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Series GSE22928 Query DataSets for GSE22928
Status Public on Apr 07, 2011
Title Genome-Wide Analysis of Somatic Copy Number Alterations (CGH, SNP) and Gene Expression (RNA-seq) in Metastatic Melanoma
Organism Homo sapiens
Experiment type Genome variation profiling by genome tiling array
Genome variation profiling by SNP array
Summary All cancers are diseases of the genome. A combination of somatic point mutations, focal amplifications and deletions, and chromosome level aberrations conspire to disrupt gene expression and the interplay between signaling pathways that control normal growth and tissue homeostasis. Here we investigate somatic copy number abberations in metastatic melanomas.
 
Overall design A metastatic melanoma was assayed on Affymetrix SNP arrays to detect copy number abberations. 7 cutaneous melanomas as well as their matched control ( peripheral blood lymphocytes (PBL) or Epstein-Barr virus transformed lymphoblastoid cell lines ) and 2 control melanocytes were assayed on Illumina SNP arrays. 7 metastatic melanomas were hybridized on Agilent CGH arrays using donor matched control as reference.
 
Contributor(s) Stevenson BJ, Valsesia A, Iseli C, Rimoldi D
Citation(s) 21494657
Submission date Jul 13, 2010
Last update date Nov 27, 2018
Contact name Armand Valsesia
Organization name Ludwig Institute for Cancer Research
Street address Bâtiment Génopode
City Lausanne
ZIP/Postal code 1015
Country Switzerland
 
Platforms (3)
GPL6801 [GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array
GPL6984 Illumina Human1M-Duov3 DNA Analysis BeadChip (Human1M-Duov3_B)
GPL9128 Agilent-014693 Human Genome CGH Microarray 244A (Probe name version)
Samples (28)
GSM566196 LAU-Me275 melanoma cells (GenomeWideSNP_6)
GSM566248 diploid male patient LAU63 vs pool of diploid males PROMEGA (Agilent-014693)
GSM566249 LAU-Me235 melanoma cells vs matched PBL (Agilent-014693)
This SubSeries is part of SuperSeries:
GSE23056 Genome-Wide Analysis of Somatic Copy Number Alterations and Gene Expression in Metastatic Melanoma
Relations
BioProject PRJNA133103

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE22928_GSM568797_LAU618PBL_processed.txt.gz 21.8 Mb (ftp)(http) TXT
GSE22928_Illumina_matrix_processed.txt.gz 228.9 Mb (ftp)(http) TXT
GSE22928_Illumina_matrix_signal_intensities.txt.gz 167.0 Mb (ftp)(http) TXT
GSE22928_RAW.tar 636.9 Mb (http)(custom) TAR (of CEL, CSV, TXT)
Processed data provided as supplementary file
Processed data included within Sample table
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