Sample preparation methods following cellsearch approach compatible of single-cell whole-genome amplification: An overview

Methods in Molecular Biology

Volumn 1347, Issue , 2015, Pages 57-67

  Swennenhuis, Joost F ^a   Leon, Terstappen ^a  

^a NONE

Author keywords

CellSearch; Circulating tumor cells; DEPArray; Laser capture microdissection; Microfluidics; Micromanipulation; Rare cells; Sample pre enrichment; Single cell whole genome amplification

Indexed keywords

CANCER PATIENT; CELL DIFFERENTIATION; CELL ISOLATION; CELLSEARCH SYSTEM; CIRCULATING TUMOR CELL; COST; DEPARRAY; DOWNSTREAM PROCESSING; FLOW CYTOMETRY; FLUORESCENCE ACTIVATED CELL SORTING; GENE AMPLIFICATION; HUMAN; IMMUNOFLUORESCENCE; LASER CAPTURE MICRODISSECTION; MICROARRAY ANALYSIS; MICROCHIP ANALYSIS; MICROFLUIDICS; MICROMANIPULATION; SEARCH ENGINE; SINGLE CELL ANALYSIS; TISSUE SECTION; WHOLE GENOME AMPLIFICATION;

EID: 84941906981     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-4939-2990-0_4     Document Type: Chapter

References (26)

