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Sample GSM647452 Query DataSets for GSM647452
Status Public on Jun 01, 2011
Title High Coverage 2
Sample type RNA
 
Source name RLM-RACE products reverse transcribed with olfactory receptor degenerate primers and amplified by PCR without nesting
Organism Mus musculus
Characteristics strain: C57/Bl6
age: 6-8 wk (adult)
tissue: olfactory epithelium
Extracted molecule total RNA
Extraction protocol For each sample, olfactory epithelia were dissected from five 6-8wk adult C57/Bl6 mice. RNA was extracted using Trizol and RLM-RACE performed using Invitrogen GeneRacer according to the manufacturers instructions with the exception that cDNA was reverse transcribed using degenerate primers against olfactory receptor coding sequences.
Label biotin
Label protocol 5-7ug of DNA was fragmented using UDG/APE and biotinylated using terminal transferase using Affymetrix fragmentation and labeleing kit
 
Hybridization protocol 5-7ug of DNA was hybridizing at the Stanford PAN facility according to standard Affymetrix protocols
Scan protocol Arrays were scanned at the Stanford PAN facility according to standard Affymetrix protocols
Description HighCoverage Hybridization 2
Data processing Data was normalized and analyzed with MAT; all coordinates are mm9/Mouse 2007. Files included here use window 50, maxgap 30, minProbes 5 and default p-value though various parameters were used in analysis. File 'GSE26373_olfrnamedproms.txt' contains final TSS calls for 1085 olfactory receptor genes in mm9 coordinates.
 
Submission date Dec 30, 2010
Last update date Jun 01, 2011
Contact name Eleanor Josephine Clowney
E-mail(s) eleanor.clowney@ucsf.edu
Organization name UCSF
Department Anatomy
Lab Lomvardas
Street address 1550 4th St
City San Francisco
State/province CA
ZIP/Postal code 94158
Country USA
 
Platform ID GPL11370
Series (1)
GSE26373 High-throughput mapping of he promoters of the mouse olfactory receptor genes reveals a new type of mammalian promoters

Supplementary file Size Download File type/resource
GSM647452_HighCoverage2.CEL.gz 7.6 Mb (ftp)(http) CEL
GSM647452_HighCoverage2.bed.gz 134.9 Kb (ftp)(http) BED
GSM647452_HighCoverage2.olfactome.bpmap_matscore.bar.gz 13.2 Mb (ftp)(http) BAR
GSM647452_HighCoverage2.olfactome.bpmap_matscore.bar.txt.gz 14.4 Mb (ftp)(http) TXT
Processed data provided as supplementary file
Processed data are available on Series record

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