Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Affymetrix SNP6 array data for NLPHL- and PMBCL-derived cell lines

ABSTRACT: We previously identified rearrangements involving CIITA, the master transcriptional regulator of MHC class II expression, as common mutational events in PMBCL and cHL. In order to inform on the prevalence and different types of structural genomic aberrations affecting CIITA in PMBCL and HL we performed high-resolution copy number analysis. Affymetrix SNP6 arrays were performed according to the manufacturer's instructions on DNA extracted from cell lines.

ORGANISM(S): Homo sapiens

PROVIDER: GSE73558 | GEO | 2015/10/12

SECONDARY ACCESSION(S): PRJNA297332

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Affymetrix SNP6 array data for ACTH-Independent Macronodular Adrenal Hyperplasia (AIMAH) samples

Project description:AIMAH is an ACTH-independent bilateral enlargement of the adrenal cortex occuring during adulthood. The enlargment is related to the growth of multiple benign nodules. This condition is associated with various degrees of cortisol hypersecretion. The occurence of several nodules in both adrenals, and the existence of familial forms, suggest the existence of a germline genetic predisposition. To find the gene(s), the aim of the project was to look for recurrent chromosomal alterations in the AIMAH nodules. Extensive mapping of somatic gains, losses and copy-neutral loss of heterozygosity (LOH) was performed with Affymetrix SNP6 arrays. A copy neutral LOH of 16p, occuring in 7 of 26 patients, was one of the only recurrent alterations, pointing towards a candidate gene in this region. Of note this condition differs from the congenital adrenal hyperplasias, related to genetic alterations of steroidogenesis (the latter is an ACTH dependent adrenal hyperplasia). Affymetrix SNP6 arrays were performed according to the manufacturer's directions on DNA extracted from cryopreserved tumor samples or peripheral blood samples.

2013-11-28 | GSE42171 | GEO

SNP6 profiling of papillary carcinoma of the breast

Project description:SNP6 profiling of papillary carcinoma of the breast Affymetrix SNP6 arrays were performed according ro manufacturer's directions on DNA extracted from 16 papillary carcinomas of the breast.

2014-06-20 | E-GEOD-55638 | biostudies-arrayexpress

Affymetrix SNP6 array data for ACTH-Independent Macronodular Adrenal Hyperplasia (AIMAH) samples

2013-11-28 | E-GEOD-42171 | biostudies-arrayexpress

SNP6 profiling of metaplastic breast carcinoma

Project description:SNP6 profiling of metaplastic breast carcinoma

2014-10-31 | GSE57548 | GEO

SNP6 profiling of papillary carcinoma of the breast

Project description:SNP6 profiling of papillary carcinoma of the breast

2014-06-20 | GSE55638 | GEO

Methanopyrus sp. SNP6

Project description:Methanopyrus sp. SNP6 Genome sequencing

| PRJNA362704 | ENA

Archaeoglobus veneficus SNP6

Project description:Archaeoglobus veneficus SNP6 genome sequencing

| PRJNA51621 | ENA

Subgroup specific somatic copy number aberrations in the medulloblastoma genome [gDNA]

Project description:Affymetrix SNP6 profiling of 1087 medulloblastoma samples and 10 medulloblastoma cell lines. Genomic DNA was extracted from primary medulloblastoma samples and medulloblastoma cell lines and hybridized to Affymetrix SNP6 arrays according to the manufacturer's instructions.

2012-07-26 | E-GEOD-37384 | biostudies-arrayexpress

Clonal Selection Drives Genetic Divergence of Metastatic Medulloblastoma [Affymetrix SNP6 Arrays]

Project description:Medulloblastoma, the most common malignant pediatric brain tumour, disseminates by shedding cells into the cerebrospinal fluid, which then re-implant to cover the surface of the brain and spinal cord. Metastases are a very poor prognostic sign at presentation and are usually lethal at recurrence. Mechanisms driving dissemination have been described in the bulk primary tumour, with the underlying assumption that primary tumour and metastases are biologically similar. Here we show that in both mouse and human medulloblastoma, multiple metastases from a single animal are extremely similar, but are genetically highly divergent from the primary tumour. Clonal genetic events in the metastases can be demonstrated in a restricted sub-clone of the primary tumour, suggesting that only rare cells within the primary tumour have the ability to metastasize. Failure to account for the bicompartmental nature of primary and metastatic medulloblastoma represents a major barrier to the development of effective targeted therapies. Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted from cryopreserved human medulloblastoma tissue samples. Copy number analysis of Affymetrix SNP6 arrays was performed for 17 pediatric medulloblastoma samples. Samples comprise a series of 7 patient-matched primary/metastatic cases.

2011-12-09 | E-GEOD-34280 | biostudies-arrayexpress

95 Breast Cancer Exome Affymetrix SNP6 Array Data

Project description:A standard Affymetrix SNP6.0 assay was performed on the tumour samples of patients where we have exonic sequence data from both the tumour and normal DNA of the same patients. The resulting cellularity, copy number and ploidy information generated helped to inform bespoke algorithms in analysing the sequence data.

2013-06-01 | E-MTAB-1110 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data