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Sample GSM1100728 Query DataSets for GSM1100728
Status Public on Apr 11, 2013
Title Astro_2 [lncRNA Array]
Sample type RNA
Source name Mouse Brain_niche astrocytes (astros)
Organism Mus musculus
Characteristics strain background: C57BL/6
cell type: FACS isolated niche astrocytes
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 7
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 'EXPRS' column in processed data *RMA.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 GPL16745
Series (2)
GSE45281 Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo [lncRNA Array]
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 (EXPRS)

Data table
AK005028_CONTROL_SEQS 1295.9153
AK010953_CONTROL_SEQS 5256.4918
AK039117_CONTROL_SEQS 847.6251
AK128971_CONTROL_SEQS 17581.4076
AK129421_CONTROL_SEQS 13242.4502
AK140151_CONTROL_SEQS 1140.1768
AK143943_CONTROL_SEQS 69.3323
AY971958_CONTROL_SEQS 32.0235
BC001994_CONTROL_SEQS 2062.7768
BC003772_CONTROL_SEQS 1077.7226
BC003833_CONTROL_SEQS 13093.8709
BC007135_CONTROL_SEQS 5058.6747
BC007466_CONTROL_SEQS 780.5726
BC011310_CONTROL_SEQS 872.7876
BC012966_CONTROL_SEQS 3395.4461
BC016421_CONTROL_SEQS 338.8023
BC023729_CONTROL_SEQS 1854.5597
BC023796_CONTROL_SEQS 5681.9076
BC025073_CONTROL_SEQS 859.2868
BC028816_CONTROL_SEQS 27416.6484

Total number of rows: 17664

Table truncated, full table size 898 Kbytes.

Supplementary file Size Download File type/resource
GSM1100728_521989A07_custom_2012-04-04T154243_532.pair.gz 2.1 Mb (ftp)(http) PAIR
GSM1100728_521989A07_custom_532_RMA.calls.gz 252.6 Kb (ftp)(http) CALLS
Processed data included within Sample table
Processed data provided as supplementary file

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