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Sample GSM576514 Query DataSets for GSM576514
Status Public on Jun 11, 2012
Title hLung_Laval_380
Sample type RNA
 
Source name Lung
Organism Homo sapiens
Characteristics tissue: lung
tumor status: non-tumorous
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified from the clinical lung specimens using the SV96 Total RNA Isolation System (Promega) according to a custom automated protocol. The extracted RNA was quantified using RiboGreen RNA Quantitation Reagent (Invitrogen) and its quality was assessed using Agilent RNA 6000 Pico Kit (Agilent, Santa Clara, CA) in an Agilent 2100 Bioanalyzer (Agilent).
Label biotin
Label protocol Samples were amplified and labeled using the Ovation WB protocol (NuGEN Technologies, San Carlos, CA), according to the manufacturer’s instructions. In brief, 50 ng of total RNA was amplified using the Ribo-SPIA technology (NuGEN Technologies). After quantification, 4.4 ug cDNA was fragmented and labeled with biotin using the FL-Ovation cDNA Biotin Module V2 (NuGEN Technologies).
 
Hybridization protocol The amplified cDNAs were hybridized to Affymetrix gene expression chips (Human Rosetta Custom Affymetrix 2.0, Affymetrix, Santa Clara, CA) using standard Affymetrix protocols.
Scan protocol Arrays were scanned using a GeneChip Scanner 3000 7G. The images were analyzed using the Affymetrix GeneChip Operating Software (GCOS).
Description Lung specimen was obtained from a patient undergoing lung cancer surgery.
Data processing Expression values were extracted using the Robust Multichip Average method (Irizarry RA et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003;4:249-64) as implemented in the Affymetrix Power Tools software (available at: http://www.affymetrix.com/partners_programs/programs/developer/tools/powertools.affx).
 
Submission date Aug 09, 2010
Last update date Jun 11, 2012
Contact name Yohan Bossé
E-mail(s) yohan.bosse@criucpq.ulaval.ca
Organization name Laval University
Street address 2725, chemin Sainte-Foy
City Quebec
State/province Quebec
ZIP/Postal code G1V 4G5
Country Canada
 
Platform ID GPL10379
Series (2)
GSE23352 Whole-genome gene expression profiles of non-tumorous human lung tissues: Laval set
GSE23546 Whole-genome gene expression profiles of non-tumorous human lung tissues

Data table header descriptions
ID_REF
VALUE RMA-normalized signal

Data table
ID_REF VALUE
100140595_TGI_at 4.35117
100138926_TGI_at 10.47991
100132511_TGI_at 6.76526
100131045_TGI_at 4.97967
100139200_TGI_at 6.82422
100134882_TGI_at 4.61176
100149534_TGI_at 11.89263
100160054_TGI_at 5.245
100146505_TGI_at 3.593
100140938_TGI_at 7.2904
100132399_TGI_at 4.29959
100127043_TGI_at 6.96032
100123376_TGI_at 4.29382
100159891_TGI_at 7.6937
100152215_TGI_at 2.28605
100136378_TGI_at 5.52396
100147785_TGI_at 9.25691
100138290_TGI_at 7.51117
100135090_TGI_at 3.55454
100310147_TGI_at 7.91198

Total number of rows: 52378

Table truncated, full table size 1282 Kbytes.




Supplementary file Size Download File type/resource
GSM576514.CEL.gz 5.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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