|
| Status |
Public on Jul 12, 2011 |
| Title |
Subject 06, Hour 060 |
| Sample type |
RNA |
| |
|
| Source name |
peripheral blood of subject 06, hour 060
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: peripheral blood
time_hpi: Hour 060
class_blu: 4
clinic_pheno: Symptomatic
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted at Expression Analysis (Durham, NC) from whole blood using the PAXgene™ 96 Blood RNA Kit (PreAnalytiX, Valencia, CA) employing the manufacturer's recommended protocol. While whole blood RNA is initially extracted, a secondary procedure (B-globin reduction) was then employed to remove the contribution of red blood cell (RBC) RNA to the total RNA. A set of four peptide nucleic acid (PNA) oligomers whose sequences are complementary to the 3’ portions of the alpha and beta hemoglobin RNA transcripts were added to reduce globin RNA transcription due to RBC. The inhibition of globin cDNA synthesis dramatically reduces the relative amount of anti-sense, biotin-labeled cRNA corresponding to the hemoglobin transcripts.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNA were hybridized for on GeneChip Human Genome U133A 2.0 Array.\
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneArray Scanner.
|
| Description |
Gene expression profile from peripheral blood of subject 06, hour 060
|
| Data processing |
The data were analyzed with robust multi-array average (RMA) normalization using default background adjustment and quantile normalization settings. A custom Chip Definition File (CDF) version 10 for more accurate probe mapping to genome (Nucleic Acid Research 33 (20), e175)
|
| |
|
| Submission date |
Jul 11, 2011 |
| Last update date |
Nov 30, 2020 |
| Contact name |
Yongsheng Huang |
| E-mail(s) |
huangys@umich.edu
|
| Phone |
5016583547
|
| Organization name |
University of Michigan
|
| Department |
Bioinformatics
|
| Street address |
100 Washtenaw Ave
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48105 |
| Country |
USA |
| |
|
| Platform ID |
GPL9188 |
| Series (1) |
| GSE30550 |
Temporal expression data from 17 health human subjects before and after they were challenged with live influenza (H3N2/Wisconsin) viruses |
|
| Relations |
| Reanalyzed by |
GSE162329 |
