Egeblad M, E. LL: The fibroblastic coconspirator in cancer progression. Cold Spring Harb Symp Quant Biol. 2005, 70: 383-388. 10.1101/sqb.2005.70.007.
Article
PubMed
CAS
PubMed Central
Google Scholar
Jodele S, Blavier L, Yoon JM, DeClerck YA: Modifying the soil to affect the seed: role of stromal-derived matrix metalloproteinases in cancer progression. Cancer metastasis reviews. 2006, 25 (1): 35-43. 10.1007/s10555-006-7887-8.
Article
PubMed
CAS
Google Scholar
Sloane BF, Yan S, Podgorski I, Linebaugh BE, Cher ML, Mai J, Cavallo-Medved D, Sameni M, Dosescu J, Moin K: Cathepsin B and tumor proteolysis: contribution of the tumor microenvironment. Seminars in cancer biology. 2005, 15 (2): 149-157. 10.1016/j.semcancer.2004.08.001.
Article
PubMed
CAS
Google Scholar
Overall CM, Kleifeld O: Tumour microenvironment - opinion: validating matrix metalloproteinases as drug targets and anti-targets for cancer therapy. Nature reviews Cancer. 2006, 6 (3): 227-239. 10.1038/nrc1821.
Article
PubMed
CAS
Google Scholar
Finak G, Sadekova S, Pepin F, Hallett M, Meterissian S, Halwani F, Khetani K, Souleimanova M, Zabolotny B, Omeroglu A, Park M: Gene expression signatures of morphologically normal breast tissue identify basal-like tumors. Breast cancer research: BCR. 2006, 8 (5): R58-10.1186/bcr1608.
Article
PubMed
PubMed Central
Google Scholar
Finak G, Bertos N, Pepin F, Sadekova S, Souleimanova M, Zhao H, Chen H, Omeroglu G, Meterissian S, Omeroglu A, Hallett M, Park M: Stromal gene expression predicts clinical outcome in breast cancer. Nature medicine. 2008, 14 (5): 518-527. 10.1038/nm1764.
Article
PubMed
CAS
Google Scholar
Albini A, Sporn MB: The tumour microenvironment as a target for chemoprevention. Nature reviews Cancer. 2007, 7 (2): 139-147.
Article
PubMed
CAS
Google Scholar
Barth PJ, Westhoff CC: CD34+ fibrocytes: morphology, histogenesis and function. Current stem cell research & therapy. 2007, 2 (3): 221-227. 10.2174/157488807781696249.
Article
CAS
Google Scholar
Amatangelo MD, Bassi DE, Klein-Szanto AJ, Cukierman E: Stroma-derived three-dimensional matrices are necessary and sufficient to promote desmoplastic differentiation of normal fibroblasts. The American journal of pathology. 2005, 167 (2): 475-488. 10.1016/S0002-9440(10)62991-4.
Article
PubMed
CAS
PubMed Central
Google Scholar
Micke P, Ostman A: Exploring the tumour environment: cancer-associated fibroblasts as targets in cancer therapy. Expert opinion on therapeutic targets. 2005, 9 (6): 1217-1233. 10.1517/14728222.9.6.1217.
Article
PubMed
CAS
Google Scholar
Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z, Goldstein SR, Weiss RA, Liotta LA: Laser capture microdissection. Science. 1996, 274 (5289): 998-1001. 10.1126/science.274.5289.998.
Article
PubMed
CAS
Google Scholar
Krop IE, Sgroi D, Porter DA, Lunetta KL, LeVangie R, Seth P, Kaelin CM, Rhei E, Bosenberg M, Schnitt S, Marks JR, Pagon Z, Belina D, Razumovic J, Polyak K: HIN-1, a putative cytokine highly expressed in normal but not cancerous mammary epithelial cells. Proc Natl Acad Sci USA. 2001, 98 (17): 9796-9801. 10.1073/pnas.171138398.
