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Sample GSM4566578 Query DataSets for GSM4566578
Status Public on Jun 15, 2021
Title Sample n1052 (Lung, Female), Tumor
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics diagnosis: Lung cancer
gender: Female
tissue: Tumor
patient id: n1052
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 5.286440842
7896761 4.726323912
7896779 5.300623414
7896798 5.492846885
7896817 5.39371989
7896822 6.958560143
7896865 5.077919806
7896878 6.074004875
7896882 5.168425016
7896908 6.225737641
7896952 7.419381175
7896985 5.66432877
7897044 6.396196401
7897068 8.906453025
7897078 7.889819046
7897089 6.619632694
7897119 5.751507187
7897132 5.028410582
7897154 5.018995851
7897172 7.733845528

Total number of rows: 17264

Table truncated, full table size 335 Kbytes.




Supplementary file Size Download File type/resource
GSM4566578_1052T.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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