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BRB-ArrayTools Data Archive for Human Cancer Gene Expression

Expression array data and clinical descriptors are stored as BRB-ArrayTools project folders. To analyze a dataset, simply download and unzip the file. Open the project worksheet in excel on a Microsoft Windows PC. BRB-ArrayTools must have been previously installed on the machine.

BRB-ArrayTools is a comprehensive state-of-the-art statistical analysis system for the analysis of microarray gene expression data. It is easily installed as an excel plug-in using its self installer. Learn how to download BRB-ArrayTools.

To cite your use of BRB-ArrayTools Data Archive, please reference:

Zhao Y and Simon R. BRB ArrayTools Data Archive for Human Cancer Gene Expression: A Unique and Efficient Data Sharing Resource. Cancer Informatics 6:9-15, 2008.

Tumor TypeCitationPaperTransformed Zip FileReadme File
Bladder CancerDyrskjot et al. Nat Genet. (2003) 33:90-96Identifying distinct classes of bladder carcinoma using microarrays4.3 MBLink
Bladder CancerDozmorov et al. (2003)Extracellular matrix-modulation of malignant phenotype in bladder0.1 MBLink
Brain CancerPomeroy et al. (2002) Nature 415:436-42Prediction of central nervous system embryonal tumour outcome based on gene expression6.6 MBLink
Brain CancerLiang et al. (2005) PNAS 102:5814-9Gene expression profiling reveals molecularly and clinically distinct subtypes of glioblastoma multiforme18.1 MBLink
Brain CancerDong et al. (2005) J Neuropathol Exp Neurol. 64:948-55Histology-based expression profiling yields novel prognostic markers in human glioblastoma8.4 MBLink
Brain Cancer

Bredel et al. (2005) Cancer Cancer Res. 65:8679-89;

Bredel et al. (2006) J Clin Oncol. 24:274-87

Functional network analysis reveals extended gliomagenesis pathway maps and three novel MYC-interacting genes in human gliomas

Tumor necrosis factor-alpha-induced protein 3 as a putative regulator of nuclear factor-kappaB-mediated resistance to O6-alkylating agents in human glioblastomas

23.2 MBLink
Brain CancerMa et al. (2005) Cancer Res. 65:5523-34Autocrine platelet-derived growth factor-dependent gene expression in glioblastoma cells is mediated largely by activation of the transcription factor sterol regulatory element binding protein and is associated with altered genotype and patient survival in human brain tumors5.2 MBLink
Brain CancerBredel et al. (2006)J Clin Oncol. 24:274-87Tumor necrosis factor-alpha-induced protein3 as a putative regulator of nuclear factor-kappaB-mediated resistance to O6-alkylating agents in human glioblastomas8.5 MBLink
Brain CancerFine et al. (2006)Glioma-derived stem cell factor effect on angiogenesis in the brain121.7 MBLink
Breast CancerPerou CM et al.(1999) PNAS 96:9212-7Distinctive gene expression patterns in human mammary epithelial cells and breast cancers0.8 MBLink
Breast CancerPerou CM et al.(2000) Nature 406:747-52Molecular portraits of human breast tumours14.9 MBLink
Breast CancerSorlie et al.(2001) PNAS 98:10869-74Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications18.3 MBLink
Breast Cancervan't Veer et al.(2002) Nature 415:530-6Gene expression profiling predicts clinical outcome of breast cancer21.4 MBLink
Breast CancerSotiriou et al.(2003) PNAS 100:10393-8Breast cancer classification and prognosis based on gene expression profiles from a population-based study9.9 MBLink
Breast CancerSorlie et al.(2003) PNAS 100:8418-2398Repeated observation of breast tumor subtypes in independent gene expression data sets48.7 MBLink
Breast CancerChang et al. (2003) Lancet 362:362-9Gene expression profiling for the prediction of therapeutic response to docetaxel in patients with breast cancer7.1 MBLink
Breast CancerMa et al. (2004) Cancer Cell 5:607-16A two-gene expression ratio predicts clinical outcome in breast cancer patients treated with tamoxifen

