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Series GSE61578 Query DataSets for GSE61578
Status Public on Dec 31, 2015
Title Gene Expression and HD-SNP6.0 data from Primary Testicular (PTL), Primary Central Nervous System Lymphoma (PCNSL) and Primary Mediastinal B-cell Lymphoma (PMLBCL)
Organism Homo sapiens
Experiment type Expression profiling by array
Genome variation profiling by SNP array
Summary We obtained gene expression data and HD-SNP6.0 copy number data from PTL, PCNSL and PMLBCL samples and performed an integrative analysis on them. RNA was whole genome amplified using Nugen.
Overall design Gene expression profiles (GEP) and copy number (CN) data were obtained from 7 PTL. GEP was obtained from 15 PCNSL and CN from 23 PCNSL (overlap of 11). The PMLBCL series contained GEP of 9 and CN data from 11 cases (overlap of 9).
180 samples from GSE34171 provide the framework for the CN analysis and are therefore added to the segmented CN file (input_to_gistic.seg.txt).
Contributor(s) Chapuy B, Monti S, Shipp M
Citation(s) 26702065
Submission date Sep 19, 2014
Last update date Mar 25, 2019
Contact name Björn Chapuy
Phone +1-617-632-3881
Organization name Dana-Farber Cancer Institute
Department Medical Onology
Lab Shipp Lab
Street address 450 Brookline Ave.
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
Platforms (3)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
GPL6801 [GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array
Samples (260)
GSM1508700 old_c432 (GEP)
GSM1508701 old_c438 (GEP)
GSM1508702 old_c460 (GEP)
BioProject PRJNA261518

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
GSE61578_CN_input_to_gistic.seg.txt.gz 982.4 Kb (ftp)(http) TXT
GSE61578_GEP_lymphoma.combined.nugen.rma.GS.txt.gz 2.0 Mb (ftp)(http) TXT
GSE61578_GEP_lymphoma2009.nugen.rma.GSmed.txt.gz 1.8 Mb (ftp)(http) TXT
GSE61578_RAW.tar 6.6 Gb (http)(custom) TAR (of CEL)
Processed data included within Sample table
Processed data are available on Series record

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