The Cancer BioChip System: A Functional Genomic Assay for Anchorage-Independent Three-Dimensional Breast Cancer Cell Growth

Hormones and Cancer

Volumn 3, Issue 5-6, 2012, Pages 261-270

  Abbud Antaki, Rula A ^a   Marhefka, Joie N ^a   DeLuca, Aimee L ^a   Zuromskis, Michael P ^a  

^a Falcon Genomics Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EPIDERMAL GROWTH FACTOR RECEPTOR; ESTROGEN RECEPTOR ALPHA; LENTIVIRUS VECTOR; SMALL INTERFERING RNA;

ANCHORAGE INDEPENDENT THREE DIMENSIONAL CANCER CELL GROWTH; ARTICLE; ASSAY; BIOCHIP; BREAST CANCER; CANCER BIOCHIP SYSTEM; CANCER CELL CULTURE; CANCER GROWTH; CELL STRAIN MCF 7; GENE SILENCING; GENETIC TRANSFECTION; HUMAN; HUMAN CELL; HUMAN CELL CULTURE; IMAGING; PRIORITY JOURNAL;

EID: 84869092533     PISSN: 18688497     EISSN: 18688500     Source Type: Journal    
DOI: 10.1007/s12672-012-0116-8     Document Type: Article

References (44)

