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Sample GSM1100711 Query DataSets for GSM1100711
Status Public on Apr 11, 2013
Title SVZ_NSCs_1 [gene expression]
Sample type RNA
 
Source name Mouse Brain_activated stem cells (NSCs)
Organism Mus musculus
Characteristics strain background: C57BL/6
cell type: FACS isolated SVZ stem cells
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 1
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

Data table header descriptions
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity (PM_AVG)

Data table
ID_REF VALUE
AB000096 1083
AB000490 606
AB001425 1296
AB001435 1341
AB001539 5571
AB001750 832
AB001926 2034
AB003502 3682
AB004048 6601
AB005662 10706
AB005665 6180
AB005909 531
AB006034 519
AB006103 1133
AB007407 568
AB008928 1240
AB009369 951
AB010088 520
AB010122 7935
AB011499 1108

Total number of rows: 44171

Table truncated, full table size 598 Kbytes.




Supplementary file Size Download File type/resource
GSM1100711_515867A01_coding_2012-04-04T151352_532.calls.gz 3.7 Mb (ftp)(http) CALLS
GSM1100711_515867A01_coding_2012-04-04T152010_532.pair.gz 2.3 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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