 1 mg/kg, about 200 to about 900 μg/kg, about 200 to about 850 μg/kg, about 200 to about 800 μg/kg, about 200 to about 750 μg/kg, about 200 to about 700 μg/kg, about 200 to about 650 μg/kg, about 200 to about 600 μg/kg, about 200 to about 550 μg/kg, about 200 to about 500 μg/kg, about 200 to about 450 μg/kg, about 200 to about 400 μg/kg, about 200 to about 350 μg/kg, about 200 to about 300 μg/kg, about 200 to about 250 μg/kg; from about 300 Docket No. MITO-010-PCT PCT APPLICATION μg/kg to about 1 mg/kg, about 300 to about 900 μg/kg, about 300 to about 850 μg/kg, about 300 to about 800 μg/kg, about 300 to about 750 μg/kg, about 300 to about 700 μg/kg, about 300 to about 650 μg/kg, about 300 to about 600 μg/kg, about 300 to about 550 μg/kg, about 300 to about 500 μg/kg, about 300 to about 450 μg/kg, about 300 to about 400 μg/kg; from about 400 μg/kg to about 1 mg/kg, about 400 to about 900 μg/kg, about 400 to about 850 μg/kg, about 400 to about 800 μg/kg, about 400 to about 750 μg/kg, about 400 to about 700 μg/kg, about 400 to about 650 μg/kg, about 400 to about 600 μg/kg, about 400 to about 550 μg/kg, about 400 to about 500 μg/kg; from about 500 μg/kg to about 1 mg/kg, about 500 to about 900 μg/kg, about 500 to about 850 μg/kg, about 500 to about 800 μg/kg, about 500 to about 750 μg/kg, about 500 to about 700 μg/kg, about 500 to about 650 μg/kg, about 500 to about 600 μg/kg; from about 600 μg/kg to about 1 mg/kg, about 600 to about 900 μg/kg, about 600 to about 850 μg/kg, about 600 to about 800 μg/kg, about 600 to about 750 μg/kg, about 600 to about 700 μg/kg, about 600 to about 650 μg/kg, about 600 to about 600 μg/kg; from about 700 μg/kg to about 1 mg/kg, about 700 to about 900 μg/kg, about 700 to about 850 μg/kg, about 700 to about 800 μg/kg; from about 800 μg/kg to about 1 mg/kg, about 800 to about 900 μg/kg, about 800 to about 850 μg/kg, about 90 μg/kg to about 1 mg/kg, or any range or subrange thereof. The use of kg above is kilograms of a subject to whom the composition or pharmaceutical composition is administered. [0566] In yet further embodiments, a compound disclosed herein may be administered in an amount (e.g., present in the pharmaceutical composition in an amount) from about 1 μg to about 1 mg, about 1 to about 900 μg, about 1 to about 850 μg, about 1 to about 800 μg, about 1 to about 750 μg, about 1 to about 700 μg, about 1 to about 650 μg, about 1 to about 600 μg, about 1 to about 550 μg, about 1 to about 500 μg, about 1 to about 450 μg, about 1 to about 400 μg, about 1 to about 350 μg, about 1 to about 300 μg, about 1 to about 250 μg, about 1 to about 200 μg, about 1 to about 150 μg, about 1 to about 100 μg, about 1 to about 50 μg, about 1 to about 30 μg, about 1 to about 20 μg, about 1 to about 100 μg; from about 50 μg to about 1 mg, about 50 to about 900 μg, about 50 to about 850 μg, about 50 to about 800 μg, about 50 to about 750 μg, about 50 to about 700 μg, about 50 to about 650 μg, about 50 to about 600 μg, about 50 to about 550 μg, about 50 to about 500 μg, about 50 to about 450 μg, about 50 to about 400 μg, about 50 to about 350 μg, about 50 to about 300 μg, about 50 to about 250 μg, about 50 to about 200 μg, about 50 to about 150 μg, about 50 to about 100 μg; from about 100 μg to about 1 mg, about 100 to about 900 μg, about 100 to about 850 μg, about 100 to about 800 μg, about 100 to about 750 μg, about 100 to about 700 μg, about 100 to about 650 μg, about 100 to about 600 μg, about 100 to about 550 μg, about 100 to about 500 μg, about Docket No. MITO-010-PCT PCT APPLICATION 100 to about 450 μg, about 100 to about 400 μg, about 100 to about 350 μg, about 100 to about 300 μg, about 100 to about 250 μg, about 100 to about 200 μg, about 100 to about 150 μg; from about 150 μg to about 1 mg, about 150 to about 900 μg, about 150 to about 850 μg, about 150 to about 800 μg, about 150 to about 750 μg, about 150 to about 700 μg, about 150 to about 650 μg, about 150 to about 600 μg, about 150 to about 550 μg, about 150 to about 500 μg, about 150 to about 450 μg, about 150 to about 400 μg, about 150 to about 350 μg, about 150 to about 300 μg, about 150 to about 250 μg; from about 200 μg to about 1 mg, about 200 to about 900 μg, about 200 to about 850 μg, about 200 to about 800 μg, about 200 to about 750 μg, about 200 to about 700 μg, about 200 to about 650 μg, about 200 to about 600 μg, about 200 to about 550 μg, about 200 to about 500 μg, about 200 to about 450 μg, about 200 to about 400 μg, about 200 to about 350 μg, about 200 to about 300 μg, about 200 to about 250 μg; from about 300 μg to about 1 mg, about 300 to about 900 μg, about 300 to about 850 μg, about 300 to about 800 μg, about 300 to about 750 μg, about 300 to about 700 μg, about 300 to about 650 μg, about 300 to about 600 μg, about 300 to about 550 μg, about 300 to about 500 μg, about 300 to about 450 μg, about 300 to about 400 μg; from about 400 μg to about 1 mg, about 400 to about 900 μg, about 400 to about 850 μg, about 400 to about 800 μg, about 400 to about 750 μg, about 400 to about 700 μg, about 400 to about 650 μg, about 400 to about 600 μg, about 400 to about 550 μg, about 400 to about 500 μg; from about 500 μg to about 1 mg, about 500 to about 900 μg, about 500 to about 850 μg, about 500 to about 800 μg, about 500 to about 750 μg, about 500 to about 700 μg, about 500 to about 650 μg, about 500 to about 600 μg; from about 600 μg to about 1 mg, about 600 to about 900 μg, about 600 to about 850 μg, about 600 to about 800 μg, about 600 to about 750 μg, about 600 to about 700 μg, about 600 to about 650 μg, about 600 to about 600 μg; from about 700 μg to about 1 mg, about 700 to about 900 μg, about 700 to about 850 μg, about 700 to about 800 μg; from about 800 μg to about 1 mg, about 800 to about 900 μg, about 800 to about 850 μg, about 90 μg to about 1 mg, or any range or subrange thereof. [0567] The pyrrolopyridine compound(s) of the present disclosure may be administered in an amount of 1 μM or more, 2 μM or more, about 5 μM or more, about 10 μM or more, about 14 μM or more, about 18 μM or more, about 22 μM or more, about 25 μM or more, about 28 μM or more, about 31 μM or more, about 35 μM or more, about 40 μM or more, or about 45 μM or more. For example, the amount of pyrrolopyridine compound(s) of the present disclosure administered in a dose may be from about 1 to about 45 μM. In some embodiments, the the amount of pyrrolopyridine compound(s) of the present disclosure administered in a dose is from about 1 to about 45 μM, about 1 to about 40 μM, about 1 to Docket No. MITO-010-PCT PCT APPLICATION about 35 μM, about 1 to about 32 μM, about 1 to about 29 μM, about 1 to about 26 μM, about 1 to about 23 μM, about 1 to about 20 μM, about 1 to about 17 μM, about 1 to about 12 μM, about 1 to about 7 μM; from about 5 to about 45 μM, about 5 to about 40 μM, about 5 to about 35 μM, about 5 to about 32 μM, about 5 to about 29 μM, about 5 to about 26 μM, about 5 to about 23 μM, about 5 to about 20 μM, about 5 to about 17 μM, about 5 to about 12 μM; from about 9 to about 45 μM, about 9 to about 40 μM, about 9 to about 35 μM, about 9 to about 32 μM, about 9 to about 29 μM, about 9 to about 26 μM, about 9 to about 23 μM, about 9 to about 20 μM, about 9 to about 17 μM; from about 13 to about 45 μM, about 13 to about 40 μM, about 13 to about 35 μM, about 13 to about 32 μM, about 13 to about 29 μM, about 13 to about 26 μM, about 13 to about 23 μM, about 13 to about 20 μM; from about 17 to about 45 μM, about 17 to about 40 μM, about 17 to about 35 μM, about 17 to about 32 μM, about 17 to about 29 μM, about 17 to about 26 μM, about 17 to about 23 μM, about 17 to about 20 μM; from about 21 to about 45 μM, about 21 to about 40 μM, about 21 to about 35 μM, about 21 to about 32 μM, about 21 to about 29 μM, about 21 to about 26 μM, about 21 to about 23 μM; from about 23 to about 45 μM, about 23 to about 40 μM, about 23 to about 35 μM, about 23 to about 32 μM, about 23 to about 29 μM, about 23 to about 26 μM; from about 25 to about 45 μM, about 25 to about 40 μM, about 25 to about 35 μM, about 25 to about 32 μM, about 25 to about 29 μM, about 25 to about 26 μM; from about 27 to about 45 μM, about 27 to about 40 μM, about 27 to about 35 μM, about 27 to about 32 μM, about 27 to about 29 μM; from about 29 to about 45 μM, about 29 to about 40 μM, about 29 to about 35 μM, about 29 to about 32 μM; from about 32 to about 45 μM, about 32 to about 40 μM, about 32 to about 35 μM; from about 35 to about 45 μM, about 35 to about 40 μM, about 39 to about 45 μM, or any range or subrange thereof. [0568] The size of the dose also will be determined by the route, timing, and frequency of administration as well as the existence, nature and extent of any adverse side effects that might accompany the administration of the compound and the desired physiological effect. It will be appreciated by one of skill in the art that various conditions or disease states, in particular chronic conditions or disease states, may require prolonged treatment involving multiple administrations. [0569] In certain embodiments, a composition described herein is formulated for administration to a patient in need of such composition. Compositions described herein may be administered orally, parenterally, by inhalation spray, topically, rectally, nasally, buccally, vaginally or via an implanted reservoir. The term “parenteral” as used herein includes subcutaneous, intravenous, intramuscular, intra-articular, intra-synovial, intrasternal, Docket No. MITO-010-PCT PCT APPLICATION intrathecal, intrahepatic, intralesional and intracranial injection or infusion techniques. In some embodiments, the compositions are administered orally, intraperitoneally or intravenously. Sterile injectable forms of the compositions described herein may be aqueous or oleaginous suspension. These suspensions may be formulated according to techniques known in the art using suitable dispersing or wetting agents and suspending agents. [0570] A specific dosage and treatment regimen for any particular patient will depend upon a variety of factors, including the activity of the specific compound employed, the age, body weight, general health, sex, diet, time of administration, rate of excretion, drug combination, and the judgment of the treating physician and the severity of the particular disease being treated. The amount of a compound described herein in the composition will also depend upon the particular compound in the composition. [0571] A compound described herein can be administered alone or can be coadministered with an additional therapeutic agent. Thus, the preparations can also be combined, when desired, with other active substances (e.g., to reduce metabolic degradation). Additional therapeutic agents include, but are not limited to, other active agents known to be useful in treating a disease associated neurodegeneration (e.g., Parkinson’s disease such as levodopa), dopamine agonists (e.g., bromocriptine, pergolide, pramipexole, ropinirole, piribedil, cabergoline, apomorphine, lisuride), MAO-B modulators (e.g., selegiline or rasagiline), amantadine, anticholinergics, antipsychotics (e.g., clozapine), cholinesterase modulators, modafinil, or non-steroidal anti-inflammatory drugs), Angiotensin Converting Enzyme Modulators (e.g., Enalipril, Lisinopril), Angiotensin