GEO DataSets

(Submitter supplied) An oligo array based high-resolution analysis of copy number alterations in 171 primary breast tumors of relatively small size and low NPI, and 49 breast cancer cell-lines. Objectives of the study were to study the molecular taxonomy and the genomic aberration patterns in a breast cancer cohort representative of breast cancer demographics. Keywords: array comparative genomic hybridisation

Organism:

Homo sapiens

Type:

Genome variation profiling by array

Platform:

GPL5737

220 Samples

Download data: TXT

(Submitter supplied) Multi-dimensional genomic analysis identifies a class of breast cancer patients with high metastatic outcome and differential response to chemotherapeutic drugs The application of multi-dimensional genomic analyses might provide a more refined risk assessment of breast tumor aggressiveness and improve the selection of patients for personalized medicine. Our study demonstrates the feasibility of using CNAs to predict patient outcome. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2004 GPL2005

626 Samples

Download data: CEL

(Submitter supplied) Background Currently, no gene-expression signature (GES) established from node-positive cohorts, able to predict breast cancer evolution after systemic adjuvant chemotherapy, exists. Methods Gene-expression profiles of 252 node-positive patients (median follow-up: 7.7 years), mostly included in a randomized clinical trial (PACS01), receiving systemic adjuvant regimen, were determined by means of cDNA custom array representing 5,776 distinct genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4819

252 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL5772

118 Samples

Download data: GPR

(Submitter supplied) Array CGH containing 4,044 human bacterial artificial chromosome clones was used to assess different copy number changes between chemotherapy responsive and non-resposive breast cancer tissues. Keywords: Array CGH

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL5772

56 Samples

Download data: GPR

(Submitter supplied) Array CGH containing 4,044 human bacterial artificial chromosome clones was used to assess copy number changes in 31 pairs of clinicopathologically well matched recurred / nonrecurred breast cancer tissues. Keywords: array CGH

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL5772

62 Samples

Download data: GPR

(Submitter supplied) A gene signature predicting survival of breast cancer patients was validated on a custom chip. Keywords: breast cancer patient survival analysis

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2939

180 Samples

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(Submitter supplied) Abstract: Purpose: To identify a DNA signature to predict metastasis of small node-negative breast carcinoma Experimental Design: The authors used Comparative Genomic Hybridization (CGH) array to analyze 168 pT1T2pN0 invasive ductal carcinoma patients with either good (no event 5 years after diagnosis: 111 patients) or poor (57 patients with early onset metastasis) outcome. A CGH classifier, identifying low and high-risk groups of metastatic recurrence, was established in a training set of 78 patients. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL9715

168 Samples

Download data: GPR

(Submitter supplied) The lungs are a frequent target of metastatic breast cancer cells, but the underlying molecular mechanisms are unclear. All existing data were obtained either using statistical association between gene expression measurements found in primary tumors and clinical outcome, or using experimentally derived signatures from mouse tumor models. Here, we describe a distinct approach that consists to utilize tissue surgically resected from lung metastatic lesions and compare their gene expression profiles with those from non-pulmonary sites, all coming from breast cancer patients. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

23 Samples

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(Submitter supplied) SNP Expression profiling of human breast cancer: 29 tumor samples, 4 pure normal breat samples and 8 lymphocytes samples Keywords: Human Cancer

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platform:

GPL2005

41 Samples

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(Submitter supplied) Glioblastoma multiforme shows multiple chromosomal aberrations, the impact of which on gene expression remains unclear. To investigate this relationship and to identify putative initiating genomic events, we integrated a paired copy number and gene expression survey in glioblastoma using whole human genome arrays. Loci of recurrent copy number alterations were combined with gene expression profiles obtained on the same tumor samples. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array; Expression profiling by genome tiling array

Platforms:

GPL2879 GPL6480

60 Samples

Download data: TXT

(Submitter supplied) Classification of tamixifen-treated breast cancer patients into high and low risk groups using the 76-gene signature

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

136 Samples

Download data: CEL

(Submitter supplied) Spotted cDNA Orestes clones. This set includes 4608 orestes in build 175 of the human UniGene database. Keywords = spotted, cDNA

Organism:

Homo sapiens

13 Series

1103 Samples

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(Submitter supplied) Spotted cDNA Orestes clones and PCR amplified fragments on glass. This set includes 664 orestes and 197 PCR amplified fragments based upon representative sequences in build 175 of the human UniGene database. Keywords = spotted Keywords = cDNA

Organism:

Homo sapiens

1 Series

118 Samples

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(Submitter supplied) Breast cancer is a hugely heterogeneous disease, and markers for disease subtypes and therapy response remain poorly defined. For that reason, we employed a retrospective study in node-positive breast cancer to identify molecular signatures of gene expression correlating with metastatic free survival. Patients were primarily included in FEC100 (fluorouracil, epirubicin and cyclophosphamide) arms of two multicentric phase III clinical trials (PACS01 and PEGASE01 - FNCLCC). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4819

150 Samples

Download data: TXT

(Submitter supplied) Series of stage IB lung adenocarcinomas and large cell carcinomas. The aim of the study was to predict outcome using a Copy Number Driven Gene Expression signature. Keywords: disease state analysis, stage I lung cancer

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

72 Samples

Download data: CEL

(Submitter supplied) Microarray analysis has been shown to improve risk stratification of breast cancer. Breast tumors analyzed by hierarchical clustering of expression patterns of "intrinsic" genes have been reported to subdivide into at least four molecular subtypes that are associated with distinct patient outcomes. Using a supervised method, a 70-gene expression profile has been identified that predicts the later appearance or absence of clinical metastasis in young breast cancer patients. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL1390 GPL887 GPL885

169 Samples

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(Submitter supplied) Co-amplification at chromosomes 8p11-8p12 and 11q12-11q14 occurs often in breast tumors, suggesting possible cooperation between genes in these regions in oncogenesis. We used high resolution array comparative genomic hybridization (array CGH) to map the minimal amplified regions. The 8p and 11q amplicons are complex and consist of at least four amplicon cores at each site. Candidate genes mapping to these regions were identified by combining copy number and RNA and protein expression analyses. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL7298

42 Samples

Download data: TXT

(Submitter supplied) HER2 gene amplification and protein overexpression (HER2+) define a clinically challenging subgroup of breast cancer with variable prognosis and response to therapy. Although gene expression profiling has identified an ERBB2 molecular subtype of breast cancer, it is clear that HER2+ tumors reside in all molecular subtypes and represent a genomically and biologically heterogeneous group. Genome-wide DNA copy number profiling, using BAC array comparative genomic hybridization (aCGH) were performed on 200 tumors with mixed clinical characteristics and amplification of HER2. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platforms:

GPL9077 GPL7247 GPL4723

200 Samples

Download data: GPR

(Submitter supplied) Samples were taken from colorectal cancers in surgically resected specimens in 36 colorectal cancer patients. The expression profiles were determined using Affymetrix Human Genome U133 Plus 2.0 arrays. Comparison between the sample groups allow to identify a set of discriminating genes that can be used for molecular markers for predicting recurrence. Keywords: repeat

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

36 Samples

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