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Sample GSM1415459 Query DataSets for GSM1415459
Status Public on Jun 19, 2014
Title Aldh1l1-GFP positive cells, age E13.5 biological rep. 1
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
MoGene-1_0-st-v1.r4.pgf
MoGene-1_0-st-v1.na30.mm9.probeset.csv
 
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
ID_REF
VALUE RMA signal estimates from Oligo Bioconductor software version 2.4

Data table
ID_REF VALUE
10338001 12.93271814
10338002 7.103746534
10338003 11.23602362
10338004 10.47002286
10338005 3.039085054
10338006 3.363289658
10338007 3.819811141
10338008 4.83383267
10338009 7.897825774
10338010 3.075671883
10338011 6.694859926
10338012 3.123727148
10338013 2.881745045
10338014 2.958568078
10338015 2.92246204
10338016 7.648731904
10338017 13.31297078
10338018 7.430451776
10338019 6.288779119
10338020 8.026368657

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.




Supplementary file Size Download File type/resource
GSM1415459_01.E13A-A.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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