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Sample GSM1100713 Query DataSets for GSM1100713
Status Public on Apr 11, 2013
Title TA_1 [gene expression]
Sample type RNA
Source name Mouse Brain_transit amplifying cells (TA)
Organism Mus musculus
Characteristics strain background: C57BL/6
cell type: FACS isolated transit amplifying 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 3
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 1316
AB000490 663
AB001425 1143
AB001435 1509
AB001539 3091
AB001750 2459
AB001926 3821
AB003502 7820
AB004048 9349
AB005662 9391
AB005665 3491
AB005909 611
AB006034 700
AB006103 4844
AB007407 651
AB008928 1030
AB009369 1099
AB010088 628
AB010122 3715
AB011499 4096

Total number of rows: 44171

Table truncated, full table size 606 Kbytes.

Supplementary file Size Download File type/resource
GSM1100713_515867A03_coding_2012-04-04T151358_532.calls.gz 3.7 Mb (ftp)(http) CALLS
GSM1100713_515867A03_coding_2012-04-04T152015_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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