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Sample GSM1415465 Query DataSets for GSM1415465
Status Public on Jun 19, 2014
Title Aldh1l1-GFP positive cells, age E14.5 (mislabeled sample, exclude from analysis)
Sample type RNA
 
Source name ID unknown
Organism Mus musculus
Characteristics genetic background: Swiss-Webster
age: E14.5
cell type: ID unknown
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 13.15773464
10338002 6.974711418
10338003 11.48969359
10338004 10.61136279
10338005 3.069448595
10338006 3.30230379
10338007 3.690758378
10338008 4.732117514
10338009 7.776525333
10338010 3.090199425
10338011 6.562325659
10338012 3.136394765
10338013 2.951510939
10338014 2.992988377
10338015 2.960897248
10338016 7.560917791
10338017 13.60217067
10338018 7.264163975
10338019 6.110961022
10338020 7.97224525

Total number of rows: 35556

Table truncated, full table size 725 Kbytes.




Supplementary file Size Download File type/resource
GSM1415465_07.E14A-A.CEL.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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