|
Status |
Public on Apr 11, 2013 |
Title |
1d_diff [gene expression] |
Sample type |
RNA |
|
|
Source name |
cell culture
|
Organism |
Mus musculus |
Characteristics |
strain background: C57BL/6 cell type: SVZ-NSCs one day in differentiation media
|
Treatment protocol |
For FACS isolated cells, total SVZ was dissected and subjected to the FACS protocol detailed in Pastrana, et al 2009
|
Growth protocol |
SVZ cells were grown in monolayer in proliferation media. At passage 5-7, cells were switched to media without growth factors for indicated timepoints (1,2,4 days)
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated with trizol reagent and amplified with Whole Transcriptome Amplification Kit (Thermo).
|
Label |
Cy3
|
Label protocol |
Labeling was performed according to standard Nimblegen Protocols
|
|
|
Hybridization protocol |
Hybridization was perfomed on a Maui Hybridization System
|
Scan protocol |
Scanning was done on a GenePix 4000B scanner according to standard Nimblegen protocols
|
Description |
SAMPLE 9
|
Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249) as implemented in the DEVA package, version 1.2.1 Sample data table contains RMA-normalized, averaged gene-level signal intensity (i.e. values in the 'PM_AVG' conlumn in processed data .calls file)
|
|
|
Submission date |
Mar 19, 2013 |
Last update date |
Jan 01, 2019 |
Contact name |
Abhinav Nellore |
E-mail(s) |
abhinav.nellore@ucsf.edu
|
Phone |
4439101925
|
Organization name |
UCSF
|
Street address |
513 Parnassus Avenue
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94143-0794 |
Country |
USA |
|
|
Platform ID |
GPL15887 |
Series (2) |
GSE45280 |
Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo [expression] |
GSE45282 |
Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo |
|