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Sample GSM1939659 Query DataSets for GSM1939659
Status Public on Jun 21, 2018
Title T CD8 DP from cHL 3 [exon-level]
Sample type RNA
Source name Ex-vivo Tfh
Organism Homo sapiens
Characteristics pathology: Classical Hodgkin Lymphoma
treatment: Untreated
cell type: CXCR5+ ICOS+ CD8+ T cells
Extracted molecule total RNA
Extraction protocol RNA was extracted using AllPrep ARN/ADN kit (Qiagen, Valencia, CA)
Label biotin
Label protocol Biotinylated double strand cDNA targets were prepared with the NuGEN Ovation PicoSL WTA System V2 Kit followed by the NuGEN Encore Biotin Module Kitaccording to manufacturer recommendations
Hybridization protocol Following fragmentation and end-labeling, 4.7 μg of cDNAs were hybridized for 16 hours at 45°C on GeneChip® Human Transcriptome Array 2.0 (Affymetrix)
Scan protocol GeneChips were scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 0.7 µm
Description Gene expression of CXCR5+ ICOS+ CD8+ T cells from cHD lymph node
Data processing Raw data (.CEL Intensity files) were extracted from the scanned images using the Affymetrix GeneChip® Command Console (AGCC) version 4.1.2. CEL files were further processed with Affymetrix Expression Console software version 1.4.1 using Robust Multi-array Average (RMA) algorithms with default settings at the gene and exon levels
Submission date Nov 13, 2015
Last update date Jun 21, 2018
Contact name Patricia Amé-Thomas
Organization name INSERM UMR1236
Department Faculté de Médecine
Street address 2 Avenue du Pr Léon Bernard
City Rennes
ZIP/Postal code 35033
Country France
Platform ID GPL17585
Series (1)
GSE74983 Expression data of CXCR5+ICOS+ (DP) and CXCR5-ICOS- (DN) CD8+T cells from classical Hodgkin Lymphoma (cHL) lymph nodes
Alternative to GSM1939653 (gene-level analysis)

Data table header descriptions
VALUE RMA signal intensity

Data table
JUC01000001.hg.1 6.094543
JUC01000002.hg.1 4.075919
JUC01000003.hg.1 8.120554
JUC01000004.hg.1 3.949072
JUC01000005.hg.1 6.775348
JUC01000006.hg.1 7.674606
JUC01000007.hg.1 3.302607
JUC01000008.hg.1 6.379037
JUC01000009.hg.1 2.408724
JUC01000010.hg.1 2.621339
JUC01000011.hg.1 10.49171
JUC01000012.hg.1 6.920607
JUC01000013.hg.1 11.19458
JUC01000014.hg.1 8.279011
JUC01000015.hg.1 4.437388
JUC01000016.hg.1 6.471077
JUC01000017.hg.1 5.54492
JUC01000018.hg.1 5.611363
JUC01000019.hg.1 6.287151
JUC01000020.hg.1 6.287151

Total number of rows: 914585

Table truncated, full table size 23382 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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