GEO DataSets

(Submitter supplied) Tissue material was collected from all breast cancer patients receiving surgery at Karolinska Hospital from 1994-1996. Material was frozen immediatley on dry ice or in liquid nitrogen and stored in -70°C freezers. This series contains expression data for n=159 tumors from which RNA could be collected in sufficient amounts and quality for analysis. Keywords: breast cancer, expression profiling, predictive gene signature, molecular classification of cancecr

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL96 GPL97

318 Samples

Download data: CEL

(Submitter supplied) To investigate the oxidant sensitivity of E/ER regulated gene expression, E/ER regulated genes are identified using E deprivation or ER-alpha siRNA knockdown; and oxidative stress responsive is determined by 8hr exposure to diamide, hydrogen peroxide and menadione Keywords: biomarker identification

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL3921

12 Samples

Download data: CEL

(Submitter supplied) To investigate the biological basis between aging and sporadic breast cancer incidence and prognosis, RNA samples from matched ER+ invasive breast cancers diagnosed in either young (≤45) or old (≥70) women were analyzed by expression microarrays Keywords: biomarker identification

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4685

47 Samples

Download data: CEL

(Submitter supplied) Signaling pathways that converge on two different transcription factor complexes, NFκB and AP-1, have been identified in estrogen receptor (ER)-positive breast cancers resistant to the antiestrogen, tamoxifen. In this study, biomarkers co-ordinately up-regulated by NFKB and AP-1 with prognositic significance are identified in a largely TAM-treated set of ER+ node negative breast cancers. The prognostic value with respect to age is also investigated. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4685

54 Samples

Download data: CEL

(Submitter supplied) subpopulation of breat cancer using gene expression data and clinical data Keywords: breast cancer survival and metastasis analysis

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2567

311 Samples

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(Submitter supplied) Endocrine therapy is the most used treatment for hormone receptor positive breast cancers. Despite the clear benefit of endocrine therapy for patients with ER+ breast cancer, resistance to treatment is a critical clinical issue affecting a large number of patients. While many studies have shown that genetics is an important factor in therapy resistance, recent publications have also reported that epigenetics might play a major role in the acquisition of resistance to endocrine therapies. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

40 Samples

Download data: TXT

(Submitter supplied) Primary tumors from a series of breast cancer patients evaluated for the presence of tumor cells in bone marrow. Samples were taken at primary surgery, RNA isolated from fresh frozen tumors, amplified and hybridized to 42k cDNA arrays. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc.

Organism:

Homo sapiens

Type:

Expression profiling by array

6 related Platforms

123 Samples

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(Submitter supplied) Under conditions of hormonal adjuvant treatment the estrogen receptor apoprotein supports breast cancer cell cycling through the retinoic acid receptor α1 apoprotein. Basal proliferation persisted in estrogen-sensitive breast cancer cells grown in hormone depleted conditioned media without or with 4-hydroxytamoxifen (OH-Tam). Downregulating ER using siRNA inhibited basal proliferation by promoting cell cycle arrest. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4065

Platform:

GPL570

12 Samples

Download data: CEL

Analysis of MCF7 cells transfected with control siRNA, estrogen receptor α (ER) siRNA or retinoic acid receptor α (RARα) siRNA. Basal proliferation of MCF7 cells was diminished by knocking down ER or RARα. Results provided insight into the molecular basis of basal proliferation.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 agent, 3 dose, 3 genotype/variation sets

Platform:

GPL570

Series:

GSE26298

12 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) 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) This is Phase II Trial of 4courses of 5-fluorouracil, doxorubicin and cyclophosphamide follwed by 4 additional courses of weekly docetaxel and capecitabine administered as Preoperative Therapy for Patients with Locally Advanced Breast Cancer, Stages II and III by US oncology (PROTOCOL 02-103) We performed gene set analysis (GSA) using functionally annotated gene sets corresponding to almost all known biological processes in ER-positive/HER2negative and ER-negative/HER2-negative breast cancer, respectively.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4056

Platform:

GPL96

61 Samples

Download data: CEL

(Submitter supplied) We assess if distinct biological processes might be associated with chemotherapy sensitivity in the different clinical subsets of breast cancers. We performed gene set analysis (GSA) using functionally annotated gene sets corresponding to almost all known biological processes in ER-positive/HER2negative and ER-negative/HER2-negative breast cancer, respectively.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4057

Platform:

GPL96

103 Samples

Download data: CEL

Analysis of pre-treatment biopsies from 103 HER2-normal breast cancer patients (ER-positive and ER-negative subtypes) from MD Anderson Cancer Center/Institut Goustave Russy. Results provide insight into molecular mechanisms associated with chemotherapy sensitivity in breast cancer subtypes.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 6 disease state, 3 genotype/variation, 3 other, 4 specimen sets

Platform:

GPL96

Series:

GSE22093

103 Samples

Download data: CEL

Analysis of pre-treatment biopsies from 62 HER2-normal breast cancer patients (ER-positive and ER-negative subtypes) from US Oncology clinical trial 02103. Results provide insight into molecular mechanisms associated with chemotherapy sensitivity in breast cancer subtypes.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 disease state, 2 genotype/variation, 2 other, 4 specimen sets

Platform:

GPL96

Series:

GSE23988

61 Samples

Download data: CEL

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

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL10558 GPL24000

508 Samples

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(Submitter supplied) Purpose To develop a radiosensitivity gene expression assay to predict the response to adjuvant radiotherapy (RT) after breast conserving surgery (BCS) in breast cancer. Patients and methods Fresh frozen primary tumors from 336 patients operated with BCS with or without RT were collected. Patients were split in a discovery cohort (N=172) and a validation cohort (N=164). Genes predicting ipsilateral breast tumor recurrence (IBTR) in an Illumina HT12 v4 whole transcriptome analysis were combined with genes from the literature (248 genes in total) to develop a targeted radiosensitivity assay on the Nanostring nCounter platform. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL24000

336 Samples

Download data: CSV

(Submitter supplied) Purpose To develop a radiosensitivity gene expression assay to predict the response to adjuvant radiotherapy (RT) after breast conserving surgery (BCS) in breast cancer. Patients and methods Fresh frozen primary tumors from 336 patients operated with BCS with or without RT were collected. Patients were split in a discovery cohort (N=172) and a validation cohort (N=164). Genes predicting ipsilateral breast tumor recurrence (IBTR) in an Illumina HT12 v4 whole transcriptome analysis were combined with genes from the literature (248 genes in total) to develop a targeted radiosensitivity assay on the Nanostring nCounter platform. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

172 Samples

Download data: CSV, TXT

(Submitter supplied) Background: Recently a 76-gene prognostic signature able to predict distant metastases in lymph node-negative (N-) breast cancer patients was reported. The aims of this study conducted by TRANSBIG were to independently validate these results and to compare the outcome with clinical risk assessment. Materials and Methods: Gene expression profiling of frozen samples from 198 N- systemically untreated patients was performed at the Bordet Institute, blinded to clinical data and independent of Veridex. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

198 Samples

Download data: CEL, RDATA, TXT

(Submitter supplied) For this study, we selected, from the French Sarcoma Group (FSG) database, soft tissue sarcomas with no recurrent chromosomal translocations and for which a frozen tissue of the untreated primary tumor was available. Three hundred and ten sarcomas have been studied. They are split in two cohorts. We used microarrays to detail the global programme of gene expression underlying the tumor biology

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

310 Samples

Download data: CEL