Receptor Blockers (e.g., Losartan, Valsartan), Beta Blockers (e.g., Lopressor, Toprol-XL), Digoxin, or Diuretics. [0572] In some embodiments, the compounds described herein can be delivered in a vesicle, in particular a liposome (see, Langer, Science, 1990, 249, 1527-1533; Treat et al., in Liposomes in the Therapy of Infectious Disease and Cancer, Lopez-Berestein and Fidler (eds.), Liss, New York, pp.353-365 (1989); Lopez-Berestein, ibid., pp.317-327; see generally ibid.). [0573] Liposomes may be comprised of a variety of different types of phosolipids having varying hydrocarbon chain lengths. Phospholipids generally comprise two fatty acids linked through glycerol phosphate to one of a variety of polar groups. Suitable phospholids include phosphatidic acid (PA), phosphatidylserine (PS), phosphatidylinositol (PI), phosphatidylglycerol (PG), diphosphatidylglycerol (DPG), phosphatidylcholine (PC), and phosphatidylethanolamine (PE). The fatty acid chains comprising the phospholipids may range from about 6 to about 26 carbon atoms in length, and the lipid chains may be saturated Docket No. MITO-010-PCT PCT APPLICATION or unsaturated. Suitable fatty acid chains include (common name presented in parentheses) n- dodecanoate (laurate), n- tretradecanoate (myristate), n-hexadecanoate (palmitate), n- octadecanoate (stearate), n-eicosanoate (arachidate), n-docosanoate (behenate), n- tetracosanoate (lignocerate), cis-9-hexadecenoate (palmitoleate), cis-9-octadecanoate (oleate), cis,cis-9,12- octadecandienoate (linoleate), all cis-9, 12, 15-octadecatrienoate (linolenate), and all cis-5,8,11 ,14-eicosatetraenoate (arachidonate). The two fatty acid chains of a phospholipid may be identical or different. Acceptable phospholipids include dioleoyl PS, dioleoyl PC, distearoyl PS, distearoyl PC, dimyristoyl PS, dimyristoyl PC, dipalmitoyl PG, stearoyl, oleoyl PS, palmitoyl, linolenyl PS, and the like. [0574] The phospholipids may come from any natural source, and, as such, may comprise a mixture of phospholipids. For example, egg yolk is rich in PC, PG, and PE, soy beans contains PC, PE, PI, and PA, and animal brain or spinal cord is enriched in PS. Phospholipids may come from synthetic sources too. Mixtures of phospholipids having a varied ratio of individual phospholipids may be used. Mixtures of different phospholipids may result in liposome compositions having advantageous activity or stability of activity properties. The above mentioned phospholipids may be mixed, in optimal ratios with cationic lipids, such as N-(1-(2,3-dioleolyoxy)propyl)-N,N,N- trimethyl ammonium chloride, 1 , 1 ’-dioctadecyl- 3,3,3’,3’-tetramethylindocarbocyanine perchloarate, 3,3’-deheptyloxacarbocyanine iodide, 1,T-dedodecyl-3,3,3’,3’- tetramethylindocarbocyanine perchloarate, 1 ,T-dioleyl-3,3,3’,3'- tetramethylindo carbocyanine methanesulfonate, N-4-(delinoleylaminostyryl)-N- methylpyridinium iodide, or 1 ,1,-dilinoleyl-3,3,3’,3’-tetramethylindocarbocyanine perchloarate. [0575] Liposomes may optionally comprise sphingolipids, in which spingosine is the structural counterpart of glycerol and one of the one fatty acids of a phosphoglyceride, or cholesterol, a major component of animal cell membranes. Liposomes may optionally contain pegylated lipids, which are lipids covalently linked to polymers of polyethylene glycol (PEG). PEGs may range in size from about 500 to about 10,000 daltons. Liposomes may further comprise a suitable solvent. The solvent may be an organic solvent or an inorganic solvent. Suitable solvents include, but are not limited to, dimethylsulfoxide (DMSO), methylpyrrolidone, N-methylpyrrolidone, acetro nitrile, alcohols, dimethylformamide, tetrahydrofuran, or combinations thereof. [0576] The liposomes may be prepared by sonicating lipids in an aqueous solution, solvent injection, lipid hydration, reverse evaporation, or freeze drying by repeated freezing and thawing. In a preferred embodiment the liposomes are formed by sonication. The liposomes Docket No. MITO-010-PCT PCT APPLICATION may be multilamellar, which have many layers like an onion, or unilamellar. The liposomes may be large or small. Continued high-shear sonication tends to form smaller unilamellar liposomes. [0577] Suitable compositions include, but are not limited to, oral non-absorbed compositions. Suitable compositions also include, but are not limited to saline, water, cyclodextrin solutions, and buffered solutions of pH 3-9. [0578] The compounds described herein, or pharmaceutically acceptable salts thereof, can be formulated with numerous excipients including, but not limited to, purified water, propylene glycol, PEG 400, glycerin, DMA, ethanol, benzyl alcohol, citric acid/sodium citrate (pH3), citric acid/sodium citrate (pH5), tris(hydroxymethyl)amino methane HCl (pH7.0), 0.9% saline, 1.2% saline, acetate, aspartate, benzenesulfonate, benzoate, besylate, bicarbonate, bitartrate, bromide, camsylate, carbonate, chloride, citrate, decanoate, edetate, esylate, fumarate, gluceptate, gluconate, glutamate, glycolate, hexanoate, hydroxynaphthoate, iodide, isethionate, lactate, lactobionate, malate, maleate, mandelate, mesylate, methylsulfate, mucate, napsylate, nitrate, octanoate, oleate, pamoate, pantothenate, phosphate, polygalacturonate, propionate, salicylate, stearate, succinate, sulfate, tartrate, teoclate, tosylate, and any combination thereof. In some embodiments, excipient is chosen from propylene glycol, purified water, and glycerin. [0579] In some embodiments, the formulation can be lyophilized to a solid and reconstituted with, for example, water prior to use. [0580] When administered to a mammal (e.g., to an animal for veterinary use or to a human for clinical use) the compounds can be administered in isolated form. [0581] When administered to a human, the compounds can be sterile. Water is a suitable carrier when the compound of Formula I is administered intravenously. Saline solutions and aqueous dextrose and glycerol solutions can also be employed as liquid carriers, particularly for injectable solutions. Suitable pharmaceutical carriers also include excipients such as starch, glucose, lactose, sucrose, gelatin, malt, rice, flour, chalk, silica gel, sodium stearate, glycerol monostearate, talc, sodium chloride, dried skim milk, glycerol, propylene, glycol, water, ethanol and the like. The present compositions, if desired, can also contain minor amounts of wetting or emulsifying agents, or pH buffering agents. [0582] The compositions described herein can take the form of a solution, suspension, emulsion, tablet, pill, pellet, capsule, capsule containing a liquid, powder, sustained-release formulation, suppository, aerosol, spray, or any other form suitable for use. Examples of Docket No. MITO-010-PCT PCT APPLICATION suitable pharmaceutical carriers are described in Remington’s Pharmaceutical Sciences, A.R. Gennaro (Editor) Mack Publishing Co. [0583] In some embodiments, the compounds are formulated in accordance with routine procedures as a pharmaceutical composition adapted for administration to humans. Typically, compounds are solutions in sterile isotonic aqueous buffer. Where necessary, the compositions can also include a solubilizing agent. Compositions for intravenous administration may optionally include a local anesthetic such as lidocaine to ease pain at the site of the injection. Generally, the ingredients are supplied either separately or mixed together in unit dosage form, for example, as a dry lyophilized powder or water free concentrate in a hermetically sealed container such as an ampoule or sachette indicating the quantity of active agent. Where the compound is to be administered by infusion, it can be dispensed, for example, with an infusion bottle containing sterile pharmaceutical grade water or saline. Where the compound is administered by injection, an ampoule of sterile water for injection or saline can be provided so that the ingredients may be mixed prior to administration. [0584] The pharmaceutical compositions can be in unit dosage form. In such form, the composition can be divided into unit doses containing appropriate quantities of the active component. The unit dosage form can be a packaged preparation, the package containing discrete quantities of the preparations, for example, packeted tablets, capsules, and powders in vials or ampules. The unit dosage form can also be a capsule, cachet, or tablet itself, or it can be the appropriate number of any of these packaged forms. [0585] In some embodiments, a composition of the present disclosure is in the form of a liquid wherein the active agent is present in solution, in suspension, as an emulsion, or as a solution/suspension. In some embodiments, the liquid composition is in the form of a gel. In other embodiments, the liquid composition is aqueous. In other embodiments, the composition is in the form of an ointment. [0586] In some embodiments, the composition is in the form of a solid article. For example, in some embodiments, the ophthalmic composition is a solid article that can be inserted in a suitable location in the eye, such as between the eye and eyelid or in the conjunctival sac, where it releases the active agent as described, for example, U.S. Pat. No.3,863,633; U.S. Pat. No.3,867,519; U.S. Pat. No.3,868,445; U.S. Pat. No.3,960,150; U.S. Pat. No. 3,963,025; U.S. Pat. No.4,186,184; U.S. Pat. No.4,303,637; U.S. Pat. No.5,443,505; and U.S. Pat. No.5,869,079. Release from such an article is usually to the cornea, either via the lacrimal fluid that bathes the surface of the cornea, or directly to the cornea itself, with which Docket No. MITO-010-PCT PCT APPLICATION the solid article is generally in intimate contact. Solid articles suitable for implantation in the eye in such fashion are generally composed primarily of polymers and can be bioerodible or non-bioerodible. Bioerodible polymers that can be used in the preparation of ocular implants carrying one or more of the compounds described herein in accordance with the present disclosure include, but are not limited to, aliphatic polyesters such as polymers and copolymers of poly(glycolide), poly(lactide), poly(epsilon-caprolactone), poly- (hydroxybutyrate) and poly(hydroxyvalerate), polyamino acids, polyorthoesters, polyanhydrides, aliphatic polycarbonates and polyether lactones. Suitable non-bioerodible polymers include silicone elastomers. [0587] The compositions described herein can contain preservatives. Suitable preservatives include, but are not limited to, mercury-containing substances such as phenylmercuric salts (e.g., phenylmercuric acetate, borate and nitrate) and thimerosal; stabilized chlorine dioxide; quaternary ammonium compounds such as benzalkonium chloride, cetyltrimethylammonium bromide and cetylpyridinium chloride; imidazolidinyl urea; parabens such as methylparaben, ethylparaben, propylparaben and butylparaben, and salts thereof; phenoxyethanol; chlorophenoxyethanol; phenoxypropanol; chlorobutanol; chlorocresol; phenylethyl alcohol; disodium EDTA; and sorbic acid and salts thereof. [0588] It is understood that the disclosed compositions can be prepared from the disclosed compounds. It is also understood that the disclosed compositions can be employed in the disclosed methods of using. G. EXAMPLES [0589] Representative examples of the disclosed compounds are illustrated in the following non-limiting methods, schemes, and examples. 