1. Aggarwal S (2010) Targeted cancer therapies. Nat Rev Drug Discov 9:427–428
2. Meads MB, Gatenby RA, Dalton WS (2009) Environment-mediated drug resistance: a major contributor to minimal residual disease. Nat Rev Cancer 9:665–674
3. Pantel K, Alix-Panabières C (2013) Real-time liquid biopsy in cancer patients: fact or fi ction? Cancer Res 73:6384–6388
4. Coumans FA, Ligthart ST, Uhr JW, Terstappen LW (2012) Challenges in the enumeration and phenotyping of CTC. Clin cancer Res 18: 5711–5718
5. Heitzer E, Auer M, Gasch C, Pichler M, Ulz P, Hoffmann EM, Lax S, Waldispuehl-Geigl J, Mauermann O, Lackner C, Höfl er G, Eisner F, Sill H, Samonigg H, Pantel K, Riethdorf S, Bauernhofer T, Geigl JB, Speicher MR (2013) Complex tumor genomes inferred from single circulating tumor cells by array-CGH and nextgeneration sequencing. Cancer Res 73: 2965–2975
6. Mathiesen RR, Fjelldal R, Liestøl K, Due EU, Geigl JB, Riethdorf S, Borgen E, Rye IH, Schneider IJ, Obenauf AC, Mauermann O, Nilsen G, Christian Lingjaerde O, Børresen-Dale A-L, Pantel K, Speicher MR, Naume B, Baumbusch LO (2012) High-resolution analyses of copy number changes in disseminated tumor cells of patients with breast cancer. Int J Cancer 131:E405–E415
7. Klein CA, Blankenstein TJF, Schmidt-Kittler O, Petronio M, Polzer B, Stoecklein NH, Riethmüller G (2002) Genetic heterogeneity of single disseminated tumour cells in minimal residual cancer. Lancet 360:683–689
8. Stoecklein NH, Hosch SB, Bezler M, Stern F, Hartmann CH, Vay C, Siegmund A, Scheunemann P, Schurr P, Knoefel WT, Verde PE, Reichelt U, Erbersdobler A, Grau R, Ullrich A, Izbicki JR, Klein CA (2008) Direct genetic analysis of single disseminated cancer cells for prediction of outcome and therapy selection in esophageal cancer. Cancer Cell 13:441–453
9. Schmidt-Kittler O, Ragg T, Daskalakis A, Granzow M, Ahr A, Blankenstein TJF, Kaufmann M, Diebold J, Arnholdt H, Muller P, Bischoff J, Harich D, Schlimok G, Riethmuller G, Eils R, Klein CA (2003) From latent disseminated cells to overt metastasis: genetic analysis of systemic breast cancer progression. Proc Natl Acad Sci U S A 100: 7737–7742
10. Lohr JG, Adalsteinsson VA, Cibulskis K, Choudhury AD, Rosenberg M, Cruz-Gordillo P, Francis JM, Zhang C-Z, Shalek AK, Satija R, Trombetta JJ, Lu D, Tallapragada N, Tahirova N, Kim S, Blumenstiel B, Sougnez C, Lowe A, Wong B, Auclair D, Van Allen EM, Nakabayashi M, Lis RT, Lee G-SM, Li T, Chabot MS, Ly A, Taplin M-E, Clancy TE, Loda M et al (2014) Whole-exome sequencing of circulating tumor cells provides a window into metastatic prostate cancer. Nat Biotechnol 32(5):479–484
11. Yoshimoto N, Kida A, Jie X, Kurokawa M, Iijima M, Niimi T, Maturana AD, Nikaido I, Ueda HR, Tatematsu K, Tanizawa K, Kondo A, Fujii I, Kuroda S (2013) An automated system for high-throughput single cell-based breeding. Sci Rep 3:1191
12. Környei Z, Beke S, Mihálffy T, Jelitai M, Kovács KJ, Szabó Z, Szabó B (2013) Cell sorting in a petri dish controlled by computer vision. Sci Rep 3:1088
13. Simpson SJ, Vachula M, Kennedy MJ, Kaizer H, Coon JS, Ghalie R, Williams S, Van Epps D (1995) Detection of tumor cells in the bone marrow, peripheral blood, and apheresis products of breast cancer patients using fl ow cytometry. Exp Hematol 23:1062–1068
14. Swennenhuis JF, Reumers J, Thys K, Aerssens J, Terstappen LW (2013) Effi ciency of whole genome amplifi cation of single circulating tumor cells enriched by cell search and sorted by FACS. Genome Med 5:106
15. Schütze K, Lahr G (1998) Identification of expressed genes by laser-mediated manipulation of single cells. Nat Biotechnol 16: 737–742
16. Emmertbuck M, Bonner R, Smith P, Chuaqui R, Zhuang Z, Goldstein S, Weiss R, Liotta L (1996) Laser capture microdissection. Science 274:998–1001
17. Helzer KT, Barnes HE, Day L, Harvey J, Billings PR, Forsyth A (2009) Circulating tumor cells are transcriptionally similar to the primary tumor in a murine prostate model. Cancer Res 69:7860–7866
18. Zhao L, Lu Y-T, Li F, Wu K, Hou S, Yu J, Shen Q, Wu D, Song M, Ouyang W-H, Luo Z, Lee T, Fang X, Shao C, Xu X, Garcia MA, Chung LWK, Rettig M, Tseng H-R, Posadas EM (2013) High-purity prostate circulating tumor cell isolation by a polymer nanofi ber-embedded microchip for whole exome sequencing. Adv Mater 25(21):2897–2902
19. Pestrin M, Galardi F, Salvianti F, De Luca F, Bessi S, Capaccioli C. Molecular analysis of single circulating tumor cells (CTCs) isolated from metastatic breast cancer (mBC) patients (pts). ONCOLOGYPRO. http://oncologypro.esmo.org/Meeting-Resources/IMPAKT-2013/Molecular-analysis-of-single-circulating-tumorcells-CTCs-isolated-from-metastatic-breastcancer-mBC-patients-pts
20. Fabbri F, Carloni S, Zoli W, Ulivi P, Gallerani G, Fici P, Chiadini E, Passardi A, Frassineti GL, Ragazzini A, Amadori D (2013) Detection and recovery of circulating colon cancer cells using a dielectrophoresis-based device: KRAS mutation status in pure CTCs. Cancer Lett 335: 225–231
21. Ligthart ST, Coumans FAW, Bidard F-C, Simkens LHJ, Punt CJA, de Groot MR, Attard G, de Bono JS, Pierga J-Y, Terstappen LWMM (2013) Circulating tumor cells count and morphological features in breast, colorectal and prostate cancer. PLoS One 8:e67148
22. Coumans FAW, van Dalum G, Beck M, Terstappen LWMM (2013) Filtration parameters infl uencing circulating tumor cell enrichment from whole blood. PLoS One 8:e61774
23. Marcy Y, Ishoey T, Lasken RS, Stockwell TB, Walenz BP, Halpern AL, Beeson KY, Goldberg SMD, Quake SR (2007) Nanoliter reactors improve multiple displacement amplifi cation of genomes from single cells. PLoS Genet 3: 1702–1708
24. Stott SL, Hsu C-H, Tsukrov DI, Yu M, Miyamoto DT, Waltman BA, Rothenberg SM, Shah AM, Smas ME, Korir GK, Floyd FP, Gilman AJ, Lord JB, Winokur D, Springer S, Irimia D, Nagrath S, Sequist LV, Lee RJ, Isselbacher KJ, Maheswaran S, Haber DA, Toner M (2010) Isolation of circulating tumor cells using a microvortex-generating herringbone-chip. Proc Natl Acad Sci U S A 107:18392–18397
25. Saliba A-E, Saias L, Psychari E, Minc N, Simon D, Bidard F-C, Mathiot C, Pierga J-Y, Fraisier V, Salamero J, Saada V, Farace F, Vielh P, Malaquin L, Viovy J-L (2010) Microfl uidic sorting and multimodal typing of cancer cells in self-assembled magnetic arrays. Proc Natl Acad Sci U S A 107:14524–14529
26. Peeters DJE, De Laere B, Van den Eynden GG, Van Laere SJ, Rothé F, Ignatiadis M, Sieuwerts A M, Lambrechts D, Rutten A, van Dam P A, Pauwels P, Peeters M, Vermeulen PB, Dirix LY. Semiautomated isolation and molecular characterisation of single or highly purifi ed tumour cells from CellSearch enriched blood samples using dielectrophoretic cell sorting. Br J Cancer 108(6):1358–67