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Affymetrix 250K StyI SNP array data from PBMCs and cell lines of metastatic melanoma patients

ABSTRACT: Allele call files from on 250K StyI SNP array using DNA from 60 human cell lines from metastasized melanoma and from 44 corresponding peripheral blood mononuclear cells (CEL and CHP files provided).

ORGANISM(S): Homo sapiens

PROVIDER: GSE17534 | GEO | 2010/04/13

SECONDARY ACCESSION(S): PRJNA118641

REPOSITORIES: GEO

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Affymetrix 250K StyI SNP array data from PBMCs and cell lines of metastatic melanoma patients

Project description:Allele call files from on 250K StyI SNP array using DNA from 60 human cell lines from metastasized melanoma and from 44 corresponding peripheral blood mononuclear cells (CEL and CHP files provided). Analysis of the 250K StyI arrays was performed for 60 malignant melanoma cell lines derived from metastatic tumors of melanoma patients with GCOS and GTYPE (Affymetrix). In addition, DNA from peripheral blood mononuclear cells (PBMC) was available for 44 of the 60 samples.

2010-04-13 | E-GEOD-17534 | biostudies-arrayexpress

SNP array genomic profiling of PTCL NOS

Project description:DNA extracted from frozen tissue of 47 peripheral T-cell lymphomas–not otherwise specified [PTCL-NOS] was hybridized to 250k StyI SNP arrays

2010-03-17 | GSE15842 | GEO

MSNP data for normal blood, normal bone marrow, CD34+ cells and placenta samples

Project description:A novel method for detecting genome-wide ASM (allele-specific methylation) was developed by modification of the Affymetrix 250K StyI SNP arrays. Using this method, and the above mentioned samples, we consistently detected ASM in non-imprinted regions of the genome. Interestingly, ASM appears to be strongly correlated with the SNP sequences in cis. DNA from various sources (6 normal blood, 2 normal bone marrow, 2 CD34+ bone marrow, and 3 placenta samples) was genotyped and ASM was scored as an allele call conversion from 'AB' (heterozygous) to 'AA' or 'BB' (homozygous) in the StyI+HpaII genomic representation, compared to the StyI-only representation. Each sample was subjected to 5 runs of genotyping on the 250K StyI array, including 2 StyI alone, 2 StyI+HpaII and 1 StyI+MspI.

2008-05-10 | E-GEOD-11409 | biostudies-arrayexpress

Affymetrix HG-U133A 2.0 Expression data

Project description:Expression .CEL files from Affymetrix HG-U133A 2.0 arrays using DNA from 14 human cell lines derived from metastasized melanoma

2010-07-08 | GSE22787 | GEO

MYC drives resistance to PI3K/mTOR targeted inhibition (Sty SNP array)

Project description:Genomic copy-number changes were measured using 250K StyI SNP arrays after selection of cells to enrich for resistance to BEZ235. Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted using Qiagen DNeasy from engineered human cell-lines.

2011-08-31 | GSE25170 | GEO

Whole genome scanning of lung tumors and mucosal biopsies on Affymetrix NspI-250K platform

2013-01-11 | GSE29365 | GEO

SNP array genomic profiling of PTCL NOS

Project description:DNA extracted from frozen tissue of 47 peripheral T-cell lymphomasânot otherwise specified [PTCL-NOS] was hybridized to 250k StyI SNP arrays 47 PTCL NOS compared to healthy reference DNA. DNA of PTCL NOS was extracted from frozen tissue blocks, DNA of healthy individual was extracted from peripheral blood mononuclear cells. Array hybridization was performed according to manufacturerÂ´s protocol.

2010-03-17 | E-GEOD-15842 | biostudies-arrayexpress

MYC drives resistance to PI3K/mTOR targeted inhibition (Sty SNP array)

2011-08-30 | E-GEOD-25170 | biostudies-arrayexpress

Whole genome scanning of lung tumors and mucosal biopsies on Affymetrix NspI-250K platform

Project description:Matched normal lymph node, tumors and corresponding mucosal biopsies from 4 lung cancer patients were scrutinized on Affymetrix 250K-NspI array platform. Frequently deleted regions genes were identified based on the LOH call as per manufacturer's guidelines and normalization. Frequently deleted genes in the tumors and mucosa were identified though this approach Affymetrix 250K-NspI- SNP arrays were performed according to the manufacturer's directions on DNA extracted from lung cancer and corresponding mucosal biopsy specimens. LOH analysis was done to identify genes that are frequently deleted.

2013-01-11 | E-GEOD-29365 | biostudies-arrayexpress

Affymetrix 100K SNP array data-

Project description:allele call files from analysis of NCI60 cell line DNA on 100K SNP arrays. Keywords = NCI60, SNP array, cancer cell line Keywords: other

2005-07-02 | GSE2520 | GEO

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