1. GENERAL EXPERIMENTAL METHOD [0590] General starting materials used were obtained from commercial sources or prepared in other examples, unless otherwise noted. All temperatures are in degrees Celsius (°C) and are uncorrected. Reagent grade chemicals and anhydrous solvent were purchased from commercial sources and unless otherwise mentioned, were used without further purification. The names of the products were determined using the naming software included in Biovia electronic lab notebook. Silica gel chromatography was performed on Teledyne Isco instruments using pre-packaged disposable SiO2 stationary phase columns with eluent flow rate range of 15 to 200 mL/min, UV detection (254 and 280 nm). Reverse phase preparative Docket No. MITO-010-PCT PCT APPLICATION HPLC was carried out using C18 columns, UV detection (214 and 254 nm) eluting with gradients of MeCN in H2O (0.03% (NH4)2CO3/ 0.375% NH4OH, high pH) or MeCN in H2O (0.1% HCOOH, low pH). The analytical HPLC chromatograms were performed using an Agilent 1100 series instrument with DAD detector (190 nm to 300 nm). The mass spectra were recorded with a Waters Micromass ZQ detector at 130 ºC. The mass spectrometer was equipped with an electrospray ion source (ESI) operated in a positive ion mode and was set to scan between m/z 150-750 with a scan time of 0.3 s. Products and intermediates were analyzed by HPLC/MS on a Gemini-NX (5 μM, 2.0 x 30 mm) using a high pH buffer gradient of 5% to 100% of MeCN in H 2 O (0.03% (NH 4 ) 2 CO 3 / 0.375% NH 4 OH) over 2.5 min at 1.8 mL/min for a 3.5 min run (B05) and EVO C18 (5 μM, 3.0 x 50 mm) using a low pH buffer gradient of 5% to 100% of MeCN in H 2 O (0.1% HCOOH) over 2.5 min at 2.2 mL/min for a 3.5 min run (A05). The 1 H NMR spectra were recorded on a Bruker UltraShield 500 MHz/54 mm instrument (BZH 43/500/70B, D221/54-3209). The chemical shifts are referenced to solvent peaks, which in 1 H NMR appear at 7.26 ppm for CDCl 3 , 2.50 for DMSO-d6, and 3.31 ppm for CD3OD. [0591] The following abbreviations have the indicated meanings: aq aqueous; (Bpin) 2 bis(pinacolato)diboron; Comins’ reagent N-bis(trifluoromethanesulfonimide); DBDMH 1,3-dibromo-5,5-dimethylhydantoin DMF N,N-dimethyl formamide; DMSO dimethyl sulfoxide; Et2O diethyl ether; EtOAc ethyl acetate; EtOH ethanol; eq. or equiv. equivalent h hour(s); HPLC high performance liquid chromatography; LCMS liquid chromatography mass spectrometry LiHMDS lithium bis(trimethylsilyl)amide MeOH methanol; m minute(s); MS mass spectrometry NaHMDS sodium bis(trimethylsilyl)amide Docket No. MITO-010-PCT PCT APPLICATION NMP N-methylpyrrolidone NMR nuclear magnetic resonance; 23 °C room temperature; sat. saturated; SFC supercritical fluid chromatography; THF tetrahydrofuran; OTf trifluoromethanesulfonate; 2. SYNTHESIS OF N-((3R,4S)-7-FLUORO-3-((R)-2- METHYLMORPHOLINO)CHROMAN-4-YL)-6-(TRIFLUOROMETHYL)-7H- PYRROLO[2,3-D]PYRIMIDIN-4-AMINE [0592] A complete synthesis of N-((3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4- yl)-6-(trifluoromethyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine is shown in Scheme 1 below. SCHEME 1.
Docket No. MITO-010-PCT PCT APPLICATION [0593] The reduction of 7-fluorochroman-4-one was successfully conducted on >100 g scale multiple times following the described procedure below. Briefly, NaBH4 (11.95 g, 0.5 eq, 315.95 mmol) was added portionwise over 25 minutes to a solution of 7-fluorochroman-4- one (104.99 g, 1 eq, 631.90 mmol) in DCM (470 mL) and methanol (89.08 g, 112 mL, 4.4 Eq, 2.7804 mol) at 0-10 °C and stirred for 30 minutes at 0-10 °C. The reaction was allowed to warm to r.t. and stirred for a further 3 hours. The reaction was cooled to 0-10 °C and HCl (12.67 g, 347.54 mL, 1 molar, 0.55 eq, 347.54 mmol) was added over 10 minutes, stirred for 10 minutes, allowed to warm to r.t., and stirred for 30 minutes. The two layers were separated and the aqueous was extracted with DCM (3 x 200 mL). The combined organics were washed with water (200 mL) dried (MgSO4), filtered, and the filtrate was concentrated to dryness in vacuo to give 7-fluorochroman-4-ol (114.23 g, 0.65 mol, 100%, 95% purity) as a white solid. 1 H NMR 1 H NMR (500 MHz, CDCl 3 ) δ 7.30 – 7.20 (m, 1H), 6.64 (td, J = 8.4, 2.6 Hz, 1H), 6.56 (dd, J = 10.3, 2.5 Hz, 1H), 4.76 (t, J = 4.0 Hz, 1H), 4.30 – 4.24 (m, 2H), 2.16 – 1.96 (m, 2H), 1.84 (s, 1H). See FIG.1. i. STEP 2 – DEHYDRATION OF 7-FLUOROCHROMAN-4-OL Docket No. MITO-010-PCT PCT APPLICATION [0594] The dehydration of 7-fluorochroman-4-ol was successfully conducted on a >100 g scale multiple times following the procedure described below. Without wishing to be bound by theory, it is advised to immediately progress the isolated product in downstreaming processing as there are indications that the product is unstable to storage. Briefly, 4- methylbenzenesulfonic acid, monohydrate (1.6749 g, 0.0125 eq, 8.8053 mmol) was added to a stirring solution of 7-fluorochroman-4-ol (120.88 g, 98 wt%, 1 eq, 704.42 mmol) in toluene (1200 mL) at 50 °C and the reaction was heated to reflux with attached Dean-Stark apparatus and stirred for 2.5 hours. The cool reaction mixture was washed with water (2 x 500 mL), brine (400 mL), dried over MgSO4, filtered, and the filtrate was concentrated in vacuum to afford 7-fluoro-2H-chromene (108.9 g, 0.62 mol, 89 %, 86% purity) as a yellow oil. 1 H NMR (500 MHz, Chloroform-d) δ 6.89 (dd, J = 8.3, 6.5 Hz, 1H), 6.58-6.54 (m, 1H), 6.50 (ddd, J = 10.0, 2.5, 0.7 Hz, 1H), 6.40-6.37 (m, 1H), 5.73-5.68 (m, 1H), 4.82 (dd, J = 3.6, 1.9 Hz, 2H) – see Figure 2 for 1 H NMR analysis of isolated 7-fluoro-2H-chromene and Figure 3 for 1 H NMR overlay showing degradation after being stored for 24 hours at RT. See FIG.2. See also FIG.3, which contains a 1 H NMR overlay illustrating the degradation observed after storage for 24 hours at room temperature. j. STEP 3 – FORMATION OF 3-BROMO-7-FLUOROCHROMAN-4- O L [0595] The formation of 3-bromo-7-fluorochroman-4-ol was successfully conducted on >100 g scale following the procedure below. 1-Bromopyrrolidine-2,5-dione (116.9 g, 1.0 eq, 656.6 mol) was added to a stirring solution of 7-fluoro-2H-chromene (108.9 g, 86 wt%, 0.95 eq, Docket No. MITO-010-PCT PCT APPLICATION 623.7 mmol) in THF (900 mL) and water (450 mL) at 0 °C. Upon complete addition the reaction was allowed to warm to 22 °C and stirred for 18 hours. The reaction mixture was diluted with water (1000 mL), MTBE (1000 mL) was added, and the reaction stirred for 5 minutes. The combined organic layers were washed with water (3 x 500 mL), 20% brine (500 mL), dried over magnesium sulfate, filtered, and concentrated in vacuo. An emulsion formed during each wash so the solution was allowed to settle for 30 minutes prior to separation. This was recrystallized from cyclohexane (700 mL) and isohexane (300 mL) to afford 3- bromo-7-fluorochroman-4-ol (133.56 g, 0.51 mol, 78 %, 95% purity) as a brown solid. 1 H NMR (500 MHz, Chloroform-d) δ 7.34 (dd, J = 8.6, 6.4 Hz, 1H), 6.75-6.68 (m, 1H) (dd, J = 10.0, 2.5 Hz, 1H), 4.87 (d, J = 5.1 Hz, 1H), 4.51 (dd, J = 11.7, 2.3 Hz, 1H), 4.36 – 4.23 (m, 2H). See FIG.4. k. STEP 4 – FORMATION OF (3S,4S)-3-BROMO-7- F LUOROCHROMAN -4- YL (R)-2- PHENLPROPANOATE [0596] MAP (77.564 g, 1.1 eq, 634.88 mmol) and DCC (131.00 g, 1.1 Eq, 634.88 mmol) were slowly added to a mixture of 3-bromo-7-fluorochroman-4-ol (150.10 g, 95 wt%, 1 eq, 577.17 mmol) and (R)-2-phenylpropanoic acid (95.347 g, 1.1 eq, 634.88 mmol) in DCM (1700 mL) at 0 °C under nitrogen. The reaction was then stirred at 22 °C for 3 hours and filtered through a pad of Celite. The filtrate was concentrated under vacuum to afford an orange oil to give 1:1 mixture of diastereomers. [0597] The mixture was purified batchwise by silica gel chromatography. In a typical run, 18 g of crude was pre-adsorbed onto silica (36 g). This was purified using pre-packed 330 g silica cartridges using the parameters in Table 1 below. An exemplary chromatography trace is illustrated in FIG.5. T ABLE 1. Docket No. MITO-010-PCT PCT APPLICATION Time (min) % Solvent A % Solvent B ( Isohexane) (3% Et2O/isohexane) , mo-7-fluorochroman-4-yl (R)-2-phenylpropanoate (84 g, 0.22 mol, 38 %) as a white solid. 1 H NMR (500 MHz, CDCl 3 ) δ 7.36 – 7.29 (m, 2H), 7.29 – 7.23 (m, 3H), 7.21 (dd, J = 8.6, 6.3 Hz, 1H), 6.72-6.65 (m, 1H), 6.62 (dd, J = 10.0, 2.6 Hz, 1H), 5.93 (dd, J = 3.5, 1.4 Hz, 1H), 4.17 (ddd, J = 12.5, 3.3, 1.4 Hz, 1H), 4.09 (dd, J = 12.4, 2.0 Hz, 1H), 4.06-3.98 (m, 1H), 3.70 (q, J = 7.1 Hz, 1H), 1.51 (d, J = 7.2 Hz, 3H). See FIG.6A. [0599] The second eluting product afforded desired product (3S,4S)-3-bromo-7- fluorochroman-4-yl (R)-2-phenylpropanoate (86 g, 0.23 mol, 39 %) as a colourless oil. 1 H NMR (500 MHz, Chloroform-d) δ 7.35 – 7.19 (m, 5H), 6.98 (dd, J = 8.5, 6.3 Hz, 1H), 6.65 – 6.55 (m, 2H), 5.97 (d, J = 3.8 Hz, 1H), 4.41 – 4.26 (m, 3H), 3.76 (q, J = 7.2 Hz, 1H), 1.54 (d, J = 7.2 Hz, 3H). See FIG.6B. [0600] A 1 H NMR overlay of both isomers is shown in FIG.6C (full spectrum) and FIG.6D (expanded). l. S TEP 5 – S YNTHESIS OF (3S,4R)-7- FLUORO -4-((R)-2- METHYLMORPHOLINO)CHROMAN-3-OL [0601] To a stirred solution of (3S,4S)-3-bromo-7-fluorochroman-4-yl (R)-2- phenylpropanoate (40.0 g, 95 wt%, 1 eq, 100 mmol) in anhydrous diethyl ether (130 mL) Docket No. MITO-010-PCT PCT APPLICATION under nitrogen was added sodium methanolate (13.5 g, 2.5 eq, 251 mmol). The reaction was stirred at 25 °C for 4 hours. This was partitioned between cold water (100 mL) and EtOAc (20 mL). The aqueous phase was extracted with DCM (50 mL). The combined organics were dried (MgSO4) and concentrated in vacuo to afford (1aR,7bS)-5-fluoro-1a,7b-dihydro-2H- oxireno[2,3-c]chromene (38.97 g, 94 mmol, 94 %, 40% purity) as a yellow oil. Without wishing to be bound by theory, it is recommend to store the oil at 0 °C under nitrogen atmosphere. 