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Sample GSM1036109 Query DataSets for GSM1036109
Status Public on Dec 05, 2012
Title CordBlood_CD4+_control_siRNA_Act+IL4_6h__rep3
Sample type RNA
 
Source name human cord blood CD4+ cells, control siRNA treated, Act+IL4
Organism Homo sapiens
Characteristics genotype/variation: control
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 3.45542315985806
11715101_s_at 3.15285246747723
11715102_x_at 3.53119882833811
11715103_x_at 3.36843618422554
11715104_s_at 2.8211052362964
11715105_at 3.01509780977974
11715106_x_at 3.57319043600341
11715107_s_at 3.40212614351393
11715108_x_at 3.01274593292033
11715109_at 2.77591465356658
11715110_at 3.10794815567377
11715111_s_at 3.33057554690101
11715112_at 2.9755421686502
11715113_x_at 3.90522323399513
11715114_x_at 3.82505961286363
11715115_s_at 2.89693673177237
11715116_s_at 2.91848481320416
11715117_x_at 3.12435859460058
11715118_s_at 2.84994493969434
11715119_s_at 3.68862021164992

Total number of rows: 49386

Table truncated, full table size 1467 Kbytes.




Supplementary file Size Download File type/resource
GSM1036109_Th2_6h_Scramble_rep3.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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