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Sample GSM577356 Query DataSets for GSM577356
Status Public on Jun 11, 2012
Title hLung_GRNG_108
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).
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 10, 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)
GSE23545 Whole-genome gene expression profiles of non-tumorous human lung tissues: GRNG 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 5.88327
100138926_TGI_at 10.69488
100132511_TGI_at 6.53506
100131045_TGI_at 4.74948
100139200_TGI_at 7.0234
100134882_TGI_at 5.06643
100149534_TGI_at 12.22615
100160054_TGI_at 5.77572
100146505_TGI_at 3.57833
100140938_TGI_at 7.89876
100132399_TGI_at 5.66209
100127043_TGI_at 7.71085
100123376_TGI_at 4.10823
100159891_TGI_at 8.12292
100152215_TGI_at 2.45122
100136378_TGI_at 4.95822
100147785_TGI_at 10.1928
100138290_TGI_at 8.03036
100135090_TGI_at 3.39051
100310147_TGI_at 8.74152

Total number of rows: 52378

Table truncated, full table size 1283 Kbytes.




Supplementary file Size Download File type/resource
GSM577356.CEL.gz 5.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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