1 H NMR (500 MHz, Chloroform-d) δ 7.39 – 7.21 (m, 1H), 6.99-6.91 (m, 1H), 6.87 – 6.82 (m, 1H), 4.56 (dd, J = 12.6, 1.3 Hz, 1H), 4.15 (dd, J = 12.7, 0.6 Hz, 1H), 3.92 (d, J = 4.5 Hz, 1H), 3.83 – 3.79 (m, 1H). See FIG.7. [0602] A solution of (1aR,7bS)-5-fluoro-1a,7b-dihydro-2H-oxireno[2,3-c]chromene (38.97 g, 40 wt% 0.95 eq, 93.82 mmol), (R)-2-methylmorpholine hydrochloride (13.59 g, 1 eq, 98.76 mmol) and triethylamine (14.99 g, 20.6 mL, 1.5 eq, 148.1 mmol) in toluene (10 mL) was heated to 90 °C for 3 hours. The cooled reaction mixture was partitioned between water (100 mL) and EtOAc (50 mL). The aqueous phase was then extracted with DCM (60 mL). The combined organics were dried (MgSO4), filtered, and the filtrate concentrated in vacuo. The crude product was spilt in two portions and purified by silica gel chromatography eluting with 0 – 5% MeOH/DCM to afford (3S,4R)-7-fluoro-4-((R)-2-methylmorpholino)chroman-3- ol (23.10 g, 81 mmol, 87 %, 94% purity) as a dark yellow oil. 1 H NMR (500 MHz, CDCl 3 ) δ 7.34 – 7.19 (m, 1H), 6.66 (br.s, 1H), 6.57 (br.d, J = 10.1 Hz, 1H), 4.28 (d, J = 11.2 Hz, 1H), 4.15 (br.s, 1H), 4.06 (br.s, 1H), 3.83 (d, J = 11.1, 1H), 3.66-3.45 (m, 2H), 2.80 – 2.57 (m, 2H), 2.48 (br.s, 1H), 2.32-2.25 (m, 1H), 2.00 (br.s, 1H), 1.59 (br.s, 1H), 1.13 (d, J = 6.3 Hz, 3H). See FIG.8. m. STEP 6 – SYNTHESIS OF (3R,4S)-7-FLUORO-3-((R)-2- M ETHYLMORPHOLINO ) CHROMAN -4- AMINE [0603] Methanesulfonyl chloride (11.17 g, 7.54 mL, 1.2 eq, 97.48 mmol) was added to a mixture of (3S,4R)-7-fluoro-4-((R)-2-methylmorpholino)chroman-3-ol (23.10 g, 94% wt, 1 Docket No. MITO-010-PCT PCT APPLICATION eq, 81.23 mmol) and triethylamine (17.26 g, 23.8 mL, 2.1 Eq, 170.6 mmol) in anhydrous DCM (350 mL) at 0 °C under nitrogen. The reaction was stirred for 1.5 hours. (2,4- dimethoxyphenyl)methanamine (16.30 g, 14.64 mL, 1.2 Eq, 97.48 mmol) was added, and the reaction was heated to 45 °C for 2 hours. This was cooled to 22 °C and washed with water (350 mL). The aqueous phase was extracted with DCM (200 mL). The combined organics were dried (MgSO4) and concentrated in vacuo to afford the crude intermediate diamine. This crude was dissolved in TFA (100 mL) and heated to 70 °C for 1 hour. The reaction was cooled to 0 °C and basified with 12M NaOH (pH >12). The aqueous phase was extracted with 1:3 MeOH: DCM (2 x 200 mL). The combined organics were dried (MgSO 4 ), filtered through celite, and concentrated in vacuo. The crude product was spilt in two portions and purified by silica gel chromatography eluting with 0-10%, MeOH/DCM to afford (3R,4S)-7- fluoro-3-((R)-2-methylmorpholino)chroman-4-amine (20.1 g, 59 mmol, 72 %, 78% purity) as a dark yellow oil. 1 H NMR (500 MHz, CDCl3) δ 7.44 – 7.36 (m, 1H), 6.68-6.60 (m, 1H), 6.51 (d, J = 10.2 Hz, 1H), 4.36 (dd, J = 11.2, 3.1 Hz, 1H), 4.13 – 4.05 (m, 1H), 4.01 (d, J = 7.6 Hz, 1H), 3.86 (d, J = 11.2 Hz, 1H), 3.68 (td, J = 11.1, 2.7 Hz, 1H), 3.58-3.49 (m, 1H), 2.80-2.73 (m, 2H), 2.68-2.61 (m, 1H), 2.57-5.48 (m, 1H), 2.09 (dd, J = 10.9, 9.6 Hz, 2H), 1.13 (d, J = 6.2 Hz, 3H) (exchangeable proton not observed). See FIG.9. n. STEP 7 - SYNTHESIS OF N-((3R,4S)-7-FLUORO-3-((R)-2- METHYLMORPHOLINO)CHROMAN-4-YL)-6- (TRIFLUOROMETHYL)-7H-PYRROLO[2,3-D]PYRIMIDIN-4- AMINE [0604] (3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4-amine (17.0 g, 78% wt, 1.1 eq, 49.6 mmol), 4-chloro-6-(trifluoromethyl)-7H-pyrrolo[2,3-d]pyrimidine (10.0 g, 1 eq, 45.1 mmol) and DIPEA (17.5 g, 23.6 mL, 3 eq, 135 mmol) in nBuOH (85 mL) was heated to 170 °C in a sealed tube for 8 hours. The reaction was cooled to room temperature and partitioned between DCM (100 mL) and water (100 mL). The organic phase was separated, washed with Docket No. MITO-010-PCT PCT APPLICATION water (100 mL) and brine (150 mL). The organic phase was dried (MgSO4), filtered, and concentrated in vacuo to a brown gum. The crude material was dissolved in DCM (32 mL), seeded with trace quantities of the desired product, and agitated. The resultant solid was collected via filtration to afford N-((3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4- yl)-6-(trifluoromethyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine (14.97 g, 33 mmol, 73 %, 99% purity) as a white solid. 1 H NMR (500 MHz, DMSO) δ 12.82 (s, 1H), 8.31 (s, 1H), 8.19 (d, J = 8.1 Hz, 1H), 7.21 (dd, J = 8.3, 6.7 Hz, 1H), 7.18 – 7.13 (m, 1H), 6.75 – 6.67 (m, 2H), 5.63 (t, J = 6.7 Hz, 1H), J = 11.9, 5.4 Hz, 1H), 4.26 (dd, J = 11.9, 2.5 Hz, 1H), 3.74 – 3.65 (m, 1H), 3.37- 3.24 (m, 2H), 3.01 (d, J = 11.5 Hz, 1H), 2.95 (d, J = 11.0 Hz, 1H), 2.73 (d, J = 4.9 Hz, 1H), 2.36 (td, J = 11.5, 3.1 Hz, 1H), 2.06 (t, J = 10.4 Hz, 1H), 0.98 (d, J = 6.3 Hz, 3H).See FIG.10. LCMS traces of the isolated product are shown in FIG.11. [0605] A further crop of material was isolated by concentrating the liquors and purifying by silica gel chromatography (eluting with 0 – 25 %, 3:1 EtOAc:EtOH,/isohexane) to afford N- ((3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4-yl)-6- (trifluoromethyl)-7H- pyrrolo[2,3-d]pyrimidin-4-amine (1.77 g, 3.8 mmol, 8.5 %, 98% purity) as a yellow solid. This was purified by recrystallization in DCM. 1 H NMR analysis was consistent with FIG. 10. 3. ALTERNATIVE PROPHETIC SYNTHESIS OF (3R,4S)-7-FLUORO-3-((R)-2- METHYLMORPHOLINO)CHROMAN-4-AMINE [0606] An alternative synthesis of intermediate (3R,4S)-7-fluoro-3-((R)-2- methylmorpholino)chroman-4-amine is shown in Scheme 2. SCHEME 2. Docket No. MITO-010-PCT PCT APPLICATION 4. ALTERNATIVE PROPHETIC SYNTHESIS OF 7-FLUORO-3-((R)-2- METHYLMORPHOLINO)CHROMAN-4-ONE [0607] An alternative synthesis of intermediate 7-fluoro-3-((R)-2- methylmorpholino)chroman-4-one is shown in Scheme 3. SCHEME 3. Y L analytical marker using the procedure described below. An analytical SFC method was developed, which could separate both isomers of the starting bromohydrin and both isomers of the acetate product. [0609] Briefly, acetyl chloride (572 mg, 518 µL, 1.2 eq, 7.29 mmol) was added portion-wise to a stirring solution of 3-bromo-7-fluorochroman-4-ol (1.50 g, 1 eq, 6.07 mmol), N,N- dimethylpyridin-4-amine (37.1 mg, 0.05 eq, 304 µmol) and DIPEA (1.18 g, 1.59 mL, 1.5 Eq, 9.11 mmol) in DCM (15.0 mL) at 5-10 °C over 10 minutes. The reaction was allowed to warm to ambient temperature and stirred for 30 minutes. The reaction was diluted with DCM (10 mL) and washed with water (2 x 15 mL). The combined aqueous was extracted with DCM (15 mL) and the combined organics were washed with water (15 mL). The DCM was passed through a phase separator cartridge and adsorbed onto silica gel and concentrated Docket No. MITO-010-PCT PCT APPLICATION under reduced pressure. The crude product was purified by chromatography on silica gel (40 g cartridge, 0-20% EtOAc/isohexane) to afford 3-bromo-7-fluorochroman-4-yl acetate (1.33 g, 4.5 mmol, 74 %, 98% purity) as a clear colourless oil that crystallised upon standing. 1 H NMR (500 MHz, DMSO) δ 7.37 (dd, J = 8.4, 6.6 Hz, 1H), 6.87 – 6.79 (m, 2H), 5.81 (d, J = 3.1 Hz, 1H), 4.74 (q, J = 2.7 Hz, 1H), 4.41 (d, J = 2.4 Hz, 2H), 2.06 (s, 3H). 19 F NMR (471 MHz, DMSO) δ -110.06. [0610] A 1 H NMR and 13 C NMR of the isolated product is shown in FIG.12A and FIG. 12B. [0611] The product was analysed by UPLC (CSH C18 Column, 130Å, 1.7 µm, 2.1 mm x 30 mm, 3 min method, 0.1% Formic acid, 2-100% MeCN/water) (1.57 min, 98.5% purity 210- 400 nm). UPLC traces of the isolated product are shown in FIG.12C. 6. ALTERNATIVE TO STEP 6 – SYNTHESIS OF (3R,4S)-7-FLUORO-3-((R)-2- M ETHYLMORPHOLINO ) CHROMAN -4- AMINE [0612] An alternative synthesis of intermediate (3R,4S)-7-fluoro-3-((R)-2- methylmorpholino)chroman-4-amine is shown in Scheme 8. The synthesis of intermediate (3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4-amine according to Scheme 8 can be used in conjunction with and/or as a replacement step of one or more of the synthesis schemes disclosed herein. SCHEME 8. Docket No. MITO-010-PCT PCT APPLICATION . [0614] Compounds 6-8, which are discussed in this example of an alternative to Step 6, refer to the compounds identified as Compounds 6-8 in Scheme 8. [0615] As discussed herein, Compound 6 may be in the form of a pharmaceutically acceptable salt thereof. For instance, the Compound 6 may be in the form of a chloride salt. In certain embodiments, however, Compound 6 is not in the form of a salt and is in a free form. Compound 6 and/or a pharmaceutically acceptable salt thereof may undergo mesylation of a hydroxyl to obtain Compound 6A. In certain embodiments, mesylation may occur by way of employing ethanesulfonic anhydride (Ms 2 O). [0616] Compound 6A may be in the form of a pharmaceutically acceptable salt thereof, such as a chloride salt. Compound 7 may be obtained by way of reacting Compound 6A may with a benzylamine. Additionally or alternatively, in certain embodiments, the formation of Compound 7 from Compound 6 and/or Compound 6A is free of trifluoroacetic acid (TFA). In certain embodiments, the formation of Compound 7 from Compound 6 and/or Compound 6A is free of 1,4-dimethoxybenzylamine. [0617] Compound 7 may be in a free form or in the form of a pharmaceutically acceptable salt thereof. For example, Compound 7 may be a pharmaceutically acceptable chloride salt. In certain embodiments, a pharmaceutically acceptable salt of Compound 7 may be obtained while impurities, such as an aziridine, may be isolated and/or removed. Compound 7 may be reduced using hydrogen from an acid, such as HCOONH 4 and/or HCOOK, to obtain Compound 8 ((3R,4S)-7-fluoro-3-((R)-2-methylmorpholino)chroman-4-amine) . Additionally or alternatively, Compound 8 may be formed from Compound 7 using a hydrogenator. [0618] Compound 8 may be in a free form or in the form of a pharmaceutically acceptable salt thereof. In certain embodiments, the pharmaceutically acceptable salt of Compound 8 may be a TsOH salt. In some embodiments, a pharmaceutically acceptable salt of Compound 8 may be obtained while impurities are isolated and/or removed. 7. CHIRAL ANALYTICAL ANALYSIS Docket No. MITO-010-PCT PCT APPLICATION [0619] A supercritical fluid chromatography (SFC) method was developed to differentiate the racemic bromohydrin and the acylated product using an AY-H column (4.6 x 250mm, 5 µM) with mobile phase 90 % CO 2 and 10 % EtOH (no modifier). The flow rate was 4 mL/min at a UV detection of 220-400 nm. The run time was 2 mins. BPR 120 bar. See Table 2, FIG.13, and FIG.14. TABLE 2. Bromohydrin Retention time Isomer 1 1348 min S 6-FLUORO-((R)-2-METHYLMORPHOLINO- CHROMAN-3-OL (27.1 mg, 0.95 eq, 163 µmol), (R)-2-methylmorpholine HCl (23.6 mg, 1 eq, 172 µmol) and triethylamine (26.1 mg, 35.9 µL, 1.5 eq, 258 µmol) in toluene (0.75 mL) was heated to 90 °C for 4.5 hr. The cool reaction mixture was partitioned between water (10 mL) and EtOAc (10 mL). The aqueous phase was then extracted with EtOAc (10 mL) and the combined organics were washed with water (2 x 10 mL). The organic was dried over Na2SO4 then concentrated under vacuum. The crude product purified by chromatography on silica gel (12 g cartridge, 0-5 MeOH/DCM) to afford 7-fluoro-4-((R)-2-methylmorpholino)chroman-3-ol (10.0 mg, 37.4 µmol, 23.0 %) as a dark yellow oil. A 1 H NMR of the product is shown in FIG.15A (full spectra) and FIG.15B (expanded). 9. E NZYMATIC H YDROLYSIS Docket No. MITO-010-PCT PCT APPLICATION fluorochroman-4-yl acetate (200 mg, 1 eq, 692 µmol), THF (0.8 mL) and potassium phosphate buffer (2.00 mL). The mixture was heated to 30 °C for 66 hours. The cool reaction was diluted with water (10 mL) and extracted with MTBE (2 x 10 mL). The combined organics were washed with water (2 x 10 mL), dried (MgSO4) and pre-adsorbed directly onto silica. The crude product was purified by chromatography on silica gel (24 g cartridge, 0-25 EtOAc/isohexane) to afford 3-bromo-7-fluorochroman-4-yl acetate (95.0 mg, 329 µmol, 47.5 %) as a clear colourless gum (3319-160-A), and 3-bromo-7-fluorochroman-4-ol (50.0 mg, 202 µmol, 29.3 %) as a clear oil which crystallised upon standing (3319-160-B). [0622] 3319-160-A, 3-Bromo-7-fluorochroman-4-yl acetate. 