NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1134006 Query DataSets for GSM1134006
Status Public on Nov 13, 2013
Title brain-microglia-S10-1119010 (Aroma)
Sample type RNA
 
Source name brain-microglia
Organism Mus musculus
Characteristics tissue: brain
cell type: microglia
strain: C57BL/6
age: 6 weeks
gender: Male
Treatment protocol Tissue was dissociated, enriched by Percoll gradient, and cells were flow sorted.
Growth protocol not applicable
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from snap-frozen sorted cell pellets using TRIzol-chloroform extraction, resuspended in 10┬Ál Ambion Nuclease-free water (Life Technologies).
Label biotin
Label protocol Biotinylated cDNA were prepared according to the standard NuGen WT-Ovation Pico RNA Amplification system from 500pg-50 ng total RNA
 
Hybridization protocol Following fragmentation with NuGen Encore Biotin Module,5.0 ug of cDNA were hybridized into the GeneChip Hybridization Oven 640 for 18 hr at 45C on Exon 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip 7G 3000 Scanner
Description brain microglia biological replicate 3
S10
Data processing Data processed with RMA and quantile normalized using BioC aroma.affymetrix.
We used the Partek workflow as well as Aroma to analyze the Affymetrix Mouse Exon 1.0ST array to generate the DE gene list.
probe group file: MoEx-1_0-st-v1.r2.pgf
 
Submission date May 07, 2013
Last update date Nov 14, 2013
Contact name Winnie W Pong
Organization name Washington University School of Medicine
Department Department of Neurology
Lab David H Gutmann Laboratory
Street address 660 S. Euclid Avenue
City St Louis
State/province MO
ZIP/Postal code 63110
Country USA
 
Platform ID GPL6193
Series (2)
GSE46686 F11R is a novel monocyte prognostic biomarker for malignant glioma [Affymetrix]
GSE46690 F11R is a novel monocyte prognostic biomarker for malignant glioma
Relations
Alternative to GSM1134012 (gene-level analysis)

Data table header descriptions
ID_REF
VALUE Quantile normalized RMA signal estimates from Aroma

Data table
ID_REF VALUE
4534760 214.468338
4348065 10.38333607
4324509 34.86724091
4693172 29.34572792
4385736 15.51716518
4349384 23.24131012
4323614 205.9765778
4379186 32.7750206
4468466 1135.966309
4439838 224.2796478
4432757 560.6156006
4325964 34.15457916
4373064 34.05284119
4319591 79.42995453
4456357 32.10261536
5049146 65.53130341
4440162 91.41029358
4360521 363.611145
4378287 304.4732361
4342474 27.75943756

Total number of rows: 21837

Table truncated, full table size 424 Kbytes.




Supplementary file Size Download File type/resource
GSM1134006_19902.CEL.gz 21.9 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap