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Sample GSM4566658 Query DataSets for GSM4566658
Status Public on Jun 15, 2021
Title Sample a39605 (Lung, Male), Tumor
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics diagnosis: Lung cancer
gender: Male
tissue: Tumor
patient id: a39605
Extracted molecule total RNA
Extraction protocol RNA was extracted using the Qiagen RNeasy mini kit (Qiagen, Crawley, UK).
Label Biotin
Label protocol Total RNA was converted to labelled cDNA for hybridization onto the gene expression chips using the AmbionTM WT Expression Kit. The single-stranded DNA was fragmented and labelled using Affymetrix GeneChipTM WT Terminal Labelling Kit.
 
Hybridization protocol Hybridization was performed for 16 h on GeneTitanTM Instrument.
Scan protocol GeneChips were scanned on a GeneTitan system (Affymetrix Ltd.).
Description Gene expression from surgically resected lung tissue in lung cancer patients.
Data processing Gene expression data from the Affymetrix HuGene 1.1 ST array were available for a total of 123 samples from 69 patients with either adenocarcinoma or squamous cell carcinoma. Data were RMA-treated using Oligo (1.38.0) as part of a larger study and filtered. Specifically, transcript cluster intensity was required to exceed the data set median in 1 or more sample (genefilter 1.56.0), and be designated within the Affymetrix annotation (netaffx build 36) with a cross-hybridisation potential of 1 (unique), a non-missing mRNA assignment and as part of the main design probe set category.
 
Submission date May 23, 2020
Last update date Nov 16, 2021
Contact name William Cookson
E-mail(s) w.cookson@imperial.ac.uk
Organization name Imperial College London
Street address Dovehouse Street
City London
ZIP/Postal code SW3 6LY
Country United Kingdom
 
Platform ID GPL11532
Series (2)
GSE151102 Disruption of Y chromosome expression in male lung cancer: replication
GSE151103 Disruption of Y chromosome expression in male lung cancer

Data table header descriptions
ID_REF
VALUE RMA normalised transcript cluster level expression values

Data table
ID_REF VALUE
7896759 5.382534627
7896761 4.758185158
7896779 5.755360917
7896798 5.58546686
7896817 6.067747693
7896822 7.362405971
7896865 5.708432197
7896878 6.181377762
7896882 5.107128067
7896908 6.939807004
7896952 7.677234173
7896985 5.865875174
7897044 6.857290625
7897068 9.18862295
7897078 7.99621776
7897089 6.266659887
7897119 6.905226575
7897132 4.809744969
7897154 5.152569002
7897172 7.769197071

Total number of rows: 17264

Table truncated, full table size 335 Kbytes.




Supplementary file Size Download File type/resource
GSM4566658_115809A1.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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