1 H NMR (500 MHz, DMSO) δ 7.42 – 7.32 (m, 1H), 6.86 – 6.78 (m, 2H), 5.81 (d, J = 3.1 Hz, 1H), 4.74 (dt, J = 3.1, 2.5 Hz, 1H), 4.41 (d, J = 2.3 Hz, 2H), 2.06 (s, 3H). [0623] 3319-160-B, 3-Bromo-7-fluorochroman-4-ol. 1 H NMR (500 MHz, DMSO) δ 7.34 (dd, J = 8.6, 6.8 Hz, 1H), 6.79 (td, J = 8.6, 2.6 Hz, 1H), 6.72 (dd, J = 10.5, 2.6 Hz, 1H), 6.19 (d, J = 5.8 Hz, 1H), 4.65 – 4.61 (m, 1H), 4.50 – 4.44 (m, 2H), 4.34 – 4.28 (m, 1H). [0624] 3319-160-A and 3319-160-B were dissolved in methanol to 1 mg/mL and analysed by SFC using an AY-H column (4.6 x 250 mm, 5 µm) with mobile phase 90% CO2 and 10% EtOH. The flow rate was 4 mL/min at a UV detection of 220-400 nm. The run time was 2 mins. See FIG.16A-C. [0625] The enriched, unreacted, ester (67% e.e.) obtained in the previous step was progressed using the following procedure: To a stirred solution of (3S,4S)-3-bromo-7-fluorochroman-4- yl acetate (84.0 mg, 1 eq, 291 µmol, 67 % e.e.) in dry diethyl ether (1.00 mL) under nitrogen was added carefully sodium methanolate (31.4 mg, 2.0 eq, 581 µmol). The reaction was stirred at 25 °C for 1 h 30 min. This was diluted with diethyl ether (5 mL), washed with water (5 mL). The aqueous was extracted with diethyl ether (2 x 5 mL). The organic layers were combined, dried over MgSO4 and concentrated under vacuum to afford 5-fluoro-1a,7b- Docket No. MITO-010-PCT PCT APPLICATION dihydro-2H-oxireno[2,3-c]chromene (47.0 mg, 283 µmol, 97.4 %) as a white solid which was used without further purification. [0626] A mixture of (1aR,7bS)-5-fluoro-1a,7b-dihydro-2H-oxireno[2,3-c]chromene (46.0 mg, 0.95 eq, 277 µmol), (R)-2-methylmorpholine, HCl (40.1 mg, 1 eq, 291 µmol) and triethylamine (44.2 mg, 60.9 µL, 1.5 eq, 437 µmol) in toluene (0.75 mL) was heated to 90 °C for 4.5 hr. The reaction mixture was partitioned between water (10 mL) and EtOAc (10 mL). The aqueous phase was then extracted with EtOAc (10 mL) and the combined organics were washed with water (2 x 10 mL). The organic was dried over Na2SO4 then concentrated under vacuum. The crude product purified by chromatography on silica gel (12 g cartridge, 0-5 MeOH/DCM) to afford (3S,4R)-7-fluoro-4-((R)-2-methylmorpholino)chroman-3-ol as a dark yellow oil. 1 H NMR analysis of this indicates that the major product is the undesired derivative (approx.67% e.e.). See FIG.17. 10. E NZYMATIC T RANSESTERIFICATION mg, eq, , mg) and 3-bromo-7-fluorochroman-4-ol (200 mg, 1 eq, 810 µmol) in MTBE (4.00 mL) was stirred at 30 °C for 66 hours. The cool reaction was diluted with water (10 mL) and extracted with MTBE (2 x 10 mL). The combined organics were washed with water (2 x 10 mL), dried (MgSO4) and pre-adsorbed directly onto silica. The crude product was purified by chromatography on silica gel (24 g cartridge, 0-25 EtOAc/isohexane) to afford 3-bromo-7- fluorochroman-4-yl acetate (27.0 mg, 93.4 µmol, 11.5 %) as a clear oil which crystallised upon standing (3319-161-A). 1 H NMR (500 MHz, DMSO) δ 7.37 (dd, J = 8.4, 6.6 Hz, 1H), 6.88 – 6.80 (m, 2H), 5.81 (d, J = 3.1 Hz, 1H), 4.74 (q, J = 2.6 Hz, 1H), 4.41 (d, J = 2.4 Hz, 2H), 2.06 (s, 3H).3319-161-A was dissolved in methanol to 1 mg/mL and analysed by SFC. See FIG.18A and FIG.18B. [0628] The optimal technique and conditions are SFC using an AY-H (4.6 x 250 mm, 5 µm) with mobile phase 90 % CO 2 and 10 % EtOH. The flow rate was 4 mL/min at a UV detection of 220-400 nm. The run time was 2 mins. Docket No. MITO-010-PCT PCT APPLICATION [0629] To a stirred solution of 3-bromo-7-fluorochroman-4-yl acetate (27.0 mg, 93% Wt, 1 eq, 86.9 µmol) in dry diethyl ether (1.00 mL) under nitrogen was added carefully sodium methanolate (9.38 mg, 2.0 eq, 174 µmol). The reaction was stirred at 25 °C overnight. This was diluted with diethyl ether (5 mL), washed with water (5 mL). The aqueous was extracted with diethyl ether (2 x 5 mL). The organic layers were combined, dried over MgSO 4 and concentrated under vacuum to afford 5-fluoro-1a,7b-dihydro-2H-oxireno[2,3-c]chromene (7.00 mg, 42.1 µmol, 48.5 %) as a white solid, which was used without further purification. [0630] A mixture of (1aR,7bS)-5-fluoro-1a,7b-dihydro-2H-oxireno[2,3-c]chromene (7.00 mg, 0.95 eq, 42.1 µmol), (R)-2-methylmorpholine, HCl (6.10 mg, 1 eq, 44.3 µmol) and triethylamine (6.73 mg, 9.27 µL, 1.5 eq, 66.5 µmol) in toluene (0.75 mL) was heated to 90 °C for 4.5 hr. The reaction mixture was partitioned between water (10 mL) and EtOAc (10 mL). The aqueous phase was then extracted with EtOAc (10 mL) and the combined organics were washed with water (2 x 10 mL). The organic was dried over Na2SO4 then concentrated under vacuum. See FIG.18. [0631] Based on these data, stereochemistry has been assigned as shown in FIG.19. 11. BIOLOGICAL METHODS a. H UMAN MT -K EIMA M ITOPHAGY A SSAY [0632] HeLa cells expressing mt-Keima and YFP-Parkin (HeLa MKYP) were plated at 10,000 cells/well in 96 well plates along with Mitokinin compounds at various concentrations. Following 16 hrs of incubation, cells were treated with 1 µM FCCP/oligomycin for 6 hours, then analyzed via FACS for the presence of mitochondria in lysosomes (as determined by an emissions spectrum shift from the pH-sensitive mt-Keima tag). Additionally, cells treated with 25 µM Mitokinin compound but not treated with FCCP/oligomycin were analyzed for cytotoxicity. b. I N V ITRO M ITOTOXICITY ( GLUCOSE / GALACTOSE ) A SSAY [0633] Briefly, SKOV3 cells (ATCC HTB-77) were plated in DMEM (Corning 10-013-CV) medium containing 25 mM glucose or DMEM with no glucose (Gibco 11966-025) supplemented with 10 mM galactose at 9,000 cells/well in 96 well plates (Corning costar 3610).24 hrs later, compounds, in DMSO, were added at various concentrations to a final 0.1% DMSO for all wells. Following 20 hours of incubation with compound, all wells had their growth medium replaced with DMEM containing 25 mM of glucose followed by the addition of Promega CellTiter-Glo® reagent as per manufacturer’s instructions. After a 15 Docket No. MITO-010-PCT PCT APPLICATION minute incubation cellular ATP levels were read out using a Promega GloMax® DiscoverMicroplate Reader. [0634] The ratio of relative CellTiter-Glo values from cells grown in galactose to cells grown in glucose was determined (gal/glc ratio). The gal/glc ratio vs concentration is then graphed, and non-linear regression is used to find the highest concentration of MTK compound at which gal/glc > 0.80 (the “highest mito-safe dose”, or IC20). The Mito-Safety Index in Table 2 is equal to the highest mito-safe dose divided by the mt-Keima EC 50 dose. c. EVALUATION OF AN EXEMPLARY, NON-LIMITING C OMPOUND FOR PINK1 K INASE A CTIVITY was prepared using the synthetic methods detailed herein, and evaluated for PINK1 activity. See Table 3. Additional exemplary PINK1 modulators for which the synthetic methods described herein can be used are described in WO 2021/168446 (incorporated by reference). TABLE 3. Highest safe d Highest Mit S f ty fe ) [0636] It will be apparent to those skilled in the art that various modifications and variations can be made in the present invention without departing from the scope or spirit of the invention. Other embodiments of the invention will be apparent to those skilled in the art from consideration of the specification and practice of the invention disclosed herein. It is Docket No. MITO-010-PCT PCT APPLICATION intended that the specification and examples be considered as exemplary only, with a true scope and spirit of the invention being indicated by the following claims. 12. ANOTHER EXEMPLARY SYNTHESIS OF N-((3R,4S)-7-FLUORO-3-((R)-2- METHYLMORPHOLINO)CHROMAN-4-YL)-6-(TRIFLUOROMETHYL)-7H- PYRROLO[2,3-D]PYRIMIDIN-4-AMINE [0637] Another non-limiting, exemplary complete synthesis of N-((3R,4S)-7-fluoro-3-((R)-2- methylmorpholino)chroman-4-yl)-6-(trifluoromethyl)-7H-pyrrol o[2,3-d]pyrimidin-4-amine is shown in Scheme 9. Scheme 9. [0638] 1 H NMR spectra were recorded on Bruker Fourier 400/300 MHz and TMS was used as an internal standard. [0639] LC-MS was taken on a quadruple Mass Spectrometer on Agilent LC/MSD 1200 Series (Column: ODS 2000 (50 × 4.6 mm, 5 μm) operating in ES (+) or (-) ionization mode; T = 30 °C; flow rate = 1.5 mL/min; detected wavelength: 214 nm. b. L IST OF ABBREVIATIONS [0640] The following table provides a list of abbreviations for this Example. aq Aqueous Docket No. MITO-010-PCT PCT APPLICATION Na2SO4 sodium sulfate EtOAc Ethyl acetate - d [0641] Impurities [0642] An impurity was identified (Impurity 1-1), which appeared to be a MeOH residual. The MeOH residual come from the reagent used and may affect the following step to generate impurity. In this example, the MeOH residual was not specifically controlled and/or reduced. Docket No. MITO-010-PCT PCT APPLICATION [0643] Observations/ Process Changes/ Deviations [0644] According to HPLC of aqueous layer, some product was lost in the aqueous layer. The product exhibited good solubility in water. Accordingly, the volume of water (aqueous washing) was reduced from 5 v/w to 1 v/w to minimize the loss, but some product in aqueous layer was still observed. [0645] Another potential reason for the loss in aqueous layer is the large amount of MeOH in aqueous phase. In certain prophetic embodiments, a concentration step may be completed first to remove most of MeOH and being starting the quenching and the extraction. For example, some acetone may be added to quench the reaction before the work up to fully decompose the potential boronic ester or prolong the aging time after the quenching. [0646] A toluene solution was then used to promotone the next step directly. However, one impurity increased a lot. The proposed structure of this impurity is list below. We think the impurity (RT=3.937 min) generated at step 2 was caused by MeOH residual in compound 2 toluene solution. It suggests to perform a solvent swap by azeotrope with fresh toluene to reduce the MeOH residual in crude compound 2 solution before used to next step. Probable structure of the impurity or [0647] Batch summary L ot No. Input, Amount S M Product* Yield Assay Purity Remarks [0648] Typical operation procedure (E02344-21099-020) No. Raw-material Amount Mol. wt. Mol Molar-ratio Docket No. MITO-010-PCT PCT APPLICATION 6 NaCl 9.20 kg N/A N/A 1.20 w/w 7 NaHCO3 0.30 kg N/A N/A 0.04 w/w er N2. . Charge compound 1 (7.60 kg, 1.00 equiv.) into reactor at r.t. under N 2 . . Cool to a temperature of about 0 to about 10 ℃ under N2. . Charge NaBH4 (865.20 g, 0.50 equiv.) by portions into the solution at about 0 to about 10 ℃ under N 2 . . Charge MeOH (11.72 kg, 8.00 equiv.) dropwise into the reactor at about 0 to about 10 ℃ under N2. (exothermic). . Agitate the solution at about 0 to about 10 ℃ for 0.5 hr. . IPC: HPLC. . Charge citric acid monohydrate (2.28 kg, 0.30 w/w) and NaCl (6.90 kg, 0.90 w/w) in H2O (22.80 L, 3.00 v/w) dropwise into the solution at 0~20℃ under N 2 . . Warm up to about 10 to about 20 ℃. 0. Agitate for 10 min at about 10 to about 20 ℃. 1. Stand and Separate the mixture. 2. Extract the aqueous layer with toluene (38.00 L, 5.00 v/w). 3. IPC: aqueous layer HPLC (some product was lost in mother liquor). 4. Extract the aqueous layer with toluene (38.00 L, 5.00 v/w). 5. IPC: aqueous layer HPLC . 6. Wash the combined organic layer with 5% NaHCO3 aqueous (6.00 L, 1.00 v/w). Note: NaHCO 3 (0.30 kg, 0.04 w/w). 7. IPC: aqueous layer (pH=8~9, some product was lost in mother liquor). 8. Wash the combined organic layer with H2O (7.00 L, 1.00 v/w). 9. IPC: aqueous layer (pH=7~8). 0. Wash the combined organic layer with brine (9.00 L, 1.00 v/w). Note: NaCl (2.30 kg, 0.30 w/w). 1. IPC: aqueous layer (pH=7~8). Note: Get 22.81 kg of combined aqueous layer (assay:0.24%), lost about 54.7 g in the aqueous layer. 2. Concentrate the filtrate under vacuum at a temperature of 55 ℃ to left (70.00 L,10.00 v/w) to remove MeOH. Docket No. MITO-010-PCT PCT APPLICATION 23. IPC: GC (almost no MeOH was left). 24. Determined the weight of solution: 61.02 kg, assay: 12.15%, yield: 100.68%, purity: 98.72%. HPLC of Compound 2 is shown in FIG.21. d. STEP 2 SYNTHESIS OF COMPOUND 3 [0650] Impurities [0651] An impurity (Impurity 2-1) was identified during this step. Impurity 2-1 may have the following potential structure: . [0652] This impurity is residual in starting material (compound 2). It will not react further in the following steps and was purged by step 4. This impurity could be controlled by reducing the MeOH lever in crude compound 2 toluene solution. [0653] Observations/ Process Changes/ Deviations [0654] It is believed that the HPLC method may not be sufficient for separating toluene and compound 3. Thus, the following method was used. 1. TsOH·H 2 O was charged into the reaction mixture at a temperature of about 80 to about 95℃ to keep the reaction less violent and avoid potential run away. 2. A lower yield and low purity on batch 21596-003 was observed. Without necessarily limiting the synthesis procedures, it is believed that the lower yield may be caused by extra MeOH residual in compound 2 toluene solution. The crude compound 3 with lower purity could be used in the next step, with the impurity removed at step 4 after the purification. 3. In certain prophetic embodiments, the MeOH residual may be controlled before being used for this reaction. 4. In this Example, the extraction organic layer was concentrated via drying to afford yellow oil. This operation may, in some instances, not be suitable for further scale up. In certain prophetic embodiments, the crude compound 3 may be isolated as THF solution. Docket No. MITO-010-PCT PCT APPLICATION [0655] Batch Summary Lot No. Input, SM Amount P roduct Yield Assay Purity Remarks 2 2 2 [0656] Typical operation procedure (E02344-21099-010) No. Raw-material Amount Mol. wt. Mol Molar-ratio 5 91 k v. [0 1. Charge the compound 2 solution (about 50.00 L) into a 100 L reactor at r.t. under N2. 2. Heat up to a temperature of about 90 to about 100 degree. 3. Charge TsOH·H2O (83.57 g, 1.25% equiv.) into reactor at a temperature of 95 degree under N 2 . Note: Without being limited to any particular theory, it is believed that if TsOH·H2O was added at r.t., more impurity will be observed. So, it was added at a temperature of about 90 to about 100 degree, for which the reaction went smoothly. It should be noticed the addition at high temperature in one portion has potential of runaway. 4. Heat up to reflux with Dean-Stark to remove water over 1 to about 2 hr. 5. IPC: short method 1 hr HPLC; long method of 1.5 hr HPLC. 6. Cool down to a temperature of about 20 to about 25 degree. 7. Wash the mixture with 5% NaHCO3 aqueous (30.00 L, 5.00 v/w). Note: NaHCO 3 (1.5 kg, 0.25 w/w). 8. IPC: pH=8~9, no product was lost in aqueous layer. Docket No. MITO-010-PCT PCT APPLICATION 9. Wash the combined organic layer with H2O (30.00 L, 5.00 v/w). 10. IPC: aqueous layer pH=7~8. 11. Dry the organic layer with anhydrous Na 2 SO 4 (5.91 kg, 1.00 w/w) for 1 hr. 12. Filter the suspension and rinse the cake with toluene (5.91 L, 1.00 v/w). 13. Concentrate the filtrate under vacuum at 60 degree to obtain the product as yellow oil. 14. Determine the weight: 5.0 kg, purity: 92.22%, yield: 94.7% over 2 steps HPLC spectra for Compound 3 (see FIG.22). e. STEP 3 SYNTHESIS OF COMPOUND 4 [0658] Impurities: [0659] An impurity (Impurity 3-1) was identified during this step of the Example. Impurity 3-1 was a succinimide having the following structure: [0660] 1 H NMR of crude Compound 3 in FIG.23. [0661] 7.25 % succinimide was detected by HNMR in isolated crude Compound 3. This byproduct may affect one or more of the following step and potentially form new impurities (e.g., open the ethylene oxide). In certain prophetic embodiments, the method of synthesizing Compound 4 includes controlling the lever in crude Compound 4 to reduce production of the succinimide byproduct. For example, the succinimide byproduct may be partially removed by slurring with water. However, purging may in certain cases not be effective because the slurring process is heterogeneous. [0662] Observations/ Process Changes/ Deviations [0663] As it is believed that excessive NBS may produce many impurities. Usage of NBS was calculated according the assay of Compound 3, and it was added by portions. [0664] Without being limited to any theory, it is believed that the temperature may be important for controlling impurities. A high reaction temperature at this stage is believed to Docket No. MITO-010-PCT PCT APPLICATION generate more impurities. Thus, the temperature was controlled to a temperature of 10 ℃ for this stage. [0665] Some succinimide byproduct was detected in the isolated crude product. Preferably, the succinimide byproduct is purged as much as possible by slurring with water. [0666] Batch summary Lot No. Input, SM Amount P roduct Yield Assay Purity Remarks No. Raw-material Amount Mol. wt. Mol Molar-ratio 1 Com ound 3 528 k 15015 3516 mol 10 e uiv [0668 1. Charge THF (48.00 L, 9.00 v/w) into a 100 L reactor at r.t. under N2. 2. Charge Compound 3 (7.99 kg, 1.00 equiv., assay: 66.10%, 5.28 kg by assay) into reactor at r.t. under N 2 . 3. Charge H2O (24.00 L, 4.50 v/w) into the reactor at r.t. under N2. 4. Cool down to a temperature of 10 ℃ 5. Charge NBS (6.26 kg, 1.00 equiv.) into reactor at a temperature of 10 ℃ under N 2 . 6. IPC: 1 hr HPLC. 7. Charge NBS (2.50 kg, 0.40 equiv.) into reactor at a temperature of 10 ℃ under N2. Note: the amount of additional NBS is based on the IPC result. 8. IPC: 1 hr HPLC. 9. Extract the mixture with MTBE (25.00 L, 5.00 v/w). Docket No. MITO-010-PCT PCT APPLICATION Note: emulsification and difficult to phase cut. 0. Charge 20% NaCl aqueous (10.00 L, 2.00 v/w) into the mixture. Note: NaCl (0.20 kg, 0.04 w/w). 1. Agitate, stand, and separate. 2. IPC: aqueous no produce loss. 3. Wash the organic layer with 5% NaCl aqueous (25.00 L*2, 5.00 v/w *2). Note: NaCl (2.50 kg, 0.50 w/w). 4. IPC: aqueous no produce loss. 5. Wash the organic layer with 20% NaCl aqueous (15.00 L, 3.00 v/w). Note: NaCl (3.00 kg, 0.57 w/w). 6. Dry the organic layer with Na 2 SO 4 anhydrous (5.00 kg, 1.00 w/w). 7. Filter and rinse the cake with MTBE (5.00 L, 1.00 v/w). 8. Concentrate the filtrate under vacuum at a temperature of 60 ℃ to left 15 L solvent.9. Charge n-hexane (50.00 L,10.00 v/w) into the residue. Note: solid was precipitated . 0. Concentrate the filtrate under vacuum at a temperature of 60 ℃ to left solvent (15.00 L). 1. Charge n-hexane (75.00 L, 15.00 v/w) into the residue. 2. IPC: GC (RT=9.67 min, MTBE; RT= 10.02 min, n-hexane). 3. Cool down to a temperature of 0 ℃. 4. Filter the suspension and rinse the cake with n-hexane (10.00 L, 2.00 v/w). 5. IPC: filtrate HPLC. Note: weight: 59.44 kg, assay: 0.59%, 350.70 g compound 4 of product was lost in mother liquor. 6. Dry the solid under vacuum at a temperature of 60 ℃ to obtain product as off-white solid (9.95 kg). 7. Determine weight: 9.95 kg, assay: 87.01%, yield: 99.63%, purity: 91.95%. Perform short method HPLC, LCMS, and 1 HNMR. Note: the product of step 26 contained about 7.25% Succinimide 8. W1=9.95 kg. 9. Slurry the solid with water (50.00 L, 5.00 v/w1) at a temperature of 50 ℃ for 2 hr. 0. Cool to a temperature of about 20 to 30 ℃. 1. Filter the suspension and rinse the cake with water (5.00 L, 0.2 v/w1). 2. IPC: filtrate HPLC. Docket No. MITO-010-PCT PCT APPLICATION 33. Slurry the solid with water (50.00 L, 5.00 v/w1) at r.t. for overnight. 34. Filter the suspension and rinse the cake with water (10.00 L, 1.00 v/w). 35. IPC: filtrate HPLC. Note: weight:70.34 kg, assay: 0.22%, about 155 g of Compound 4 was lost in the aqueous phase. 36. Dry the solid under vacuum at a temperature of 60 ℃ to constant weight. 37. Determine weight: 8.30 kg, assay: 91.00%, yield: 86.92%, purity: 94.13%, KF: 0.13%. The HPLC spectra of Compound 4 is shown in FIG.24. f. STEP 4-5 SYNTHESIS OF COMPOUND 6 [0670] A new impurity-1 (RT=1.977 min) was observed. While the structure of this impurity was not identified, it was determined that the new impurity can be purged in the next step. [0671] An undesired isomer was identified. The undesired isomer had the following structure: [0672] Compound 6 was also the two isomers were formed as 1/1 ratio. The undesired isomer was controlled by resolution. [0673] Observations/ Process Changes/ Deviations [0674] It was determined that the intermediate (ethylene oxide) was very active and was not well detected by HPLC. Instead, the hydrolyzed dihydroxyl material was observed by HPLC. [0675] Considering the instability of ethylene oxide intermediate, anhydrous acetonitrile/K2CO3 system was used to generate it in situ, which was then converted to Compound 5 directly without any work up. The isolated crude Compound 5 was an oily material. It was used in the next step directly to chemical resolution without purification. Docket No. MITO-010-PCT PCT APPLICATION [0676] After resolution the chemical purity of Compound 6 was significantly increased with most impurities being purged. It was determined that the undesired isomer was more crystalline than the target isomer. (+)-Dibenzoyl-D-tartaric aid, L(-)-camphorsulfonic acid, (- )-di-p-toluoyl-L-tartaric acid, (2s, 3s)-2,3-dihydroxysuccinic acid and D-camphorsulfonic acid were screened to resolute compound 5 at eight different solvents. All positive conditions promoted the undesired isomer salt to precipitate out as a solid. [0677] Finally, L-(-)-camphorsulfonic acid was used as the resolution reagent to precipitate out the majority of the undesired isomer. The mother liquor enriched with Compound 6 (right isomer) was converted to HCl salt and was crystallized to upgrade the chiral purity to 98%ee. [0678] Batch summary Step 4 Lot No. Input, 4 Product, 5 Yield Assay Purity Remarks St . p , , y y ks y : y: [ yp p p No. Raw-material Amount Mol. wt. Mol Molar-ratio Docket No. MITO-010-PCT PCT APPLICATION 2 Acetone 46.00 L N/A N/A 12.07 v/w 3 L-(-)- 358 k 23230 1541 m l 100 i [ 1 , 2. Charge Compound 4 (3.81 kg by assay, 1.00 equiv.) into the reactor at r.t. under N 2 . Note: weight1: 1.60 kg, assay: 91.30%; weight2: 2.80 kg, assay: 83.73% 3. Agitate to obtain a clear solution. 4. Charge K2CO3 (4.26 kg, 2.00 equiv.) by one portion into the reactor at r.t. under N2. 5. Heat to a temperature of 65 ℃. 6. Agitate at a temperature of 65 ℃ over 8 hr. 7. IPC: 3.1% SM was left. 8. Cool to r.t. 9. Charge K2CO3 (1.06 kg, 0.5 equiv.) by one portion into the reactor at r.t. under N2. 10. IPC: 1 hr HPLC. 11. Cool to a temperature of about 20 to about 30 ℃. 12. Charge Compound 4A (2.54 kg, 1.20 equiv.) by one portion into the reactor at a temperature of about 20 to about 30 ℃ under N 2 . 13. Heat to a temperature of 80℃. 14. Agitate for at a temperature of 80 ℃ overnight. 15. IPC: HPLC. 16. Cool to r.t. 17. Filter the suspension and rinse the cake with ACN (10.00 L, 2.50 v/w). 18. Concentrate the filtrate under vacuum at 60 ℃ to dryness. 19. Crude product weight: 5.30 kg. 20. Charge MTBE (20.00 L, 5.00 v/w) into the residue to get red solution. 21. Wash solution with NaHSO4 aqueous (20.00 L, 5.00 v/w) at a temperature of about 10 to about 20 ℃. Note: NaHSO4 (1.85 kg, 1.00 equiv.); exothermic obviously Docket No. MITO-010-PCT PCT APPLICATION 22. Wash the organic layer with NaHSO4 aqueous (20.00 L, 5.00 v/w). Note: NaHSO4 (0.93 kg, 0.50 equiv.). 23. Combine the aqueous layer from step 17 and step 18. 24. IPC: HPLC of organic layer showed no product was lost, but did show impurities. 