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Breast CancerTroester et al. (2004) Cancer Res. 64:4218-26Cell-type-specific responses to chemotherapeutics in breast cancer13.8 MBLink
Breast CancerAcevedo et al. (2004) Mol Cell. 13:725-38Selective recognition of distinct classes of coactivators by a ligand-inducible activation domain7.2 MBLink
Breast CancerFrasor et al. (2004) Cancer Res. 64:1522-33Selective estrogen receptor modulators: discrimination of agonistic versus antagonistic activities by gene expression profiling in breast cancer cells5.1 MBLink
Breast CancerYang et al.(2005) Clin Cancer Res 11:6226-32Gene expression patterns and profile changes pre- and post-erlotinib treatment in patients with metastatic breast cancer10.0 MBLink
Breast CancerMoqqi et al. (2005) J Mol Endocrinol. 34:535-51Anti-proliferative effect of estrogen in breast cancer cells that re-express ERalpha is mediated by aberrant regulation of cell cycle genes7.6 MBLink
Breast CancerFarmer et al. (2005) Oncogene 24:4660-71Identification of molecular apocrine breast tumours by microarray analysis15.2 MBLink
Cancer Cell LinesRoss et al. (2000) Nat Genet. 24:227-35Systematic variation in gene expression patterns in human cancer cell lines4.7 MBLink
Colon CancerAlon et al. (1999) PNAS 96:6745-50Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays1.4 MBLink
Colon CancerFleet et al. (2003) Physiol Genomics. 13:57-68Gene expression profiling of Caco-2 BBe cells suggests a role for specific signaling pathways during intestinal differentiation4.2 MBLink
Colon CancerAnderle et al. (2004)Intestinal epithelial cell immune response10.0 MBLink
Colon CancerBandres et al. (2005)Gene signature for relapse prediction in DukesB colon cancer4.9 MBLink
Colon CancerDommels et al. (2005)Folic acid deficiency effect on colon cancer cells2.8 MBLink
Colon CancerWest et al. (2005) Chem Res Toxicol. 18:1642-53Alterations in gene expression induced by the lipid peroxidation product, 4-hydroxy-2-nonenal24.8 MBLink
Colon CancerYang et al. (2005)Transgenic Kruppel-like factor 4 induction: time course7.8 MBLink
Colon CancerKoinuma et al. (2006) Oncogene 25:139-46pigenetic silencing of AXIN2 in colorectal carcinoma with microsatellite instability

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Cervical CancerWong et al. (2003) Clin Cancer Res. 9:5486-92Molecular Classification and Prediction of Radiotherapy Response by DNA Microarray4.8 MBLink
Embryonal CancerSkotheim et al. (2005) Cancer Res. 65:5588-98Differentiation of human embryonal carcinomas in vitro and in vivo reveals expression profiles relevant to normal development3.5 MBLink
Endometrial CancerWu et al. (2005) Nature 438:981-7Hypomethylation-linked activation of PAX2 mediates tamoxifen-stimulated endometrial carcinogenesis4.7 MBLink
Esophageal CancerKimchi et al. (2005) Cancer Res. 65:3146-54Progression of Barrett's metaplasia to adenocarcinoma is associated with the suppression of the transcriptional programs of epidermal differentiation10.6 MBLink
Ewing Family TumorStaege et al. (2004) Cancer Res. 64:8213-21DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets7.1 MBLink
Gastric CancerHippo et al.(2002) Cancer Res. 62:233-40Global gene expression analysis of gastric cancer by oligonucleotide microarrays3.7 MBLink
Gastric CancerChen et al.(2003) Mol Biol Cell 14:3208-15Variation in gene expression patterns in human gastric cancers112.6 MBLink
Gastric CancerSubramanian et al.(2004) Oncogene 23:7780-90Gastrointestinal stromal tumors (GISTs) with KIT and PDGFRA mutations have distinct gene expression profiles22.3 MBLink
Head and Neck CancerChung et al. (2004) Cancer Cell 5:489-500Molecular classification of head and neck squamous cell carcinomas using patterns of gene expression8.6 MBLink
Head and Neck CancerCromer et al. (2004) Oncogene 23:2484-98Identification of genes associated with tumorigenesis and metastatic potential of hypopharyngeal cancer by microarray analysis7.3 MBLink
Head and Neck CancerO'Donnell et al. (2005) Oncogene 24:1244-51Gene expression signature predicts lymphatic metastasis in squamous cell carcinoma of the oral cavity10.4 MBLink
LeukemiaCheok et al. (2003) Nat Genet. 34:85-90Treatment-specific changes in gene expression discriminate in vivo drug response in human leukemia cells22.0 MBLink
LeukemiaYaqi et al. (2003) Blood 102:1849-56Identification of a gene expression signature associated with pediatric AML prognosis9.2 MBLink
LeukemiaAddya et al. (2004) Physiol Genomics. 19:117-30Erythroid-induced commitment of K562 cells results in clusters of differentially expressed genes enriched for specific transcription regulatory elements7.2 MBLink
LeukemiaRaetz et al. (2006) Pediatr Blood Cancer 47:130-40Gene expression profiling reveals intrinsic differences between T-cell acute lymphoblastic leukemia and T-cell lymphoblastic lymphoma10.8 MBLink
LeukemiaSteqmaier et al. (2004) Nat Genet. 36:257-63Gene expressionbased high-throughput screening(GE-HTS) and application to leukemia differentiation3.7 MBLink
LeukemiaSteqmaier et al. (2004) Nat Genet. 36:257-63Gene expressionbased high-throughput screening(GE-HTS) and application to leukemia differentiation

