|
| Status |
Public on Oct 20, 2016 |
| Title |
treated with ASO agaisnt HNRNPA2B1_3 |
| Sample type |
RNA |
| |
|
| Source name |
primary fibroblasts
|
| Organism |
Homo sapiens |
| Characteristics |
genotype: WT
disease: none
treatment: ASO targeting hnRNP A2/B1
tissue type type: skin
|
| Treatment protocol |
Cells were lipofected with ASO against HNRNPA2B1 or non targeting control ASOs. After 48 hours, cells were harvested and depletion was validated by qPCR and western blot.
|
| Growth protocol |
human primary fibroblasts were grown under normal conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted by standard Trizol extraction.
|
| Label |
biotin
|
| Label protocol |
WT Terminal Labeling Kit, Affymetrix
|
| |
|
| Hybridization protocol |
Hybridization cocktails containing ~5.5 ug of fragmented and labeled DNA target were prepared and applied to GeneChip Human Splice Junction arrays. Hybridization was performed for 16 hours using the Fluidics 450 station.
|
| Scan protocol |
Arrays were scanned using the Affymetrix 3000 7G scanner and GeneChip Operating Software version 1.4 to produce .CEL intensity files.
|
| Data processing |
Data processed using Affymetrix package (Affy Power Tools) apt-probeset-summarize. Iter-plier algorithm used to quantify probesets.
http://exon.ucsc.edu/documentation/mjay_library/hjay.pgf
|
| |
|
| Submission date |
Aug 30, 2016 |
| Last update date |
Oct 20, 2016 |
| Contact name |
Gene Yeo |
| E-mail(s) |
geneyeo@ucsd.edu
|
| Organization name |
UCSD
|
| Street address |
2880 Torrey Pines Scenic Dr. Room 3805/Yeo Lab
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL15106 |
| Series (2) |
| GSE86218 |
HNRNPA2B1 regulates alternative RNA processing in the nervous system and accumulates in granules in ALS IPSC-derived motor neurons [hnRNPA2B1_Arrays_human_Fibs_1] |
| GSE86464 |
HNRNPA2B1 regulates alternative RNA processing in the nervous system and accumulates in granules in ALS IPSC-derived motor neurons |
|
