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Sample GSM1036111 Query DataSets for GSM1036111
Status Public on Dec 05, 2012
Title CordBlood_CD4+_PIM123_siRNA_Act+IL4_6h__rep2
Sample type RNA
 
Source name human cord blood CD4+ cells, PIM123 siRNA treated, Act+IL4
Organism Homo sapiens
Characteristics genotype/variation: PIM kinase (PIM1+PIM2+PIM3) knockdown
tissue: cord blood
cell type: CD4+ T cells
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with RNeasy mini kit (Qiagen) according to manufacturers instructions. In-column DNase (RNase-Free Dnase Set, Qiagen) treatment was performed for 15 minutes. RNA was eluted in dH2O.
Label Biotin
Label protocol Amplification was started from 250 ng of total RNA using the Affymetrix GeneChip 3_IVT Express Kit (P/N 901229), and cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to manufacturer's protocol.
 
Hybridization protocol Samples were hybridized to GeneChip Human Genome U219 array plate wit specific protocold for using the GeneTitan Hybridization, Wash and Stain Kit for 3_IVT Array Plates (P/N 901530).
Scan protocol GeneTitan Instrument was used to scan the arrays. Affymetrix GeneChip Command Console (AGCC) 3.1 was used to control the GeneTitan hybridization process and in summarizing probe cell intensity data.
Description CD4+ cell culture from cord blood of human neonates
Data processing Probe set summarization and normalization was performed by robust multi-array averaging (RMA, including background subtraction, summarization by median polish and quantile normalization) using the R/Bioconductor package affy.
 
Submission date Nov 13, 2012
Last update date Dec 05, 2012
Contact name Kartiek Kanduri
Phone +358-2-333-8001
Organization name Turku Centre for Biotechnology
Lab Molecular Systems Immunology / Lahesmaa
Street address Tykistokatu 6
City Turku
ZIP/Postal code 20520
Country Finland
 
Platform ID GPL13667
Series (1)
GSE40542 Proviral integration site for Moloney murine leukemia virus (PIM) kinases promote human T helper 1 cell differentiation

Data table header descriptions
ID_REF
VALUE RMA-calculated signal intensity

Data table
ID_REF VALUE
11715100_at 4.52026527018833
11715101_s_at 3.16440725121459
11715102_x_at 4.61242062047809
11715103_x_at 3.95799337716059
11715104_s_at 3.46681053772936
11715105_at 3.03547755010734
11715106_x_at 3.50688551989844
11715107_s_at 3.34708995018696
11715108_x_at 3.06827845537566
11715109_at 2.94508068899521
11715110_at 3.17484010917588
11715111_s_at 3.32313937404535
11715112_at 2.78428422227526
11715113_x_at 3.33516596909316
11715114_x_at 3.51091733376691
11715115_s_at 3.20281819362738
11715116_s_at 2.98139801493385
11715117_x_at 3.00846210022546
11715118_s_at 3.14518375928807
11715119_s_at 3.60335366167584

Total number of rows: 49386

Table truncated, full table size 1467 Kbytes.




Supplementary file Size Download File type/resource
GSM1036111_Th2_6h_PIMkd_rep2.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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