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LeukemiaScandura et al. (2004) Proc Natl Acad Sci U S A. 101:15231-6Transforming growth factor beta-induced cell cycle arrest of human hematopoietic cells requires p57KIP2 up-regulation7.1 MBLink
LeukemiaHaslinger et al. (2004) J Clin Oncol. 22:3937-49Microarray gene expression profiling of B-cell chronic lymphocytic leukemia subgroups defined by genomic aberrations and VH mutation status22.9 MBLink
LeukemiaNeumann et al. (2005) Leukemia 19:458-60Gene expression profiling of Philadelphia chromosome (Ph)-negative CD34+ hematopoietic stem and progenitor cells of patients with Ph-positive CML in major molecular remission during therapy with imatinib3.2 MBLink
LeukemiaGutierrez et al. (2005) Leukemia19:402-9Gene expression profile reveals deregulation of genes with relevant functions in the different subclasses of acute myeloid leukemia13.4 MBLink
LeukemiaCrossman et al. (2005) Haematologica 90:459-64In chronic myeloid leukemia white cells from cytogenetic responders and non-responders to imatinib have very similar gene expression signatures6.4 MBLink
LeukemiaDe Pitta et al. (2005) Haematologica 90:890-8A leukemia-enriched cDNA microarray platform identifies new transcripts with relevance to the biology of pediatric acute lymphoblastic leukemia2.9 MBLink
LeukemiaDik et al. (2005) Leukemia 19:1948-57CALM-AF10+ T-ALL expression profiles are characterized by overexpression of HOXA and BMI1 oncogenes11.7 MBLink
LeukemiaFalt et al. (2005) Exp Hematol. 33:883-93Identification of progression markers in B-CLL by gene expression profiling5.3 MBLink
Liver CancerYe et al. (2003) Nat Med. 9:416-423Predicting hepatitis B viruspositive metastatic hepatocellular carcinomas using gene expression profiling and supervised machine learning4.5 MBLink
Lung CancerBhattacharjee et al. (2001) PNAS 98:13790-5Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses24.8 MBLink
Lung CancerBeer et al. (2002) Nat Med 8:816-24Gene-expression profiles predict survival of patients with lung adenocarcinoma8.2 MBLink
Lung CancerGarber et al. (2001) PNAS 98:13784-9Diversity of gene expression in adenocarcinoma of the lung32.1 MBLink
Lung CancerGordon et al. (2002) Cancer Research 62:4963-7Translation of microarray data into clinically relevant cancer diagnostic tests using gene expression ratios in lung cancer and mesothelioma23.1 MBLink
Lung CancerMichael et al. (2004)Two prognostically significant subtypes of high-grade lung neuroendocrine tumors independent of small-cell and large-cell neuroendocrine carcinomas identified by gene expression profiles26.4 MBLink
Lung CancerMagda et al. (2005)Lung cancer cell line response to motexafin gadolinium8.0 MBLink
Lung CancerWashi et al. (2005)Squamous Lung Cancer, Paired Samples6.7 MBLink
Lung CancerGemma et al. (2006)Anticancer drug clustering in lung cancer based on gene expression profiles and sensitivity database11.8 MBLink
LymphomaRosenwald et al. (2002) NEJM 346:1937-47The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma33.3 MBLink
LymphomaShipp et al. (2002) Nat Med 8:68-74Diffuse large B-cell lymphoma outcome prediction by gene-expression profiling and supervised machine learning8.3 MBLink
LymphomaRosenwald et al. (2003) Cancer Cell 3:185-97The proliferation gene expression signature is a quantitative integrator of oncogenic events that predicts survival in mantle cell lymphoma12.2 MBLink
LymphomaDave et al. (2004) NEJM 351:2159-69Prediction of survival in follicular lymphoma based on molecular features of tumor-infiltrating immune cells103.5 MBLink
LymphomaFan et al. (2005)Gene Expression Profile of Primary Effusion Lymphoma9.4 MBLink
MedulloblastomaMacDonald et al. (2001) 29:143-52Expression profiling of medulloblastoma: PDGFRA and the RAS/MAPK pathway as therapeutic targets for metastatic disease1.0 MBLink
MelanomaBittner et al. (2000) Nature 406:536-40Molecular classification of cutaneous malignant melanoma by gene expression profiling2.3 MBLink
MelanomaSmith et al. (2005) Cancer Biol Ther. 4:1018-29Whole-genome expression profiling of the melanoma progression pathway reveals marked molecular differences between nevi/melanoma in situ and advanced-stage melanomas19.1 MBLink
MelanomaTalantov et al. (2005) Clin Cancer Res. 11:7234-42Novel genes associated with malignant melanoma but not benign melanocytic lesions22.8 MBLink
MelanomaWinnepenninckx et al. (2006) J Natl Cancer Inst. 98(7):472-82.Gene expression profiling of primary cutaneous melanoma and clinical outcome

