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Sample GSM4566577 Query DataSets for GSM4566577
Status Public on Jun 15, 2021
Title Sample n1052 (Lung, Female), Normal
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics diagnosis: Lung cancer
gender: Female
tissue: Normal
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 6.041156113
7896761 5.172069603
7896779 5.212089242
7896798 5.298372903
7896817 4.958741541
7896822 7.422989179
7896865 5.687207081
7896878 5.898094954
7896882 4.975456343
7896908 6.271357162
7896952 6.729938025
7896985 5.813654894
7897044 8.230445464
7897068 9.609345907
7897078 8.195035276
7897089 5.897714083
7897119 6.459917923
7897132 6.167237433
7897154 5.031525073
7897172 8.357373602

Total number of rows: 17264

Table truncated, full table size 335 Kbytes.




Supplementary file Size Download File type/resource
GSM4566577_1052N.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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