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Sample GSM1939662 Query DataSets for GSM1939662
Status Public on Jun 21, 2018
Title T CD8 DN 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 GSM1939656 (gene-level analysis)

Data table header descriptions
VALUE RMA signal intensity

Data table
JUC01000001.hg.1 6.544844
JUC01000002.hg.1 3.792104
JUC01000003.hg.1 7.4747
JUC01000004.hg.1 3.138558
JUC01000005.hg.1 6.598138
JUC01000006.hg.1 8.569825
JUC01000007.hg.1 2.87631
JUC01000008.hg.1 5.787103
JUC01000009.hg.1 2.218411
JUC01000010.hg.1 2.792844
JUC01000011.hg.1 10.90169
JUC01000012.hg.1 7.101048
JUC01000013.hg.1 11.15225
JUC01000014.hg.1 8.718983
JUC01000015.hg.1 5.089897
JUC01000016.hg.1 6.439431
JUC01000017.hg.1 5.158159
JUC01000018.hg.1 5.8659
JUC01000019.hg.1 6.436338
JUC01000020.hg.1 6.436338

Total number of rows: 914585

Table truncated, full table size 23383 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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