GEO DataSets

(Submitter supplied) In more than 70% of families with a strong history of breast and ovarian cancers, pathogenic mutation in BRCA1 or BRCA2 cannot be identified, even though hereditary factors are expected to be involved. It has been proposed that tumors with similar molecular phenotypes also share similar pathophysiological mechanisms. Grouping into molecularly homogeneous subsets may therefore be of potential value for further genetic analysis in order to identify new high penetrance breast cancer genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15931

253 Samples

Download data: TXT

(Submitter supplied) Pathogenic germline mutations in BRCA1 or BRCA2 are detected in less than one third of families with a strong history of breast cancer. It is therefore expected that mutations still remain undetected by currently used screening methods. In addition, a growing number of BRCA1/2 sequence variants of unclear pathogen significance are found in the families, constituting an increasing clinical challenge. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL15932 GPL15931

275 Samples

Download data: GPR, TXT

(Submitter supplied) Use of DNA damaging agents and RNA pooling to assess expression profiles associated with BRCA1 and BRCA2 mutation status in familial breast cancer patients Background: A large number of rare sequence variants of unknown clinical significance have been identified in the breast cancer susceptibility genes, BRCA1 and BRCA2. Determining the functional effect of these variants as well as their role in breast cancer susceptibility can be challenging using current classification methods. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6104

72 Samples

Download data: TXT

(Submitter supplied) 89 tumors from women that were eligible for, and subjected to, routine diagnostic testing according to the HBOC criteria but were negative for pathogenic BRCA1/2-mutations or carried an UV in either BRCA1/2

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4560

89 Samples

Download data: TXT

(Submitter supplied) Prediction of BRCA2-association in hereditary breast carcinomas with array-CGH

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4560

47 Samples

Download data: TXT

(Submitter supplied) Genomic DNA from sporadic breast tumours was isolated and analysed using array CGH. The NKI 1MB BAC/PAC micro array was used to identify chromosomal aberrations of all tumours. Keywords: sporadic breast tumour, CGH

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4560

47 Samples

Download data: TXT

(Submitter supplied) Differentially expressed genes between BRCA1/BRCA2 negative and positive mutation driven-tumors.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

49 Samples

Download data: TXT

(Submitter supplied) We used complementary DNA (cDNA) microarrays to compare gene expression patterns in ovarian cancers associated with BRCA1 or BRCA2 mutations with gene expression patterns in sporadic epithelial ovarian cancers and to identify patterns common to both hereditary and sporadic tumors.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL21962

61 Samples

Download data: GPR

(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) Background:This study was a hypothesis generating exploration of genomic data collected at diagnosis for 19 patients, who later participated in a clinical trial. BRCA1/2 germline mutation related hereditary cancers are candidates for new immune therapeutic interventions. However, contrary to what is expected of tumors with compromised DNA repair, a prominent tumor mutation burden (TMB) in hereditary breast and ovarian cancers in this cohort, was not correlated with high global immune activity in their microenvironments. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

24 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by SNP array

Platforms:

GPL3720 GPL570 GPL3718

395 Samples

Download data: CEL

(Submitter supplied) To find BRCA1-associated copy number abberations, the copy number profiles of Familial Basal-like BRCA1-mutated breast carcinomas were compared to Familial Basal-like carcinomas with no pathgogenic BRCA1/2 mutation. This led to the observation of unanticipated heterogeneity of the BRCA1 associated copy number profiles. Gene expression analysis on the same samples identified tumor infiltrating lymphocytes to be responsible for this observation. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL3718 GPL3720

240 Samples

Download data: CEL

(Submitter supplied) CHEK2 1100delC is a moderate-risk cancer susceptibility allele that confers a high breast cancer risk in a polygenic setting. Gene expression profiling of CHEK2 1100delC breast cancers may reveal clues to the nature of the polygenic CHEK2 model and its genes involved. Here, we report global gene expression profiles of a cohort of 155 familial breast cancers, including 26 CHEK2 1100delC mutant tumors. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

155 Samples

Download data: CEL

(Submitter supplied) Comparison of the expression profiles of normal cells from 10 BRCA1 and 10 BRCA2 mutation carriers to 10 non-carrier control samples after radiation induced DNA damage Keywords: dose response

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL2595 GPL2596

60 Samples

Download data

(Submitter supplied) Breast cancer is the most common cancer in females, affecting one in every eight women and accounting for the majority of cancer-related deaths in women worldwide. Germline mutations in the BRCA1 and BRCA2 genes are significant risk factors for specific subtypes of breast cancer. BRCA1 mutations are associated with basal-like breast cancers, whereas BRCA2 mutations are associated with luminal-like disease. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL33458

142 Samples

Download data: DCC

(Submitter supplied) We have analyzed, using DNA microarrays, putative differences in gene-expression level between hereditary BRCA1 mutation-linked and sporadic breast cancer. Our results show that a previously reported marked difference between BRCA1-mutation linked and sporadic breast cancer was probably due to uneven stratification of samples with different ER status and basal-like versus luminal-like subtype. We observed that apparent difference between BRCA1-linked and other types of breast cancer found in univariate analysis was diminished when data were corrected for ER status and molecular subtype in multivariate analyses. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

41 Samples

Download data: CEL

(Submitter supplied) The objective of the study was to characterize hereditary breast tumors based on their miRNA expression profiles. To this end, we performed global miRNA expression analysis of more than 800 human miRNA genes in a large series of 80 FFPE breast tissue samples. The series included 66 hereditary breast primary tumors from 13 BRCA1 mutation carriers, 10 BRCA2 mutation carriers and 43 non-BRCA12 tumors denominated hereafter as BRCAX tumors. more...

Organism:

Homo sapiens; Mus musculus; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1; Human alphaherpesvirus 1; human gammaherpesvirus 4; Betapolyomavirus macacae; Human gammaherpesvirus 8; Rattus norvegicus; JC polyomavirus; Murid gammaherpesvirus 4; Betapolyomavirus hominis

Type:

Non-coding RNA profiling by array

Platform:

GPL7723

80 Samples

Download data: TXT

(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

(Submitter supplied) The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across 485,577 CpGs . Samples were restored FFPE DNA extracted from breast tumours in 3 groups; BRCA1 germline mutated tumours (BRCA1), BRCA1 germline wildtype tumours from women from high risk families (BRCAx) and the designated test variant tumours (BRCA1UV).

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

60 Samples

Download data: TXT

(Submitter supplied) The breast is a dynamic organ whose response to physiological and pathophysiological conditions alters its disease susceptibility, yet the specific effects of these clinical variables on cell state remain poorly annotated. We present a unified, high-resolution breast atlas by integrating single-cell RNA-seq, mass cytometry, and cyclic immunofluorescence, encompassing a myriad of states. We define cell subtypes within the alveolar, hormone-sensing, and basal epithelial lineages, delineating associations of several subtypes with cancer risk factors, including age, parity, and BRCA2 germline mutation. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20795

16 Samples

Download data: CSV