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Sample GSM1100712 Query DataSets for GSM1100712
Status Public on Apr 11, 2013
Title SVZ_NSCs_2 [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 2
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
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
VALUE RMA-normalized, averaged gene-level signal intensity (PM_AVG)

Data table
AB000096 1070
AB000490 589
AB001425 1211
AB001435 1330
AB001539 3773
AB001750 922
AB001926 2392
AB003502 3922
AB004048 6521
AB005662 8964
AB005665 5198
AB005909 529
AB006034 531
AB006103 1068
AB007407 598
AB008928 564
AB009369 975
AB010088 534
AB010122 8511
AB011499 1110

Total number of rows: 44171

Table truncated, full table size 598 Kbytes.

Supplementary file Size Download File type/resource
GSM1100712_515867A02_coding_2012-04-04T151355_532.calls.gz 3.7 Mb (ftp)(http) CALLS
GSM1100712_515867A02_coding_2012-04-04T152013_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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