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Sample GSM1000019 Query DataSets for GSM1000019
Status Public on Feb 02, 2015
Title 15-08-002-3_Asthmatic
Sample type RNA
 
Source name PBMC
Organism Homo sapiens
Characteristics asthma: TRUE
subtype: reversible
cell type: PBMC
Treatment protocol N/A
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol Peripheral blood mononuclear cells (PBMCs) were isolated from whole blood using the Ficoll density gradient separation. DNA and RNA were isolated simultaneously from the PBMCs using the AllPrep DNA/RNA kit (Qiagen, Germantown, MD), DNA and RNA samples were quantified and purity assessed using a NanoDrop spectrophotometer (Thermo Scientific, Wilmington, DE). RNA integrity was determined using the Bioanalyzer (Agilent, Santa Clara, CA).
Label Cy3
Label protocol RNA was reverse transcribed and amplified using the TransPlex Whole Transcriptome Amplification (WTA) Kit (Sigma-Aldrich, St. Louis, MO) followed by Cy3 labeling using Nimblegen one-color labeling kits.
 
Hybridization protocol Nimblegen-recommended protocol on the Maui 12-bay hyb station.
Scan protocol Nimblegen-recommended settings on the Nimblegen’s scanner (Roche Nimblegen, Madison, WI)
Data processing Images were processed using RMA normalization with Nimblegen’s DEVA software.
 
Submission date Sep 10, 2012
Last update date Feb 02, 2015
Contact name David Schwartz
E-mail(s) DAVID.SCHWARTZ@ucdenver.edu
Phone 303-724-1783
Organization name University of Colorado, Anschutz Medical Campus
Department Medicine
Street address Anschutz Medical Campus
City Aurora
State/province CO
ZIP/Postal code 80045
Country USA
 
Platform ID GPL16025
Series (2)
GSE40732 DNA Methylation Changes and Childhood Asthma in the Inner City [gene expression]
GSE40736 DNA Methylation Changes and Childhood Asthma in the Inner City

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
AB000409 9.93
AB000463 9.8809
AB000781 6.833
AB001328 5.7787
AB002294 10.408
AB002308 11.8901
AB002311 8.5524
AB002313 10.9314
AB002360 7.6625
AB002377 11.0845
AB002381 11.6502
AB002382 8.5538
AB002384 12.1104
AB003177 10.7357
AB003333 11.0569
AB006589 7.1061
AB006590 6.712
AB006621 6.662
AB006625 6.8961
AB007457 12.7167

Total number of rows: 45033

Table truncated, full table size 746 Kbytes.




Supplementary file Size Download File type/resource
GSM1000019_534661A02_532.pair.gz 2.9 Mb (ftp)(http) PAIR
GSM1000019_534661A02_532_norm_RMA.pair.gz 2.4 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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