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MesotheliomaGordon et al. (2005)Malignant pleural mesothelioma15.7 MBLink
MyelomaTian et al. (2003) N Engl J Med. 349:2483-94The role of the Wnt-signaling antagonist DKK1 in the development of osteolytic lesions in multiple myeloma30.6 MBLink
MyelomaMattioli et al. (2005) Oncogene 24:2461-2473Gene expression profiling of plasma cell dyscrasias reveals molecular patterns associated with distinct IGH translocations in multiple myeloma15.3 MBLink
OsteosarcomaStossi et al. (2004) Endocrinology 145:3473-86Transcriptional profiling of estrogen-regulated gene expression via estrogen receptor (ER) alpha or ERbeta in human osteosarcoma cells: distinct and common target genes for these receptors5.9 MBLink
OsteosarcomaMonroe et al. (2005) Mol Endocrinol. 19:1555-68Estrogen receptor alpha and beta heterodimers exert unique effects on estrogen- and tamoxifen-dependent gene expression in human U2OS osteosarcoma cells7.2 MBLink
Ovarian CancerPeters et al. (2004)Carboplatin Sensitivity in Ovarian Carcinoma6.1 MBLink
Pancreatic CancerMano et al. (2005)Expression profile of pancreatic ductal cells

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13.8 MB

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Prostate CancerDhanasekaran et al.(2001) Nature 412:822-6Delineation of prognostic biomarkers in prostate cancer5.3 MBLink
Prostate CancerSingh et al. (2002) Cancer Cell 1:203-9Gene expression correlates of clinical prostate cancer behavior10.0 MBLink
Prostate CancerBuchsbaum et al. (2003)Prostate adenocarcinoma and ionizing radiation3.8 MBLink
Prostate CancerLapointe et al. (2004) PNAS 101:811-6Gene expression profiling identifies clinically rele vant subtypes of prostate cancer86.9 MBLink
Prostate CancerChen et al. (2004) Nat Med. 10:33-9Molecular determinants of resistance to antiandrogen therapy

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9.5 MB

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Prostate CancerBest et al. (2005) Clin Cancer Res. 11:6823-34Molecular alterations in primary prostate cancer after androgen ablation therapy9.7 MBLink
Prostate CancerVarambally et al. (2005) Cancer Cell. 8:393-406Integrative genomic and proteomic analysis of prostate cancer reveals signatures of metastatic progression24.5 MBLink
Prostate CancerNanni et al. (2006) Mol Cancer Res. 4:79-92Epithelial-restricted gene profile of primary cultures from human prostate tumors: a molecular approach to predict clinical behavior of prostate cancer11.3 MBLink
Pediatric sarcomaBaer et al. (2005)Pediatric sarcoma: rhabdomyosarcoma & Ewing's sarcoma5.8 MBLink
Renal CancerVasselli et al. (2003) PNAS 100:6958-63Predicting survival in patients with metastatic kidney cancer by gene-expression profiling in the primary tumor9.7 MBLink
Renal CancerBoer et al. (2001) Genome Research 11:1861-1870Identification and classification of differentially expressed genes in renal cell carcinoma by expression profiling on a global human 31,500-element cDNA array

61.7 MB

61.7 MB

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Renal CancerLenburg et al. (2003) BMC Cancer3:31Previously unidentified changes in renal cell carcinoma gene expression identified by parametric analysis of microarray data

8.9 MB

8.8 MB

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Renal CancerBoni et al. (2005) Clin Pharm Ther. 77:76-89Population pharmacokinetics of CCI-779: Correlations to safety and pharmacogenomic responses in patients with advanced renal cancer17.9 MBLink
Renal CancerTsui et al. (2005)Clear cell sarcoma of the kidney14.8 MBLink
Renal CancerYang et al. (2005) Cancer Res. 65:5628-37A molecular classification of papillary renal cell carcinoma27.9 MBLink
Soft Tissue SarcomaWest et al. (2005) PLoS Biol 3:e187Determination of stromal signatures in breast carcinoma47.2 MBLink
Soft Tissue SarcomaYoon et al. (2005)Gene expression of human soft tissue sarcoma18.3 MBLink
Thyroid CancerReyes et al. (2005)Papillary thyroid cancer versus paired normal thyroid tissue20.7 MBLink
Uterine LeiomyomaHoffman et al. (2003)Uterine Fibroid and Normal Myometrial Expression Profiles6.7 MBLink
Uterine LeiomyomaQuade et al. (2003)Comparison of Gene Expression in Uterine Smooth Muscle Tumors3.1 MBLink

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