Article
PubMed
CAS
PubMed Central
Google Scholar
Ge H, Gong X, Tang CK: Evidence of high incidence of EGFRvIII expression and coexpression with EGFR in human invasive breast cancer by laser capture microdissection and immunohistochemical analysis. Int J Cancer. 2002, 98 (3): 357-361. 10.1002/ijc.10224.
Article
PubMed
CAS
Google Scholar
Glockner S, Lehmann U, Wilke N, Kleeberger W, Langer F, Kreipe H: Detection of gene amplification in intraductal and infiltrating breast cancer by laser-assisted microdissection and quantitative real-time PCR. Pathobiology : journal of immunopathology, molecular and cellular biology. 2000, 68 (4-5): 173-179. 10.1159/000055920.
Article
CAS
Google Scholar
Sugawara M, Okamoto K, Kadowaki T, Kusano K, Fukamizu A, Yoshimura T: Expressions of cytochrome P450, UDP-glucuronosyltranferase, and transporter genes in monolayer carcinoma cells change in subcutaneous tumors grown as xenografts in immunodeficient nude mice. Drug metabolism and disposition: the biological fate of chemicals. 2010, 38 (3): 526-533. 10.1124/dmd.109.030668.
Article
CAS
Google Scholar
Schwartz DR, Moin K, Yao B, Matrisian LM, Coussens LM, Bugge T, Fingleton B, Acuff H, Sinnamon M, Nassar H, Platts AE, Krawetz SA, Linebaugh BE, Sloane BF: Hu/Mu ProtIn oligonucleotide microarray: dual-species array for profiling protease and protease inhibitor gene expression in tumors and their microenvironment. Mol Cancer Res. 2007, 5 (5): 443-454. 10.1158/1541-7786.MCR-06-0337.
Article
PubMed
CAS
Google Scholar
Yang X, Lee Y, Huang Y, Chen JL, Xing RH, Lussier YA: Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models. BMC bioinformatics. 2010, 11 (Suppl 9): S11-10.1186/1471-2105-11-S9-S11.
Article
PubMed
PubMed Central
Google Scholar
Schwartz DR, Moin K, Weber E, Sloane BF: The CLIP-CHIP™: A Focused Oligonucleotide Microarray Platform for Transcriptome Analysis of the Complete Human and Murine Cancer Degradomes. The Cancer Degradome. 2008, D E, G H-H, F B, BF S, 17-35.
Google Scholar
Jabado OJ, Liu Y, Conlan S, Quan PL, Hegyi H, Lussier Y, Briese T, Palacios G, Lipkin WI: Comprehensive viral oligonucleotide probe design using conserved protein regions. Nucleic acids research. 2008, 36 (1): e3-
Article
PubMed
PubMed Central
Google Scholar
Liu Y, Sam L, Li J, Lussier YA: Robust methods for accurate diagnosis using pan-microbiological oligonucleotide microarrays. BMC bioinformatics. 2009, 10 (Suppl 2): S11-10.1186/1471-2105-10-S2-S11.
Article
Google Scholar
Palacios G, Quan PL, Jabado OJ, Conlan S, Hirschberg DL, Liu Y, Zhai J, Renwick N, Hui J, Hegyi H, Grolla A, Strong JE, Towner JS, Geisbert TW, Jahrling PB, Buchen-Osmond C, Ellerbrok H, Sanchez-Seco MP, Lussier Y, Formenty P, Nichol MS, Feldmann H, Briese T, Lipkin WI: Panmicrobial oligonucleotide array for diagnosis of infectious diseases. Emerg Infect Dis. 2007, 13 (1): 73-81. 10.3201/eid1301.060837.
Article
PubMed
CAS
PubMed Central
Google Scholar
de Jonge HJ, Fehrmann RS, de Bont ES, Hofstra RM, Gerbens F, Kamps WA, de Vries EG, van der Zee AG, te Meerman GJ, ter Elst A: Evidence based selection of housekeeping genes. PloS one. 2007, 2 (9): e898-10.1371/journal.pone.0000898.
Article
PubMed
PubMed Central
Google Scholar
Robinson MD, Oshlack A: A scaling normalization method for differential expression analysis of RNA-seq data. Genome Biol. 2010, 11 (3): R25-10.1186/gb-2010-11-3-r25.
