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Sample GSM1100732 Query DataSets for GSM1100732
Status Public on Apr 11, 2013
Title 2d_diff [lncRNA Array]
Sample type RNA
 
Source name cell culture
Organism Mus musculus
Characteristics strain background: C57BL/6
cell type: SVZ-NSCs two 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 11
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
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 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
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity (EXPRS)

Data table
ID_REF VALUE
AK005028_CONTROL_SEQS 4240.4548
AK010953_CONTROL_SEQS 1889.5009
AK039117_CONTROL_SEQS 3411.1269
AK128971_CONTROL_SEQS 12417.0543
AK129421_CONTROL_SEQS 4714.9084
AK140151_CONTROL_SEQS 5197.1109
AK143943_CONTROL_SEQS 74.7685
AY971958_CONTROL_SEQS 3809.0605
BC001994_CONTROL_SEQS 5441.1859
BC003772_CONTROL_SEQS 9713.3159
BC003833_CONTROL_SEQS 24720.0404
BC007135_CONTROL_SEQS 1051.6074
BC007466_CONTROL_SEQS 1599.7682
BC011310_CONTROL_SEQS 480.8618
BC012966_CONTROL_SEQS 5452.4909
BC016421_CONTROL_SEQS 56.3627
BC023729_CONTROL_SEQS 1226.4145
BC023796_CONTROL_SEQS 7097.5337
BC025073_CONTROL_SEQS 511.6959
BC028816_CONTROL_SEQS 21967.2134

Total number of rows: 17664

Table truncated, full table size 898 Kbytes.




Supplementary file Size Download File type/resource
GSM1100732_521989A11_custom_2012-04-04T154251_532.pair.gz 2.1 Mb (ftp)(http) PAIR
GSM1100732_521989A11_custom_532_RMA.calls.gz 252.7 Kb (ftp)(http) CALLS
Processed data included within Sample table
Processed data provided as supplementary file

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