Title:
METHODS AND SYSTEMS FOR ANALYZING NUCLEIC ACID MOLECULES
Document Type and Number:
WIPO Patent Application WO/2018/119452
Kind Code:
A3
Abstract:
The disclosure provides methods for processing nucleic acid populations containing different forms (e.g., RNA and DNA, single-stranded or double-stranded) and/or extents of modification (e.g., cytosine methylation, association with proteins). These methods accommodate multiple forms and/or modifications of nucleic acid in a sample, such that sequence information can be obtained for multiple forms. The methods also preserve the identity of multiple forms or modified states through processing and analysis, such that analysis of sequence can be combined with epigenetic analysis.
Inventors:
KENNEDY ANDREW (US)
MORTIMER STEFANIE ANN WARD (US)
ELTOUKHY HELMY (US)
TALASAZ AMIRALI (US)
ABDUEVA DIANA (US)
SCHULTZ MATTHEW (US)
MORTIMER STEFANIE ANN WARD (US)
ELTOUKHY HELMY (US)
TALASAZ AMIRALI (US)
ABDUEVA DIANA (US)
SCHULTZ MATTHEW (US)
Application Number:
PCT/US2017/068329
Publication Date:
August 09, 2018
Filing Date:
December 22, 2017
Export Citation:
Assignee:
GUARDANT HEALTH INC (US)
International Classes:
C12Q1/6806; C12Q1/6827
Domestic Patent References:
| WO2017184707A1 | 2017-10-26 | |||
| WO2017181161A1 | 2017-10-19 | |||
| WO2018005811A1 | 2018-01-04 |
Foreign References:
| EP2805769A1 | 2014-11-26 |
Other References:
JASON A REUTER ET AL: "Simul-seq: combined DNA and RNA sequencing for whole-genome and transcriptome profiling", NATURE METHODS, vol. 13, no. 11, 10 October 2016 (2016-10-10), pages 953 - 958, XP055472667, ISSN: 1548-7091, DOI: 10.1038/nmeth.4028
SIDDHARTH S DEY ET AL: "Integrated genome and transcriptome sequencing of the same cell", NATURE BIOTECHNOLOGY, vol. 33, no. 3, 19 January 2015 (2015-01-19), pages 285 - 289, XP055403396, ISSN: 1087-0156, DOI: 10.1038/nbt.3129
BASANT KUMAR THAKUR ET AL: "Double-stranded DNA in exosomes: a novel biomarker in cancer detection", CELL RESEARCH - XIBAO YANJIU, vol. 24, no. 6, 8 April 2014 (2014-04-08), GB, CN, pages 766 - 769, XP055240739, ISSN: 1001-0602, DOI: 10.1038/cr.2014.44
PHILIP BURNHAM ET AL: "Single-stranded DNA library preparation uncovers the origin and diversity of ultrashort cell-free DNA in plasma", SCIENTIFIC REPORTS, vol. 6, no. 1, 14 June 2016 (2016-06-14), XP055472868, DOI: 10.1038/srep27859
SIDDHARTH S DEY ET AL: "Integrated genome and transcriptome sequencing of the same cell", NATURE BIOTECHNOLOGY, vol. 33, no. 3, 19 January 2015 (2015-01-19), pages 285 - 289, XP055403396, ISSN: 1087-0156, DOI: 10.1038/nbt.3129
BASANT KUMAR THAKUR ET AL: "Double-stranded DNA in exosomes: a novel biomarker in cancer detection", CELL RESEARCH - XIBAO YANJIU, vol. 24, no. 6, 8 April 2014 (2014-04-08), GB, CN, pages 766 - 769, XP055240739, ISSN: 1001-0602, DOI: 10.1038/cr.2014.44
PHILIP BURNHAM ET AL: "Single-stranded DNA library preparation uncovers the origin and diversity of ultrashort cell-free DNA in plasma", SCIENTIFIC REPORTS, vol. 6, no. 1, 14 June 2016 (2016-06-14), XP055472868, DOI: 10.1038/srep27859
Attorney, Agent or Firm:
STRONCEK, Jacqueline et al. (US)
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