1. Jorgensen RA, Cluster PD, English J, Que Q, Napoli CA (1996) Chalcone synthase cosuppression phenotypes in petunia flowers: comparison of sense vs. antisense constructs and single-copy vs. complex T-DNA sequences. Plant Mol Biol 31: 957-973.
2. Matzke AJ, Neuhuber F, Park YD, Ambros PF, Matzke MA (1994) Homology-dependent gene silencing in transgenic plants: epistatic silencing loci contain multiple copies of methylated transgenes. Mol Gen Genet 244: 219-229.
3. Caplen NJ, Fleenor J, Fire A, Morgan RA (2000) dsRNA-mediated gene silencing in cultured Drosophila cells: a tissue culture model for the analysis of RNA interference. Gene 252: 95-105.
4. Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC (1998) Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391: 806-811.
5. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T (2001) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411: 494-498.
6. Caplen NJ, Parrish S, Imani F, Fire A, Morgan RA (2001) Specific inhibition of gene expression by small double-stranded RNAs in invertebrate and vertebrate systems. Proc Natl Acad Sci U S A 98: 9742-9747.
7. Zheng L, Liu J, Batalov S, Zhou D, Orth A, Ding S, Schultz PG (2004) An approach to genomewide screens of expressed small interfering RNAs in mammalian cells. Proc Natl Acad Sci U S A 101: 135-140.
8. Paddison PJ, Silva JM, Conklin DS, Schlabach M, Li M, Aruleba S, Balija V, O'Shaughnessy A, Gnoj L, Scobie K, Chang K, Westbrook T, Cleary M, Sachidanandam R, McCombie WR, Elledge SJ, Hannon GJ (2004) A resource for large-scale RNA-interference-based screens in mammals. Nature 428: 427-431.
9. Berns K, Hijmans EM, Mullenders J, Brummelkamp TR, Velds A, Heimerikx M, Kerkhoven RM, Madiredjo M, Nijkamp W, Weigelt B, Agami R, Ge W, Cavet G, Linsley PS, Beijersbergen RL, Bernards R (2004) A large-scale RNAi screen in human cells identifies new components of the p53 pathway. Nature 428: 431-437.
10. Iorns E, Lord CJ, Turner N, Ashworth A (2007) Utilizing RNA interference to enhance cancer drug discovery. Nat Rev Drug Discov 6: 556-568.
11. Kumar R, Conklin DS, Mittal V (2003) High-throughput selection of effective RNAi probes for gene silencing. Genome Res 13: 2333-2340.
12. Ziauddin J, Sabatini DM (2001) Microarrays of cells expressing defined cDNAs. Nature 411: 107-110.
13. Hannon GJ, Conklin DS (2004) RNA interference by short hairpin RNAs expressed in vertebrate cells. Methods Mol Biol 257: 255-266.
14. Mousses S, Caplen NJ, Cornelison R, Weaver D, Basik M, Hautaniemi S, Elkahloun AG, Lotufo RA, Choudary A, Dougherty ER, Suh E, Kallioniemi O (2003) RNAi microarray analysis in cultured mammalian cells. Genome Res 13: 2341-2347.
15. Baghdoyan S, Roupioz Y, Pitaval A, Castel D, Khomyakova E, Papine A, Soussaline F, Gidrol X (2004) Quantitative analysis of highly parallel transfection in cell microarrays. Nucleic Acids Res 32: e77.
16. Ngo VN, Davis RE, Lamy L, Yu X, Zhao H, Lenz G, Lam LT, Dave S, Yang L, Powell J, Staudt LM (2006) A loss-of-function RNA interference screen for molecular targets in cancer. Nature 441: 106-110.
17. Schlabach MR, Luo J, Solimini NL, Hu G, Xu Q, Li MZ, Zhao Z, Smogorzewska A, Sowa ME, Ang XL, Westbrook TF, Liang AC, Chang K, Hackett JA, Harper JW, Hannon GJ, Elledge SJ (2008) Cancer proliferation gene discovery through functional genomics. Science 319: 620-624.
18. Silva JM, Marran K, Parker JS, Silva J, Golding M, Schlabach MR, Elledge SJ, Hannon GJ, Chang K (2008) Profiling essential genes in human mammary cells by multiplex RNAi screening. Science 319: 617-620.
19. Moffat J, Grueneberg DA, Yang X, Kim SY, Kloepfer AM, Hinkle G, Piqani B, Eisenhaure TM, Luo B, Grenier JK, Carpenter AE, Foo SY, Stewart SA, Stockwell BR, Hacohen N, Hahn WC, Lander ES, Sabatini DM, Root DE (2006) A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell 124: 1283-1298.
20. Bailey SN, Ali SM, Carpenter AE, Higgins CO, Sabatini DM (2006) Microarrays of lentiviruses for gene function screens in immortalized and primary cells. Nat Methods 3: 117-122.
21. Jacks T, Weinberg RA (2002) Taking the study of cancer cell survival to a new dimension. Cell 111: 923-925.
22. Salmon SE, Hamburger AW, Soehnlen B, Durie BG, Alberts DS, Moon TE (1978) Quantitation of differential sensitivity of human-tumor stem cells to anticancer drugs. N Engl J Med 298: 1321-1327.
