|
| Status |
Public on May 10, 2017 |
| Title |
individual 178 |
| Sample type |
RNA |
| |
|
| Source name |
dorsal root ganglion
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: dorsal root ganglion
|
| Treatment protocol |
Samples were collected post-mortem from brain-dead subjects following asystole. They consist of snap-frozen dorsal root ganglions sourced from bilateral lumbar L4 and L5 (age range: 14-89, sex ratio: 105 F / 109 M, >90% Caucasian). Samples are courtesy of the CORE/CORID repository at the university of Pittsburgh.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions. Total RNAs was quantified using NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific, Lafayette, CO) and the RNAs integrity was assessed using Agilent Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA, US).
|
| Label |
biotin
|
| Label protocol |
The sample labeling was performed based on the manufacturer’s standard protocols.
|
| |
|
| Hybridization protocol |
The microarray hybridization was performed based on the manufacturer’s standard protocols.
|
| Scan protocol |
The arrays were scanned by the Affymetrix Scanner 3000 with 7G upgrade (Affymetrix, Santa Clara, CA)
|
| Description |
exon expression data
|
| Data processing |
Normalization of the microarray data was done in the R statistical software, with the help of the "oligo" R package and the "Platform Design Info for Affymetrix HTA-2_0" R package. The Robust Multi-Array Average (RMA) algorithm was chosen for normalization, with all samples considered simultaneously.
|
| |
|
| Submission date |
Feb 22, 2016 |
| Last update date |
May 11, 2017 |
| Contact name |
Marc Parisien |
| E-mail(s) |
marc.parisien@mcgill.ca
|
| Organization name |
McGill University
|
| Department |
Dentistry
|
| Lab |
Human Pain Genetics Lab
|
| Street address |
740 Dr. Penfield Avenue
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3A 0G1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL17585 |
| Series (2) |
| GSE78148 |
Effect of human genetic variability on gene transcription in dorsal root ganglia and association with pain phenotypes [exon-level] |
| GSE78150 |
Effect of Human Genetic Variability on Gene Expression in Dorsal Root Ganglia and Association with Pain Phenotypes |
|
