GEO DataSets

(Submitter supplied) In this study, we profiled gene expressions on 20 biopsy tissues of early stage breast carcinoma using Applied Biosystem’s Human Genome Survey Microarrays. Two main previously defined clinically relevant subtypes of breast tumors, Luminal A (longest survival time) and Basal (shortest survival time) were identified. Statistical analysis identified 1210 genes as signature genes characterizing the two subtypes of breast cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL1843 GPL1426 GPL1708

80 Samples

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(Submitter supplied) To investigate the biological basis between aging and sporadic breast cancer incidence and prognosis, DNA samples from matched ER+ invasive breast cancers diagnosed in either young (<45) or old (>70) women were analyzed with aCGH Keywords: biomarker identification

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4999

71 Samples

Download data: XLS

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

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by array

8 related Platforms

105 Samples

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(Submitter supplied) Summary: Breast cancer cell lines have been used widely to investigate breast cancer pathobiology and new therapies. Breast cancer is a molecularly heterogeneous disease, and it is important to understand how well and which cell lines best model that diversity. In particular, microarray studies have identified molecular subtypes (luminal A, luminal B, ERBB2-associated, basal-like and normal-like) with characteristic gene-expression patterns and underlying DNA copy number alterations (CNAs). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL7785

50 Samples

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(Submitter supplied) Breast cancer cell lines have been used widely to investigate breast cancer pathobiology and new therapies. Breast cancer is a molecularly heterogeneous disease, and it is important to understand how well and which cell lines best model that diversity. In particular, microarray studies have identified molecular subtypes - luminal A, luminal B, ERBB2-associated, basal-like and normal-like - with characteristic gene-expression patterns and underlying DNA copy number alterations (CNAs). more...

Organism:

Homo sapiens

Type:

Genome variation profiling by array

7 related Platforms

55 Samples

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(Submitter supplied) Purpose HER2 gene amplification or protein overexpression (HER2+) defines a clinically challenging subgroup of breast cancer with variable prognosis and response to therapy. We aimed to investigate the heterogeneous biological appearance and clinical behavior of HER2+ tumors using molecular profiling. Materials and Methods Hierarchical clustering of gene expression data from 58 HER2-amplified tumors of various stage, histological grade and estrogen receptor (ER) status was used to construct a HER2-derived prognostic predictor that was further evaluated in several large independent breast cancer data sets. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5345

58 Samples

Download data: GPR, TXT

(Submitter supplied) Breast cancer is a profoundly heterogeneous disease with respect to biological and clinical behavior. Gene expression profiling has been used to dissect this complexity and stratify tumors into intrinsic gene expression subtypes associated with distinct biology, patient outcome and different genomic alterations. Additionally, breast tumors occurring in individuals with germline BRCA1 or BRCA2 mutations typically fall into distinct subtypes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by array

Platforms:

GPL5345 GPL7247 GPL4723

718 Samples

Download data: GPR, TXT

(Submitter supplied) Microarrays have shown that gene expression patterns can be used to molecularly classify breast cancers into distinct and clinically significant groups. In order to translate these profiles into routine diagnostics, we have recapitulated a microarray breast cancer classification using real-time quantitative (q)RT-PCR. We performed statistical analyses on multiple independent microarray datasets to select an “intrinsic” gene set that can classify breast tumors into four different subtypes designated as Luminal, Normal-like, HER2+/ER-, and Basal-like. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL885 GPL1390 GPL887

126 Samples

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(Submitter supplied) Breast cancer subtypes identified in genomic studies have different underlying genetic defects. Mutations in the tumor suppressor p53 occur more frequently in estrogen receptor (ER) negative, basal-like and HER2-amplified tumors than in luminal, ER positive tumors. Thus, because p53 mutation status is tightly linked to other characteristics of prognostic importance, it is difficult to identify p53's independent prognostic effects. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL887 GPL885

48 Samples

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(Submitter supplied) Abstract: Characteristic patterns of gene expression measured by DNA microarrays have been used to classify tumors into clinically relevant subgroups. In this study, we have refined the previously defined subtypes of breast tumors that could be distinguished by their distinct patterns of gene expression. A total of 115 malignant breast tumors were analyzed by hierarchical clustering based on patterns of expression of 534 "intrinsic" genes and shown to subdivide into one basal-like, one ERBB2-overexpressing, two luminal-like, and one normal breast tissue-like subgroup. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

8 related Platforms

167 Samples

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(Submitter supplied) Additional experiments used for intrinsic gene selection. Sorlie et al. Proc Natl Acad Sci U S A. 2001 Sep 11;98(19):10869-74. This Series accompanies Series GSE4335. Experiments that were used to make the "intrinsic" gene list from. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

Organism:

Homo sapiens

Type:

Expression profiling by array

5 related Platforms

45 Samples

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(Submitter supplied) Characterization of patterns of gene expression measured by cDNA microarrays to subclassify tumors into clinically relevant subgroups. In this study, we have refined the previously defined subtypes of breast tumors that could be distinguished by their distinct patterns of gene expression. A total of 115 malignant breast tumors and 7 benign tissues were analyzed by hierarchical clustering based on patterns of expression of 534 "intrinsic" genes and shown to subdivide into a basal epithelial-like, an ERBB2-overexpressing, two luminal epithelial-like and a normal breast tissue-like subgroup. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

7 related Platforms

122 Samples

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(Submitter supplied) Treatment-related morbidities have been linked to the large post-operative treatment volumes required for external beam partial breast irradiation (PBI). Alternative PBI techniques require equipment that is not readily available. To address these issues, we designed a phase I trial utilizing widely available technology to 1) evaluate the safety of a single radiation treatment delivered preoperatively to the small-volume, intact breast tumor and 2) identify imaging and genomic markers of radiation response.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17586

62 Samples

Download data: CEL

(Submitter supplied) Introduction: Breast radiotherapy is currently “one size fits all” regardless of breast cancer subtype (eg. luminal, basal). However, recent clinical data suggests that radiation response may vary significantly among subtypes. Therefore, current practice leads to over- or under-treatment of women whose tumors are more or less radiation responsive. We hypothesized that this clinical variability may be due, in part, to differences in cellular radiation response. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

96 Samples

Download data: CEL

(Submitter supplied) This microarray dataset contains 51 triple-negative breast cancers with clinical and recurrence information for at least 3 years of follow-up and 106 luminal breast cancers (reanalyzed data from Series GSE24124, GSE9309, and GSE17040). A novel set of 45-gene signature that was statistically predictive of distant metastasis recurrence for triple-negative breast cancer was identified in this study.

Organism:

Homo sapiens

Type:

Expression profiling by array; Third-party reanalysis

Platform:

GPL7264

51 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

295 Samples

Download data: CEL, CSV

(Submitter supplied) We used microarrays to profile the expression levels of 285 ovarian samples in order to identify molecular subtypes of the tumour Keywords: disease state analysis

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

285 Samples

Download data: CEL, CSV

(Submitter supplied) We used microarrays to profile the expression levels of 5 tumour samples Keywords: expression difference of cell types in tumour samples

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

10 Samples

Download data: CEL, CSV

(Submitter supplied) Introduction: Five different molecular subtypes of breast cancer have been identified through gene expression profiling. Each subtype has a characteristic expression pattern suggested to partly depend on cellular origin. We aimed to investigate whether the molecular subtypes also display distinct methylation profiles. Methods: We analysed methylation status of 807 cancer-related genes in 189 fresh frozen primary breast tumours and four normal breast tissue samples using an array-based methylation assay. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL9183

193 Samples

Download data: TXT