25. Charge fresh MTBE (20.00 L, 5.00 v/w) into the resulting combined aqueous layer. 26. Charge NaOH (1.10 kg, 1.80 equiv.) in H2O (18.00 L, 3.00 v/w) dropwise into the combined aqueous layer to pH=10~11 at a temperature of about 10 toa bout 20 ℃. Note: exothermic obviously. 27. Agitate, stand, and separate the mixture. 28. Extract the aqueous layer with MTBE (12.00 L, 3.00 v/w). 29. Wash the combined organic layer with H 2 O (2 * 30.00 L, 2 * 5.00 v/w). 30. Concentrate the organic layer under vacuum at a temperature of about 50 to about 60 ℃ to constant weight. 31. Weight: 3.86 kg, Purity: 99.11%, Yield: 92.48%; then HPLC. Resolution: all material was calculated by weight of compound 4 (w= 3.81 kg by assay, 15.42 mol). 1. Charge crude compound 5 (3.86 kg, 1.00 equiv.) into a 100 L reactor. 2. Charge acetone (20.00 L, 5.25 v/w) into the reactor to get clear solution. 3. Heat up to a temperature of 50 ℃. 4. Charge the solution of L-(-)-Camphorsulfonic acid (3.58 kg, 1.00 equiv.) in acetone (20.00 L, 5.25 v/w) dropwise into the reactor at 50~55 ℃. 5. Agitate at a temperature of about 50 to about 55 ℃ for 45 min at reflux under N2. 6. Cool to a temperature of about 0 to about 5 ℃ under N2. 7. Filter the suspension and rinse the cake with acetone (6.00 L, 1.57 v/w). 8. IPC: solid Chiral HPLC. Filtrate Chiral HPLC. 9. Concentrate the filtrate under vacuum at a temperature of about 55 to about 60 ℃ to left solvent (1.00~2.00 v/w). 10. Charge H2O (12.00 L, 3.15 v/w) into the reactor. 11. Concentrate the mixture under vacuum at a temperature of about 50 to about 60℃ to left solvent (3.00 v/w). 12. Cool to a temperature of about 0 to about 10 ℃. 13. Charge NaOH (463.00 g, 0.75 equiv.) in H2O (8.00 L, 2.10 v/w) dropwise into the reactor at 0~10 ℃. Docket No. MITO-010-PCT PCT APPLICATION Note: pH=13. 4. Extract the mixture with MTBE (2*10.00 L, 2* 2.62 v/w). 5. Wash the combined organic layer with H 2 O (15.00 L, 3.94 v/w). 6. IPC: pH= 8~9. 7. Dry the organic layer with Na 2 SO 4 (1.92 kg, 0.50 w/w). 8. Filter the suspension and rinse the cake with MTBE (3.00 L, 0.78 v/w1). 9. Concentrate the filtrate under vacuum at 50~60℃ to dryness. 0. Charge i-PrOAc (6.00 L, 1.57 v/w) into the residue. 1. Concentrate the solution under vacuum at a temperature of about 50 to about 60℃ to dryness. 2. Charge i-PrOAc (4.00 L, 1.04 v/w) into the residue to get clear solution A. 3. Charge i-PrOH (4.00 L, 1.04 v/w) into reactor 2. 4. Cool the reactor 2 to a temperature of about 0 to about 10℃ under N2. 5. Charge AcCl (730.00 g, 0.60 equiv.) dropwise into the reactor 2 at a temperature of about 0 to about 10 ℃ over 1 hr under N 2 . 6. Agitate the reactor 2 at a temperature of about 0 to about 10 ℃ for 4 hr under N 2 . 7. Charge solution A from Step 22 dropwise into reactor 2 at a temperature of about 0 to about 10 ℃ over 1 hr under N 2 . Note: clear solution. 8. Charge seed of compound 6 (0.50 g, 0.013% w/w) into reactor 2 at a temperature of about 0 to about 10 ℃ under N 2 . 9. Agitate reactor 2 at a temperature of about 0 to about 10 ℃ for about 12 to about 16 hr under N2. 0. Filter the suspension and rinse the cake with i-PrOH/ i-PrOAc (v/v=1/1, 2.00 L, 0.52 v/w). 1. IPC: solid chiral HPLC. Note: mother liquor weight 9.07 kg, assay 1.3%. 118 g compound 6 was lost in mother liquor. 2. Dry solid under vacuum at a temperature of about 50 to about 60 ℃ to constant weight. 3. Determine weight: 1.91 kg, chiral Purity: 99.52%, yield: 35.57%, assay: 95.00%, purity: 99.80%, and HPLC. The HPLC spectra for Compound 6 can been seen in FIG.25. The chiral HPLC spectra for Compound 6 can bee seen in FIG.26. g. STEP 6 SYNTHESIS OF COMPOUND 7 Docket No. MITO-010-PCT PCT APPLICATION [0681] Impurities [0682] An impurity (Intermediate 6A) was identified having the following structure: [0683] Intermediate 6A was under basic condition. With extra base, Intermediate 6A converted to aziridine quickly. The aziridine is very active and could be monitored by HPLC. [0684] A potential impurity (Potential Impurity 6-1) was identified having the following structure: [0685] Potential Impurity 6-1 may This potential impurity may be purged after the purification by salt formation. As it wasn’t observed at isolated Compound 7, it wasn’t isolated and characterized during this Example. [0686] Observations/ Process Changes/ Deviations [0687] Benzylamine was used in this step instead of 2,4-dimethoxybenzylamine because following cleavage using TFA is very harsh and yield an unclean reaction(s). By replacing with benzylamine, using hydrogenation to do the deprotection should in certain embodiments yield a clean reaction. [0688] Attempts were made to use ammonia to replace 2,4-dimethoxybenzylamine because it theoretically would directly afford desired Compound 8 without any deprotection step. Literature reports some similar reaction worked well using ammonia. But it was determined that using ammonia yielded a messy reaction with undesired impurities. The major impurity is from the competition reaction by water and only a limited amount desired product was observed. Docket No. MITO-010-PCT PCT APPLICATION O O NH O N Ms O N NH HCl N Batch No. SM, 6 Conditions IPC Product, 8 n [0 iso lation and purification quite difficult. It was determined that the HCl salt formed of Compound 7 was a good white solid. Thus, Compound 7 was converted to a HCl salt in this Example. Through the salt formation, Compound 7 can be isolated with high purity. [0690] It was found some batches couldn’t be used for the next hydrogenation step directly. The material was slurried with THF/i-PrOAc twice again and then was determined to be suitable for the next step. [0691] The intermediate was determined to be very active and hard to monitor by HPLC. Thus, TLC was used to track the intermediate. [0692] Ms2O was also not very stable at room temperature and became less potent with prolonged storage time. It is important to use fresh and qualified Ms 2 O. [0693] Without being limited to any particular theory, the equiv. of TEA is believed to be an important parameter. Less TEA may promote incomplete conversion while excess may lead the active intermediate easier to decompose. Its equiv. is associated with the equiv. of Ms2O used. Docket No. MITO-010-PCT PCT APPLICATION [0694] Batch summary Lot No. Input, SM Amount P roduct Yield Assay Purity Remarks o 1 Compound 6 1.81 kg 303.76 5.97 mol 1.00 equiv. 1. Charge DCM (18.00 L, 10.00 v/w) into a 100 L reactor at r.t. under N 2 . 2. Charge compound 6 (1.91 kg, assay: 95.00 %, 1.00 equiv.) into the reactor at r.t. under N 2 . 3. Cool to a temperature of about 0 to about 10 ℃ under N2. 4. Charge Ms 2 O (1.35 kg, 1.30 equiv.) dropwise into the reactor at a temperature of about 0 to about 10 ℃ under N 2 . 5. Charge TEA (1.63 kg, 2.70 equiv.) in DCM (10.00 L, 5.00 v/w) dropwise into the reactor under N 2 a temperature of about 0 to about 10 ℃. 6. Agitate at a temperature of about 0 to about 10 ℃ for 60 min under N 2 . 7. IPC: TLC some SM was remained 8. Charge Ms 2 O (100.00 g, 0.10 equiv.) dropwise into the reactor at a temperature of about 0 to about 10 ℃ under N2. Docket No. MITO-010-PCT PCT APPLICATION . Charge TEA (126.00 g, 0.21 equiv.) into the reactor under N2 at a temperature of about 0 to about 10 ℃. 0. Agitate at a temperature of about 0 to about 10 ℃ for 60 min under N2. 1. IPC: TLC SM was consumed almost completely. (DCM/EtOAc=2/1). 2. Charge compound 6B (1.28 kg, 2.00 equiv.) into the reactor at a temperature of about 0 to about 10 ℃. Note: The mixture became turbid in 3-4 hours, and then turn to a clear solution after 5 hr. 3. Agitate for overnight at a temperature of about 20 to about 30 ℃ under N 2 . 4. IPC: 18 hr HPLC the reaction was done 5. Cool to a temperature of about 0 to about 10 ℃. 6. Charge 10% citric acid monohydrate aqueous (10.00 L, 5.00 v/w) dropwise into the reactor at a temperature of about 0 to about 10 ℃. Note: citric acid monohydrate (0.91 kg, 0.50 w/w). 7. Agitate, stand and phase cut. 8. Wash the organic layer with brine (10.00 L, 5.00 v/w). Note: NaCl (2.53 kg, 1.40 w/w). 9. Wash the organic layer with 5% NaOH aqueous (15.00 L, 3.00 v/w). Note: NaOH (0.78 kg, 0.15 w/w). 0. Wash the combined organic layer with H2O (2* 25.00 L, 2* 5.00 v/w). 1. Dry the organic layer with Na 2 SO 4 (5.18 kg, 2.72 w/w). 2. Filter the suspension and rinse the cake with DCM (4.00 L, 2.00 v/w). 3. Concentrate the filtrate under vacuum at a temperature of about 50 to about 60 ℃ to left solvent (1~2 v/w) to obtain solution A. 4. Charge IPA (3.62 L, 2.00 v/w) into the reactor 2 at a temperature of 0 to 10 ℃. 5. Charge AcCl (935.50 g, 2.00 equiv.) dropwise into the reactor2 at a temperature of 0 to 10 ℃ under N 2 . 6. Agitate for 4 hr at a temperature of 0 to 10 ℃ to obtain a solution B under N 2 . 7. Charge solution A from step 23 dropwise into the solution B in reactor 2 at a temperature of 0 to 10 ℃ under N 2 . 8. Agitate for overnight at a temperature of about 0 to about 5 ℃ under N 2 . 9. Concentrate the filtrate under vacuum at a temperature of about 50 to about 60 ℃ to left solvent (1~2 v/w). 0. Charge THF (10.00 L, 5.00 v/w) into the reactor. Docket No. MITO-010-PCT PCT APPLICATION 31. Concentrate the filtrate under vacuum at a temperature of about 50 to about 60 ℃ to left solvent (1~2 v/w). 32. Charge THF (8.00 L, 4.00 v/w) into the reactor. 33. Charge i-PrOAc (10.00 L, 5.00 v/w) into the reactor. 34. Agitate at r.t for 2~3 days to obtain white suspension. Note: the prolonged agitation time is to ensure a fine suspension is formed otherwise some large lumps may presented and affect the purging ability. 35. Filter the suspension and rinse the cake with i-PrOAc/THF (v/v=1/1, 2.00 L, 1.00 v/w). 36. Dry the solid under vacuum at 50~60 ℃ to constant weight. 37. Determine weight: 2.50 kg, assay: 82.30%, purity: 98.33%, yield: 80.24%, and HPLC (see FIG.27). h. STEP 7 SYNTHESIS OF COMPOUND 8 [0697] Impurities [0698] An impurity (Impurity 7-1) having the following structure was identified: [0699] Impurity 7-1 was detected when using HCOONH 4 or HCOOK reduction condition. Further study showed it could be generated from starting material (Compound 7), but is not produced from Compound 8. [0700] Another impurity (Impurity 7-2) having the following structure was identified: Docket No. MITO-010-PCT PCT APPLICATION [0701] Impurity 7-2 was also detected when using HCOONH 4 or HCOOK reduction condition. [0702] Observations/ Process Changes/ Deviations [0703] HCOONH 4 and HCOOK, as hydrogen sources, were screened with different solvent. Two major impurities, Impurity 7-1 and Impurity 7-2, were formed. The lever of those two impurities is believed to be strongly connected with reaction speed. Without being limited to any particular theory, it is believed that when the reaction was not fast, the two impurities were generated. In certain embodiments, this reduction method may be used as it avoids the usage of hydrogenator. N o SM, 7 Conditions IPC Product, 8 f f te Docket No. MITO-010-PCT PCT APPLICATION Acetic Acid (10 v/w) 2 hr 16 hr No produ 1239- H 2 O (1 ct was formed 2 .5 v/w) (PDF: (PDF: H K i The impurity 7-2 was 5 n e n reduc ng reagent. [0705] A salt form of Compound 8 was studied. TsOH salt form of Compound 8 was selected for ease of preparation and non-hydroscopic nature. The isolated TsOH salt of Compound 8 was determined to be suitable for the last coupling step without free base process. Meanwhile the salt formation further purges impurities in the free base and ensures the impurity control for the last GMP step. [0706] Batch summary Lot No. Input, SM Amount P rod ct Yield Assay Purity Remarks Docket No. MITO-010-PCT PCT APPLICATION Assay: 84.26% 4.58 kg was isolated as TsOH salt, it was used as GMP raw material. [0707] Typical operation procedure (E60523-21596-018) 1 Raw-material Amount Mol. wt. Mol Molar-ratio 1 Compound 7 987.60 g (by 429.36 2.30 mol 1.00 equiv. 