23. Shoemaker RH, Wolpert-DeFilippes MK, Kern DH, Lieber MM, Makuch RW, Melnick NR, Miller WT, Salmon SE, Simon RM, Venditti JM et al (1985) Application of a human tumor colony-forming assay to new drug screening. Cancer Res 45: 2145-2153.
24. Bertelsen CA, Sondak VK, Mann BD, Korn EL, Kern DH (1984) Chemosensitivity testing of human solid tumors. A review of 1582 assays with 258 clinical correlations. Cancer 53: 1240-1245.
25. Moon TE, Salmon SE, White CS, Chen HS, Meyskens FL, Durie BG, Alberts DS (1981) Quantitative association between the in vitro human tumor stem cell assay and clinical response to cancer chemotherapy. Cancer Chemother Pharmacol 6: 211-218.
26. Von Hoff DD, Casper J, Bradley E, Sandbach J, Jones D, Makuch R (1981) Association between human tumor colony-forming assay results and response of an individual patient's tumor to chemotherapy. Am J Med 70: 1027-1041.
27. Fiebig HH, Schmid JR, Bieser W, Henss H, Lohr GW (1987) Colony assay with human tumor xenografts, murine tumors and human bone marrow. Potential for anticancer drug development. Eur J Cancer Clin Oncol 23: 937-948.
28. Suggitt M, Bibby MC (2005) 50 years of preclinical anticancer drug screening: empirical to target-driven approaches. Clin Cancer Res 11: 971-981.
29. Blumenthal RD (2005) An overview of chemosensitivity testing. Methods Mol Med 110: 3-18.
30. Salmon SE, Alberts DS, Durie BG, Meyskens FL, Jones SE, Soehnlen B, Chen HS, Moon T (1980) Clinical correlations of drug sensitivity in the human tumor stem cell assay. Recent Results Cancer Res 74: 300-305.
31. Fiebig HH, Maier A, Burger AM (2004) Clonogenic assay with established human tumour xenografts: correlation of in vitro to in vivo activity as a basis for anticancer drug discovery. Eur J Cancer 40: 802-820.
32. Selby P, Buick RN, Tannock I (1983) A critical appraisal of the "human tumor stem-cell assay". N Engl J Med 308: 129-134.
33. Pratt SE, Pollak MN (1993) Estrogen and antiestrogen modulation of MCF7 human breast cancer cell proliferation is associated with specific alterations in accumulation of insulin-like growth factor-binding proteins in conditioned media. Cancer Res 53: 5193-5198.
34. Bissell MJ, Weaver VM, Lelievre SA, Wang F, Petersen OW, Schmeichel KL (1999) Tissue structure, nuclear organization, and gene expression in normal and malignant breast. Cancer Res 59: 1757-1763s, discussion 1763s-1764s.
35. Dontu G, Abdallah WM, Foley JM, Jackson KW, Clarke MF, Kawamura MJ, Wicha MS (2003) In vitro propagation and transcriptional profiling of human mammary stem/progenitor cells. Genes Dev 17: 1253-1270.
36. Blair DG, Cooper CS, Oskarsson MK, Eader LA, Vande Woude GF (1982) New method for detecting cellular transforming genes. Science 218: 1122-1125.
37. Shalloway D, Coussens PM, Yaciuk P (1984) Overexpression of the c-src protein does not induce transformation of NIH 3T3 cells. Proc Natl Acad Sci U S A 81: 7071-7075.
38. Schafer R, Griegel S, Dubbert MA, Willecke K (1984) Unstable transformation of mouse 3T3 cells by transfection with DNA from normal human lymphocytes. EMBO J 3: 659-663.
39. Keath EJ, Caimi PG, Cole MD (1984) Fibroblast lines expressing activated c-myc oncogenes are tumorigenic in nude mice and syngeneic animals. Cell 39: 339-348.
40. Ponti D, Costa A, Zaffaroni N, Pratesi G, Petrangolini G, Coradini D, Pilotti S, Pierotti MA, Daidone MG (2005) Isolation and in vitro propagation of tumorigenic breast cancer cells with stem/progenitor cell properties. Cancer Res 65: 5506-5511.
41. Bauer JA, Ye F, Marshall CB, Lehmann BD, Pendleton CS, Shyr Y, Arteaga CL, Pietenpol JA (2010) RNA interference (RNAi) screening approach identifies agents that enhance paclitaxel activity in breast cancer cells. Breast Cancer Res 12: R41.
42. Ke N, Albers A, Claassen G, Yu DH, Chatterton JE, Hu X, Meyhack B, Wong-Staal F, Li QX (2004) One-week 96-well soft agar growth assay for cancer target validation. Biotechniques 36: 826-828, 830, 832-823.
43. Westbrook TF, Martin ES, Schlabach MR, Leng Y, Liang AC, Feng B, Zhao JJ, Roberts TM, Mandel G, Hannon GJ, Depinho RA, Chin L, Elledge SJ (2005) A genetic screen for candidate tumor suppressors identifies REST. Cell 121: 837-848.
44. Kolfschoten IG, van Leeuwen B, Berns K, Mullenders J, Beijersbergen RL, Bernards R, Voorhoeve PM, Agami R (2005) A genetic screen identifies PITX1 as a suppressor of RAS activity and tumorigenicity. Cell 121: 849-858.