Article
PubMed
PubMed Central
Google Scholar
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. Journal of molecular biology. 1990, 215 (3): 403-410. 10.1016/S0022-2836(05)80360-2.
Article
PubMed
CAS
Google Scholar
Huber W, von Heydebreck A, Sultmann H, Poustka A, Vingron M: Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics. 2002, 18 (Suppl 1): S96-104. 10.1093/bioinformatics/18.suppl_1.S96.
Article
PubMed
Google Scholar
Falcon S, Gentleman R: Using GOstats to test gene lists for GO term association. Bioinformatics. 2007, 23 (2): 257-258. 10.1093/bioinformatics/btl567.
Article
PubMed
CAS
Google Scholar
Benjamini Y, Hochberg Y: Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. Journal of the Royal Statistical Society Series B (Methodological). 2005, 57: 289-300.
Google Scholar
Dinu I, Potter JD, Mueller T, Liu Q, Adewale AJ, Jhangri GS, Einecke G, Famulski KS, Halloran P, Yasui Y: Improving gene set analysis of microarray data by SAM-GS. BMC bioinformatics. 2007, 8: 242-10.1186/1471-2105-8-242.
Article
PubMed
PubMed Central
Google Scholar
Weinberg R: Stromal cells are active contributors to tumorigenesis. The Biology of Cancer. 2007, 548-551.
Google Scholar
Johannsson OT, Staff S, Vallon-Christersson J, Kytola S, Gudjonsson T, Rennstam K, Hedenfalk IA, Adeyinka A, Kjellen E, Wennerberg J, Baldetorp B, Petersen OW, Olsson H, Oredsson S, Isola J, Borg A: Characterization of a novel breast carcinoma xenograft and cell line derived from a BRCA1 germ-line mutation carrier. Laboratory investigation; a journal of technical methods and pathology. 2003, 83 (3): 387-396. 10.1097/01.LAB.0000060030.10652.8C.
Article
PubMed
CAS
Google Scholar
Morimoto AM, Tan N, West K, McArthur G, Toner GC, Manning WC, Smolich BD, Cherrington JM: Gene expression profiling of human colon xenograft tumors following treatment with SU11248, a multitargeted tyrosine kinase inhibitor. Oncogene. 2004, 23 (8): 1618-1626. 10.1038/sj.onc.1207268.
Article
PubMed
CAS
Google Scholar
Khodarev NN, Roach P, Pitroda SP, Golden DW, Bhayani M, Shao MY, Darga TE, Beveridge MG, Sood RF, Sutton HG, Beckett MA, Mauceri HJ, Posner MC, Weichselbaum RR: STAT1 pathway mediates amplification of metastatic potential and resistance to therapy. PloS one. 2009, 4 (6): e5821-10.1371/journal.pone.0005821.
Article
PubMed
PubMed Central
Google Scholar
Hendriksen PJ, Dits NF, Kokame K, Veldhoven A, van Weerden WM, Bangma CH, Trapman J, Jenster G: Evolution of the androgen receptor pathway during progression of prostate cancer. Cancer research. 2006, 66 (10): 5012-5020. 10.1158/0008-5472.CAN-05-3082.
Article
PubMed
CAS
Google Scholar
Chen CD, Welsbie DS, Tran C, Baek SH, Chen R, Vessella R, Rosenfeld MG, Sawyers CL: Molecular determinants of resistance to antiandrogen therapy. Nature medicine. 2004, 10 (1): 33-39. 10.1038/nm972.
Article
PubMed
Google Scholar
Morisot S, Wayne AS, Bohana-Kashtan O, Kaplan IM, Gocke CD, Hildreth R, Stetler-Stevenson M, Walker RL, Davis S, Meltzer PS, Wheelan SJ, Brown P, Jones RJ, Shultz LD, Civin CI: High frequencies of leukemia stem cells in poor-outcome childhood precursor-B acute lymphoblastic leukemias. Leukemia. 2010
Google Scholar