|
| Status |
Public on Nov 13, 2016 |
| Title |
P009015.18112013.TTC14.01 |
| Sample type |
RNA |
| |
|
| Source name |
CD14
|
| Organism |
Homo sapiens |
| Characteristics |
age: 38
Sex: M
disease state (diagnosisfull): UC (Ulcerative colitis)
smoking status: Ex
disease state (simplediagnosis): UC
cell type: CD14
scandate: 2015-03-27
samplenumber: 9015
sentrixbarcode: 3999937016
samplesection: H
samplesection: 32
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Separated cell RNA was extracted using the Allprep DNA/RNA miRNA universal kit (Qiagen). Whole blood RNA was extracted from PAXgene tubes using the PAXgene blood miRNA kit (PreAnalytix®, Switzerland). The RNA was quantified and assessed for quality using the Agilent BioAnalyzer with only samples with a RNA-integrity number of >7 being used for downstream analyses.
|
| Label |
biotin
|
| Label protocol |
For the whole blood PAXgene samples (WB), sample concentration and cleanup was performed using the MinElute RNA cleanup kit (Qiagen), globin mRNA transcripts were depleted using GlobinClear (Ambion, Life Technologies USA). All RNA was subsequently amplified and biotylated using the Illumina® TotalPrep™ RNA Amplification Kit (Ambion, Life Technology).
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol,18 hour
|
| Scan protocol |
Standard Illumina scanning protocol,iScan NO660
|
| Description |
Sample 32
P009015.18112013.TTC14.01
|
| Data processing |
Data read into R using lumi, background adjusted, variance stabilzed and quantile normalized.
|
| |
|
| Submission date |
Sep 05, 2016 |
| Last update date |
Nov 13, 2016 |
| Contact name |
Nichols Ventham |
| E-mail(s) |
[email protected]
|
| Organization name |
Univerisity of Edinburgh
|
| Department |
CGEM
|
| Lab |
Gastrointestinal Unit
|
| Street address |
Western General Hospital
|
| City |
Edinburgh |
| ZIP/Postal code |
EH4 6XU |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE86434 |
Integrative Epigenome-Wide Analysis Shows That DNA Methylation May Mediate Genetic Risk In Inflammatory Bowel Disease [Expression profiling] |
| GSE87650 |
Integrative Epigenome-Wide Analysis Shows That DNA Methylation May Mediate Genetic Risk In Inflammatory Bowel Disease |
|
