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Sample GSM743694 Query DataSets for GSM743694
Status Public on Dec 25, 2011
Title CC_ADSV28F.P..2._8.2010 [HuGene-1_0-st]
Sample type RNA
 
Source name ADSV_28_derived_MPCs_+PPAR2_rep2
Organism Homo sapiens
Characteristics cell type: MPC
agent: PPAR2
Extracted molecule total RNA
Extraction protocol Total RNA from human cell lines or human fat was extracted with Trizol (Invitrogen) and purified via the RNeasy mini kit (Qiagen) according to the manufacturers’ instructions. RNA quality was assessed using an Aglient Bioanalyzer
Label biotin
Label protocol Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
 
Hybridization protocol Samples were hybridized using Affymetrix hybridization kit materials
Scan protocol Affymetrix Gene ChIP Scanner 3000 7G
Description Gene Expression
MINTY_p_Cowen_Affy1.0ST_plate_HuGene-1_0-st-v1.r4_B08_647086.CEL
CC_ADSV28F(P)(2)_8-2010
Data processing Data were processed using the BioConductor affy package in R. RMA background correction was applied to probe intensities followed by quantile normalization. Probe set intensities were summarized from individual probes (excluding mismatch probes) using median polished. Gene level intensities were generated by mapping probe sets to refseq annotations. Probe sets that did not map to refseq annotations were not considered in further analyses. Probe Sets mapping to the same genes were median collapsed by gene symbol. Final normalized data was generated by median centering each array after the prior processing.
probe group file: [Exon array] probe group file: HuGene-1_0-st-v1.r4.pgf/HG-U133_Plus_2.pgf
meta-probeset file: [Exon array] meta-probeset file: HuGene-1_0-st-v1.r4.mps/HG-U133_Plus_2.mps
 
Submission date Jun 16, 2011
Last update date Dec 25, 2011
Contact name Tim D Ahfeldt
E-mail(s) tim.ahfeldt@mssm.edu
Organization name Icahn School of Medicine at Mount Sinai
Department Neuroscience
Lab Tim D Ahfeldt
Street address 1425 Madison Ave
City NYC
State/province NY
ZIP/Postal code 10029
Country USA
 
Platform ID GPL6244
Series (2)
GSE30038 Programming human pluripotent stem cells into adipocytes [Affymetrix]
GSE30041 Programming human pluripotent stem cells into adipocytes

Data table header descriptions
ID_REF
VALUE Quantile normalized, median centered(array) gene level expression values from Bioconductor affy package

Data table
ID_REF VALUE
7892501 6.294088935
7892502 28.15920041
7892503 26.12831198
7892504 377.262739
7892505 23.8693892
7892506 23.24126068
7892507 56.71977362
7892508 15.111678
7892509 760.6187273
7892510 30.99070303
7892511 23.25891053
7892512 95.04083308
7892513 25.1037396
7892514 1288.285592
7892515 1228.403965
7892516 17.53426552
7892517 33.17606699
7892518 10.64285267
7892519 24.01275706
7892520 834.9070227

Total number of rows: 32321

Table truncated, full table size 627 Kbytes.




Supplementary file Size Download File type/resource
GSM743694.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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