IMPROVED IMAGING OF IMMUNOMAGNETICALLY ENRICHED RARE CELLS

Cross-Reference to Related Applications

This application claims priority to and the benefit of co-pending U.S. provisional patent application Serial No. 61/054,219, filed May 19, 2008, which application is incorporated herein by reference in its entirety.

BACKGROUND

The present invention relates to improved apparatus and methods for performing qualitative and quantitative analysis of microscopic biological specimens. In particular, the invention relates to such apparatus and methods for isolating, collecting, immobilizing, and/or analyzing microscopic biological specimens or substances which are susceptible to immunospecific or non-specific binding with magnetic-responsive particles having a binding agent for producing magnetically-labeled species within a fluid medium. As used herein, terms such as "magnetically-labeled specimen" shall refer to such biological specimens or substances of investigational interest which are susceptible to such magnetic labeling. U.S. Patent No. 5,985,153 describes an apparatus and method wherein an external magnetic gradient is employed to attract magnetically labeled target specimens present in a collection chamber to one of its surfaces, and where an internal magnetic gradient is employed to obtain precise alignment of those specimens on that surface. The movement of magnetically labeled biological specimens to the collection surface is obtained by applying a vertical magnetic gradient to move the magnetically labeled biological specimens to the collection surface. The collection surface is provided with a ferromagnetic capture structure, such as plurality of ferromagnetic lines supported on an optically transparent (viewing) face of a sample chamber.

Once the magnetically labeled biological specimens are pulled sufficiently close to the surface by the externally applied gradient, they come under the influence of an intense local gradient produced by the ferromagnetic collection structure and are immobilized at positions laterally adjacent thereto. The local gradient preferably exceeds adhesion forces which can hold the biological specimens to the transparent surface after they collide with the surface. Alternatively, the adhesiveness of the surface must be sufficiently weak to allow the horizontal magnetic force to move the magnetically labeled biological specimens towards the

ferromagnetic structures. The smoothness and the hydrophobic or hydrophilic nature of the surface are factors that can influence the material chosen for the collection surface or the treatment of this surface to obtain a slippery surface.

U.S. 10/733829 and U.S. 6,790,366 describe methods and apparatus for separating, immobilizing, and quantifying biological substances in a fluid sample, incorporating the principles of the externally applied gradient described above, and further incorporate a high internal gradient magnetic capture structure on the transparent collection wall. The capture structure encourages a uniform alignment of captured biological substances for quantitative analysis with automated enumeration techniques. US 11/447562 describe small V-shaped grooves on the fluid side of the optically transparent (viewing) face of the chamber to align the target specimens for automated optical analysis. The small V-shaped grooves on the fluid side of the optically transparent (viewing) face of the chamber, and with the optimum dilution of magnetically-labeled specimens provides an alignment surface for automated optical analysis. Magnetically-labeled specimens and unbound magnetic particles move toward the inner surface of the chamber's viewing face, under the influence of the externally applied magnetic gradient. When they approach the surface, they come in contact with the slope of the V-shaped groove, forcing the magnetically-labeled specimens and unbound magnetic particles to move to the top of the groove.

US 11/344757 describe a device and method for automated collection and image anlaysis of detectably labeled rare target cells. These magnetically labeled rare cells are subjected to Time Delay Integration Imaging (TDI) in the CellTracks Platform. However when assessing circulating tumor cells (CTC) in the blood of cancer patients in order to correlate with disease activity, unbound magnetic particles that are left over from immunomagnetic separation will distort the image and interfere with confirmation of a captured target as a CTC. The present invention provides a small groove design that allows for complete removal of the unbound magnetic particles in the analysis of labeled rare cells using TDI in the CellTracks platform.

BRIEF DESCRIPTION OF THE FIGURES FIG 1 is a schematic diagram of the cell alignment structure.

FIG 2 shows a picture of the PDMS imprint using a scanning electron microscope with the smooth alignment and imaging surfaces. FIG 3 shows the transmission spectrum of a PDMS slab at 1.3 mm and a PMMA slab at 0.5 mm thickness compared with a typical glass microscope slide of 1.0 mm thick.

FIG 4 shows the effect of excess unbound magnetic particles on the intensity of the image.

Increasing levels of EpCAM ferro fluid results in a decrease in image intensity and an increase in variation in assessing intensity.

FIG 5 shows the difference in total intensities when with and without 40 ug/ml ferrofluid present. The distribution is worse with ferrfluid present.

FIG 6 shows the combined Bright field, DAPI and PE image showing aligned SKBR3 cells.

