NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4566660 Query DataSets for GSM4566660
Status Public on Jun 15, 2021
Title Sample a40342 (Lung, Female), Tumor
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics diagnosis: Lung cancer
gender: Female
tissue: Tumor
patient id: a40342
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 5.440687658
7896761 5.153100593
7896779 5.708185839
7896798 6.099672768
7896817 5.548275283
7896822 8.317680903
7896865 5.243591316
7896878 6.182054518
7896882 5.477684352
7896908 6.521961986
7896952 7.515456965
7896985 6.257576561
7897044 7.749181992
7897068 9.263421612
7897078 8.250987648
7897089 6.203836977
7897119 6.85620999
7897132 4.975191103
7897154 5.703275079
7897172 8.259994786

Total number of rows: 17264

Table truncated, full table size 335 Kbytes.




Supplementary file Size Download File type/resource
GSM4566660_117758A1.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap