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Sample GSM4566589 Query DataSets for GSM4566589
Status Public on Jun 15, 2021
Title Sample n1119 (Lung, Male), Normal
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics diagnosis: Lung cancer
gender: Male
tissue: Normal
patient id: n1119
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 6.057882557
7896761 4.780898748
7896779 5.299417249
7896798 5.484230681
7896817 5.27168984
7896822 7.160138708
7896865 5.63212718
7896878 5.915164862
7896882 5.200341449
7896908 5.817089954
7896952 6.710068661
7896985 5.768157982
7897044 8.118475825
7897068 9.32620029
7897078 8.101123207
7897089 6.179524515
7897119 6.287191793
7897132 6.285086569
7897154 5.190703833
7897172 8.126186349

Total number of rows: 17264

Table truncated, full table size 335 Kbytes.




Supplementary file Size Download File type/resource
GSM4566589_1119N.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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