DETAILED DESCRIPTIONS

Circulating turn or cells (CTC) in blood of cancer patients are known to correlate with disease activity. The CellTracks platform provides a magnetic enrichment and image analysis of suspect target cells for enumeration and correlation with disease state. Targets such as cells, cell debris, and cell com ponents are collected ag ainst a collection surface of a vessel without subsequent alignment adjacent to a ferromagnetic collection structure. These cells include white blood cells, cells of epithelial or igin, endothelial cells, fungal cells , and bacterial cells. The collection surface is o riented perpendicular to a m agnetic field gradient produced by external magnets. The resultant im age i ncludes m agnetic nano particles and m agnetically lab eled biological specim ens, collected in a substantia Hy horn ogeneous distribution on the optically transparent face of the chamber while non-selected entities remain below in the fluid medium.

The incorporation of Time Delay Integration (US 11/344757) into the CellTracks platform in rare cell analysis is used to rapidly detect and characterize CTC. Immunomagnetic separation of target rare cells (CTC) is accom pushed by EpCAM positive selectio n. Circula ting ce 11s expressing the antigen f or the epith elial cell ad hesion molecule (EpCAM) are selected by the monoclonal antibody specific or Ep CAM and covalently linked to magnetic nanoparticles. The complex is separated from the remaining blood constituents when exposed to a magnetic field. Subsequent analysis of the cap tured target is determ ined through a series of fluorescent labeling of components within the cell. The fluor escent dye DAPI is used to label the nuclei of CTC and non-specifically select ed leukocytes, the cytoskelet on of CTC is labeled with Cytokeratine-PE and the leukocytes with CD45- APC. The labeled cells are m agnetically manipulated to align along an an aly sis surface. However in th is system, unbound m agnetic particles that are lef t ov er from immunom agnetic separation will caus e im age distortion and reduce the ability to confirm the presence of a CTC.

To provide f or spatially patterne d collec tion of target specim ens f or qualita tive and quantitative analysis of m icroscopic biologic samples, the pres ent invention relates to m aking and using pre-molded structures on the inner su rface of the im aging chamber. Generally, pre- molded grooves are long v-shaped grooves, pre- molded into the inner portion of the viewing

surface on the im aging chamber. These stru ctures provide an alignment of cells as good as or even better than previously reported Ni lines . Furthermore, they are m ade from a highly transparent material, optically suited for imaging the entire cell.

Figure 1 illustrates the principle of cell alignment using the grooves of the present invention. Magnetically induced cell m ovement within the chamber occurs in th e present of a m agnetic gradient. Here, the magnetically labeled cells will either collide with the inclined surface of the structure (alignment surface) and slide into the top of the groove (ind icated imaging surface), or they will directly hit the top of the imaging surface. In either situation, the cells will align in the groove, allowing for subsequent imaging. In order for sufficient movement along the inclined surface of the groove, the surface should be flat and cells prohibited from sticking to the walls. To achieve a sm ooth precise design, known wafer etching techno log ies are used. However because o f expense and optical requirements, silicon wafers are not appropriate , rather polydim ethylsiloxane (PDMS) replica molding provides a composition that will meet these requirements. Compositions that will meet this criteria are also considered in the present invention. Structures, etched onto a silicon wafer, are the inverse of the eventual design, and provide the PDMS mold with the correct shape when poured onto the silicon mold. Afte r curing, this shape is cut into dim ensions that would allow replacement of the glass surface of the imaging chamber.

Etching can be accom pushed on an y optically transparent m aterial that can be used in the manufacture of the chamber. By exam pie, silicon wafers can be used in etching b ecause of the ease of precision, fine detail, and easily reproduci ble. Any material with similar characteristics and known in the art is considered in the presen t invention. Etching of the structure uses two common etching techniques. First an etch m ask that is needed to etch the grooves is created. This m ask is created using BHF (Buffered Hydr ofluoric acid) etching. Once BHF etching is complete, thin layers of SiO ₂ are left on the silicon wafer at places where no groove should be etched. Anisotropic etching is also used to et ch the grooves. Here, KOH is used as etchant. When this process is applied to a properly orientated wafer, V-grooves are etched, limited by the crystal plane of the silicon wafer. Accordingly, a highly reproducible and constant etch angle is produced. The angle depends on the wafer orientation with one embodiment as shown in Figure 1 at 70.5 d egrees. An other technique is Deep Reactive Ion Etching (DRIE). By using th is technique it is possible to etch structures with a high aspect ratio (ratio between length and width of the structure). DRIE cyclically altern ates between etch and deposition steps for ming scalloped sidewalls.