2. Charge H 2 O (3.50 L, 3.50 v/w) into the reactor at r.t. 3. Charge Compound 7 (987.60 g by assay, 1.00 equiv.) into the reactor at r.t. Note: weight of crude: 1.20 kg, assay: 82.30%. 4. Charge 10% Pd/C (100.00 g, 0.1 w/w) into the reactor. 5. Exchange inner atmosphere of reactor with H 2 bag. 6. Agitate at a temperature of 30 ℃ under H2 bag until SM<1%. 7. Combine the reaction mixture with 21596-015/016/017/018/019 to filter. w1=6.50 kg from this step. 8. Filter the suspension and rinse the cake with i-PrOH/H 2 O (v/v=1/1, 13.00 L, 2.00 v/w1). 9. Concentrate the filtrate under vacuum at a temperature of 55 ℃ to remove i-PrOH. 10. Cool the residue to a temperature of about 0 to about 10 ℃. 11. Charge NaOH (1235.00 g, 2.0 equiv.) in H 2 O (6.50 L, 1.0 v/w1) dropwise into the reactor at a temperature of about 0 to about 10 ℃ to adjust pH to 12~13. Docket No. MITO-010-PCT PCT APPLICATION 12. Extract the mixture with DCM (32.50 L, 5.00 v/w1; 16.25 L, 2.50 v/w1). 13. IPC showed there is no loss in aqueous layer by HPLC. 14. Wash the organic layer with H 2 O (2 * 16.25 L, 2* 2.50 v/w1). 15. IPC showed there is no loss in aqueous layer by HPLC. 16. Dry the organic layer with Na 2 SO 4 anhydrous (1.00 w/w1, 6.50 kg). 17. Filter the suspension and rinse the cake with DCM (6.50 L, 1.00 v/w1). 18. Concentrate the filtrate under vacuum at a temperature of 55 ℃ to constant weight (2.79 kg). w2=2.79 kg from this step (weight of crude compound 8-free base). 19. Charge MTBE (28.00 L, 10.00 v/w2) into the reactor at r.t. under N2. 20. Charge Compound 8 (2.79 kg,1.00 equiv. of crude compound 8-free base) into the reactor. 21. Charge TsOH·H 2 O (2.0 kg, 1.0 equiv. of crude Compound 8-free base) into the reactor in portion. 22. Agitate for a period of overnight at a temperature of about 20 to 30 ℃. 23. Filter the suspension and rinse the cake with MTBE (5.50 L, 2.00 v/w2). 24. IPC: filtrate HPLC. 25. Dry the solid under vacuum at a temperature of 55 ℃ over 24 hr to constant weight. 26. Determine weight: 4.58 kg, yield: 98.35%, Yield: 90.57%, and HPLC. FIG.28 shows a representative HPLC spectra for Compound 8 of Scheme 9, at different scales. FIG.29 shows a HPLC spectra for a higher purity sample of Compound 8 of Scheme 9. i. STEP 8 SYNTHESIS OF CRUDE MTK410088 (CRUDE EP-0041088) [0709] [0710] Unconsumed starting materials were identified. For instance, Compound 8 and Compound 8A, which are shown below, were found with the final compound (MTK41088). Compound 8 and Compound 8A could be purged by slurry with DCM. Docket No. MITO-010-PCT PCT APPLICATION Compound 8 Compound 8A [0711] [0712] n-BuOH, 2-BuOH, and t-BuOH as reaction solvents were evaluated, the result showing a high temperature could improve the reaction speed, but the purity of the reaction mixture may be lower than if a low temperature was used. For this Example, 2-BuOH was employed as the reaction solvent. [0713] DIPEA, DBU, TEA, DABCO and K2CO3 were evaluated for use as a base. Positive result was obtained when DIPEA was used as the base. The unconsumed compound 8 could be purged by workup completely. [0714] The crude product was slurried with DCM to purge impurities as amorphous material. The isolated amorphous material typically contained some DCM residual. It was difficult to remove by drying, but could be removed by slurring with water. However, the amorphous material will be slowly transformed to crystalline compound with prolonged reaction time. [0715] Batch summary Lot No. Input, SM Amount P roduct Yield Assay Purity Remarks [0716] Typical operation procedure (S109113C-2201) No. Raw-material Amount Mol. wt. Mol Molar-ratio [0717 1. Charge Compound 8 (3.90 kg, 1.00 equiv., 1.00 w/w) into the reactor at r.t. under N2. 2. Charge Compound 8A (2.00 kg, 1.00 equiv., 0.51 w/w) into the reactor. Docket No. MITO-010-PCT PCT APPLICATION . Charge 2-BuOH (28.00 kg, 7.27 w/w) into the reactor. . Charge DIPEA (4.60 kg, 4.00 equiv., 1.18 w/w) into the reactor. . Heat to reflux (at temperature of about 95 to about 105 ℃) under N2. . Agitate for 72 hr at a temperature of about 95 to about 105 ℃ under N2. . IPC1: S111170/(S111170+S109113) =1.2%<3.0%. . Cool to a temperature of about 45 to about 55 ℃ under N2. . Concentrate the reaction mixture under vacuum at a temperature of about 50 to about 60 ℃ to left solvent (11.70 L, 3.00 v/w). 0. Cool to at a temperature of about 20 to about 30 ℃ under N2. 1. Charge i-PrOAc (35.26 kg, 8.73 w/w) into the reactor at a temperature of about 20 to about 30 ℃ under N 2 . 2. Charge H2O (40.12 kg, 10.00 w/w) into the reactor at a temperature of about 20 to about 30 ℃ under N2. 3. Agitate, stand, and phase separate at a temperature at about 20 to about 30 ℃ under N 2 . 4. Extracted the aqueous with i-PrOAc (10.17 kg, 2.62 w/w) at a temperature of about 20 to about 30 ℃ under N2. 5. Wash the organic layer with NaCl aqueous (13.50 kg, 3.33 w/w) at a temperature of about 20 to about 30 ℃ under N2. Note: NaCl (1.30 kg, 0.33 w/w), H2O (12.20 kg, 3.00 w/w). 6. Wash the organic layer with NaCl aqueous (13.50 kg, 3.33 w/w) at a temperature of about 20 to about 30 ℃ under N2. Note: NaCl (1.30 kg, 0.33 w/w), H 2 O (12.20 kg, 3.00 w/w). 7. Wash the organic layer with NaCl aqueous (13.41 kg, 3.33 w/w) at a temperature of about 20 to about 30 ℃ under N 2 . Note: NaCl (1.33 kg, 0.33 w/w), H2O (12.08 kg, 3.00 w/w). 8. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (3.90~7.80 L, 1.00~2.00 v/w). 9. Charge DCM (26.65 kg, 6.62 w/w) into the reactor. 0. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (3.90~7.80 L, 1.00~2.00 v/w). Note: solid precipitation. 1. Charge DCM (26.65 kg, 6.62 w/w) into the reactor. Docket No. MITO-010-PCT PCT APPLICATION 2. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (3.90~7.80 L, 1.00~2.00 v/w). Note: solid precipitation. 3. Charge DCM (26.65 kg, 6.62 w/w) into the reactor. 4. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (11.70~15.60 L, 3.00~4.00 v/w). Note: solid precipitation. 5. Cool to a temperature of about 0 to about 10 ℃ under N2. 6. IPC2-1: i-PrOAc/(i-PrOAc + DCM)=20.42% >10.0%, unqualified. 7. Charge DCM (26.65 kg, 6.62 w/w) into the reactor. 8. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (3.90~7.80 L, 1.00~2.00 v/w). Note: solid precipitation. 9. Charge DCM (26.65 kg, 6.62 w/w) into the reactor. 0. Concentrate the organic layer under vacuum at a temperature of about 45 to about 55 ℃ to left the residual (11.70~15.60 L, 3.00~4.00 v/w). Note: solid precipitation. 1. Cool to a temperature of about 0 to about 10 ℃ under N 2 . 2. IPC2-2: i-PrOAc/(i-PrOAc + DCM)=16.51% >10.0%, unqualified. 3. Agitate at a temperature of about 0 to about 10 ℃ for 5 hr under N2. 4. Filter the suspension and rinse the cake with DCM (5.20 kg, 1.33 w/w). Note: wet weight of solid: 5.71 kg; weight of filtrate: 6.60 kg, assay: 1.26%,83.16 g (2.07%) was lost in mother liquor. 5. Slurry the solid with DCM (21.00 kg, 5.30 w/w). 6. Heat to reflux (35~40 ℃) under N 2 . 7. Agitate at a temperature of about 35 to about 40 ℃ for 1 hr. 8. Cool to a temperature of about 0 to about 10 ℃ under N 2 . 9. Agitate at a temperature of about 0 to about 10 ℃ for 2 hr under N2. 0. Filter the suspension and rinse the cake with DCM (8.03 kg, 1.99 w/w). Note: wet weight of solid: 5.69 kg; weight of filtrate: 24.13 kg, assay: 0.11%, 26.54 g (0.66%) was lost in mother liquor. 1. IPC3: purity: 100.00%, qualified (unknown impurity NMT 0.15%; total impurity NMT 2.0%). Docket No. MITO-010-PCT PCT APPLICATION 42. Dry the solid under vacuum at a temperature of about 50 to about 60 ℃ to constant weight. 43. Determine weight of off-white solid: 3.53 kg, yield: 87.92 %, purity: 100.00 % DCM residual: 1049 ppm. FIG.30 shows a representative IR spectra for the amorphous end product of Scheme 9. FIG.31 shows a representative HPLC spectra at different scales for the amorphous end product of Scheme 9. j. STEP 9 SYNTHESIS OF MTK410088 O (R) O (R) F [0718] Impurities [0719] No impurity were observed in an amount of more than 0.15%. [0720] Observations/ Process Changes/ Deviations [0721] Type A was obtained by slurry with IPA-H 2 O system at a temperature of 50~60 ℃ to 20~30℃. The process was quite robust. [0722] Batch Summary Lot No. Input, SM Amount P roduct Yield Assay Purity Remarks [0723] Typical operation procedure No. Raw-material Amount Mol. wt. Mol Molar-ratio Docket No. MITO-010-PCT PCT APPLICATION . Charge EtOH (11.57 kg, 3.16 w/w) into a glass jacket reactor 1 equipped with over-head agitator and thermometer at r.t. under N2. . Charge crude amphorous end product (3.49 kg, 1.0 equiv.) into reactor 1 at a temperature of about 20 to about 30 ℃ under N2. . Agitate at a temperature of about 20 to about 30 ℃ over 1 hr under N2. . IPC1: a clear solution. . Filter the solution through in-line filter into the glass jacket reactor 2 equipped with over- head agitator and thermometer at a temperature of about 20 to about 30 ℃. . Rinse reactor 1 with EtOH (1.40 kg, 0.40 w/w) and then through in-line filter into reactor 2. . Heat reactor 2 to a temperature of about 50 to about 60 ℃ under N 2 . Note: a clear solution. . Charge purified water (9.11 kg, 2.50 w/w) dropwise into the reactor at a temperature of about 50 to about 60℃ under N 2 . Note: the purified water was obtained through in-line filter. . IPC2: a clear solution. 0. Charge purified water (0.72 kg, 0.2 w/w) dropwise into the reactor at a temperature of about 50 to about 60℃ under N 2 . Note: the purified water was obtained through in-line filter. 1. IPC3: a clear solution. 2. Charge purified water (0.74 kg, 0.2 w/w) dropwise into the reactor at a temperature of about 50 to about 60℃ under N2. Note: the purified water was obtained through in-line filter. 3. IPC4: muddy. 4. Charge seed (124.00 g, 0.035 w/w) into the reactor at 50~60℃ under N 2 . Note: much solid was precipitated. 5. Agitate for 2 hr at a temperature of about 50 to about 60℃ under N2. Note: more solid was precipitated. 6. Charge purified water (29.50 kg, 8.8 w/w) dropwise into the reactor at a temperature of about 50 to about 60℃ under N 2 . Note: the purified water was obtained through in-line filter. 7. Cool to a temperature of about 20 to about 30 ℃ over 4 to 5 hr under N2. 8. Agitate at a temperature of about 20 to about 30 ℃ over 16 hr under N2. Docket No. MITO-010-PCT PCT APPLICATION 9. Filter the suspension and rinse the cake with purified water (7.00 kg, 2.00 w/w). Note: the purified water was obtained through in-line filter. 0. IPC5: KF: 1.76 %, XPRD in progress. 1. Dry the solid under vacuum at a temperature of about 60 to about 65 ℃ to constant weight. 2. Measure weight: 3.40 kg, yield: 97.42 %, purity: 99.92%, and HPLC. FIG.32 shows a representative HPLC spectra at different scales for the desired end product of Scheme 9.