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Sample GSM1415460 Query DataSets for GSM1415460
Status Public on Jun 19, 2014
Title Aldh1l1-GFP positive cells, age E13.5 biological rep. 2
Sample type RNA
Source name Aldh1L1-GFP flow sorted spinal cord
Organism Mus musculus
Characteristics genetic background: Swiss-Webster
age: E13.5
cell type: Aldh1l1-GFP positive cells
Treatment protocol papain dissociated and flow sorted on a BD facs aria II to isolate astrocytes (aldh1l1-GFP positive) and non-astrocytes (Aldh1l1-GFP negative),
Growth protocol mouse spinal cords from Aldh1l1-GFP transgenic mice on a swiss-webster background, various ages
Extracted molecule total RNA
Extraction protocol RNA was trizol purified with glycogen as a carrier molecule, DNAse digested, and further purified on an RNAeasy mini column (Qiagen)
Label biotin
Label protocol purified RNA was amplified and biotin labeled (WT ovation, NuGen)
Hybridization protocol standard Affymetrix protocol
Scan protocol standard Affymetrix protocol
Data processing data preprocessed in R using Bioconductor suite- oligo package/RMA algorithm used to background correct, normalize, and summarize. Two types of analyses then performed: 1) Limma package/treat algorithm used to assess differential expression, 2) Gene coexpression modules determined as described in Molofsky et al, Glia (2013) 61:1518
Submission date Jun 18, 2014
Last update date Jun 19, 2014
Contact name David Rowitch
Organization name University of California-San Francisco
Department Institute for Regenerative Medicine
Lab Rowitch
Street address 35 Medical Center Way, RMB 932D
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
Platform ID GPL6246
Series (1)
GSE58614 Expression profiling of Aldh1l1-precursors in the developing spinal cord reveals glial lineage-specific genes and direct Sox9-Nfe2l1 interactions

Data table header descriptions
VALUE RMA signal estimates from Oligo Bioconductor software version 2.4

Data table
10338001 12.95783737
10338002 7.190941201
10338003 11.30659985
10338004 10.52282223
10338005 3.064522695
10338006 3.360901739
10338007 3.858809737
10338008 4.911651335
10338009 7.937259539
10338010 3.081447032
10338011 6.815417074
10338012 3.170438477
10338013 2.911449505
10338014 2.974959396
10338015 2.967720047
10338016 7.749481676
10338017 13.45974609
10338018 7.525575479
10338019 6.388840021
10338020 8.141254608

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.

Supplementary file Size Download File type/resource
GSM1415460_02.E13A-B.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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