PDMS molding is use d to obtain a positiv e imp rint on the f abricated wafer. PDMS or Polydimethylsiloxane (Dow Corning (Sylgard 184, Dow Corning, Midla nd, MI, USA) is a

polymer containing the siloxane bond between Si (Silicon) and O (Oxygen). The polym ers molecules are linked together to form longer polymers with an average num ber around 50 to 100.

The final P DMS is obtained with the addition of a cross-linker. The cross-linker connects with the polym ers to form long networks of pol ymers, resulting in a clear, elas tic, chemically inert, therm ally stable m aterial. After pol ymerization, the PDMS for ms a clear flexible substance w hich adheres to very few m aterials and is not hygroscopic, thus preventing any sticking of cells to th e sides due to the f act that PDMS adheres to very few m aterials. Furthermore, it is therm ally stable and transparent from approximately 300 to 900 nm . These characteristics are all important for its use in a fluorescent imaging system and the transmission of visible light. After formation, the grooves are cut into the dimensions of the viewing face of the chamber.

In order to rem ove most of the excess m agnetic particle with m inimal cell loss, the cell alignment structure shown in Figure 1 was developed for the viewing surface. Figure 1 provides an overview of the cell alignm ent structure. A PDMS m icrostructure shown in Figure 1 was developed to align th e cells in predeterm ined areas and reduc e im aging tim e. The design consists of a PDMS chip of 30x2.7 mm ² containing 6 channels that are 80 um wide and 30 mm long. Thes e PDMS chips are imprinted from a wafer mold. W e chose PDMS because of its excellent transmission properties, replicating capabilities and ease of u se. This configuration reduces the imaging time for a sample from 32 to 12 minutes.

Figure 2 shows a scanning electron micrograph of a PDMS imprint having the structure used in the present invention. The p icture shows the smooth alignment and imaging surfaces on the viewing surface.

Figure 3 compares the transmission spectrum of the th ickness of the PDMS used in the present invention with a typical glass m icroscope slide. W ith a thickness of 0.5 mm, PMM A tracks the transmission of a glass microscope slide between 400 nm and 800 nm wavelengths.

Excess of conjugated m agnetic particles (EpCAM -ferrofluid) are used to ensure m aximum CTC recovery. Howeve r, during imaging the excess ferrofluid for ms elongated aggregates on the imaging surface, which influences quantitative and qualitative imaging of the cells. Figure 4 shows the effect of excess unbound m agnetic particles on imaging. The to tal nuclear intensity drops sharply for concentrations of ferrofluid higher than 2 ug/ml (circles), while the CV rises to 40% for concentrations that are normally found in patient samples, such as 40 ug/ml (triangles).

The effect of excess ferrofluid on imaging a nd the results of the rem oval method are shown in Figure 5. SKBR-3 cells im aged with 40 ug/m 1 ferrofluid c oncentrations and with 0 ug/m 1

ferro fluid. The distribution of total intensities is significantly worse for the sample with excess ferro fluid.

The present invention avoids this issue and provides a m ethod that spins the sample inside a conical tube at 900 rpm . This forces all the cells in the tube outwards. The ferrofluid particles are much smaller (-175 nm in diameter) and remain randomly distributed in the sample. After several minutes, 60% o f the sam pie is autom atically aspirated from the bottom of the rota ting tube. This process is repeated 5 tim es and the SKB R- 3 cells aligned along the viewing surface using the PDMS structure in the present inven tion. Figure 6 shows the combined bright field, DAPI and PE image of captured SKBR-3 cells aligned along the viewing surface. Using the method of the present invention, 95% to 97% of excess ferrofluid can be removed, brining the final concentration in a patien t sample down to less than 2 ug/m 1. This rem oves enough excess ferrofluid to m ake optim al quant itative m easurements and considerable improvements in the qua lity of images. Also, th e recovery of CTCs ranted betwe en 95% and 99%. Accordingly, ferrofluid removal, using the methods of the present invention, provides for sufficient removal of ex cess ferrofluid for optimal quantitative m easurements. The quality of the images are improved and bright field im aging is possible to obtain add itional morphological data on individual CTCs.

While certain of the preferred embodiments of the present invention have been described and specifically exemplified above, it is not intended that the invention be limited to such embodiments. Various modification may be made thereto without departing from the spirit of the present invention, the full scope of the improvements are delineated in the following claims.