NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1000018 Query DataSets for GSM1000018
Status Public on Feb 02, 2015
Title 15-08-001-0_Asthmatic
Sample type RNA
 
Source name PBMC
Organism Homo sapiens
Characteristics asthma: TRUE
subtype: lung_function
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 10.3247
AB000463 10.3381
AB000781 7.3367
AB001328 6.7868
AB002294 11.3563
AB002308 12.3743
AB002311 11.1337
AB002313 10.7412
AB002360 7.0219
AB002377 9.0369
AB002381 10.6381
AB002382 9.0092
AB002384 8.4831
AB003177 10.4672
AB003333 10.2528
AB006589 6.4354
AB006590 6.4158
AB006621 7.2302
AB006625 7.7853
AB007457 11.1294

Total number of rows: 45033

Table truncated, full table size 746 Kbytes.




Supplementary file Size Download File type/resource
GSM1000018_534619A06_532.pair.gz 2.9 Mb (ftp)(http) PAIR
GSM1000018_534619A06_532_norm_RMA.pair.gz 2.4 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap