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Sample GSM743690 Query DataSets for GSM743690
Status Public on Dec 25, 2011
Title CC_BJRiPSMPC.1.1.undiff..1._8.2010 [HuGene-1_0-st]
Sample type RNA
 
Source name BJRiPS_derived_MPCs_rep1
Organism Homo sapiens
Characteristics cell type: MPC
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_B04_646968.CEL
CC_BJRiPSMPC#1.1(undiff)(1)_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 11.23658016
7892502 58.45632265
7892503 19.9376683
7892504 799.6831106
7892505 19.92505091
7892506 54.97433857
7892507 27.00883057
7892508 18.9929906
7892509 1480.505203
7892510 11.01875096
7892511 36.44361377
7892512 127.0792491
7892513 32.11539468
7892514 161.3096748
7892515 2223.966971
7892516 11.18796956
7892517 280.5500644
7892518 42.86227218
7892519 66.66496034
7892520 1302.615531

Total number of rows: 32321

Table truncated, full table size 627 Kbytes.




Supplementary file Size Download File type/resource
GSM743690.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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