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Sample GSM850914 Query DataSets for GSM850914
Status Public on Jul 01, 2012
Title RenLab-RNA-Seq-thymus
Sample type SRA
Source name mouse thymus
Organism Mus musculus
Characteristics strain: C57Bl/6
Treatment protocol None
Growth protocol Adult intestine, olfactory bulb, testis, and thymus were dissected from 8-week old male C57Bl/6 mice (Charles River). Placenta was extracted from C57Bl/6 pregnant mice. E14.5 brain, heart, limb and liver were derived from E14.5 C57Bl/6 mouse embryos.
Extracted molecule polyA RNA
Extraction protocol RNA samples from tissues and primary cells were extracted from Trizol according to protocol (Invitrogen). polyA+RNA was purified with the Dynabeads mRNA purification kit (Invitrogen). The mRNA libraries were prepared for strand-specific sequencing as described previously in Parkhomchuk, D. et al. (2009).
Library strategy RNA-Seq
Library source transcriptomic
Library selection other
Instrument model Illumina HiSeq 2000
Data processing fastq: Illumina's HiSeq Control Software
bam and bigWig: Alignment to mm9 using TopHat with default parameters.
Submission date Dec 19, 2011
Last update date May 15, 2019
Contact name Bing Ren
Organization name University of California, San Diego
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
Platform ID GPL13112
Series (2)
GSE29184 A draft map of cis-regulatory sequences in the mouse genome
GSE29278 A draft map of cis-regulatory sequences in the mouse genome [RNA-Seq]
SRA SRX113077
BioSample SAMN00768235
Named Annotation GSM850914_thymus-1.bigwig
Named Annotation GSM850914_thymus-2.bigwig

Supplementary file Size Download File type/resource
GSM850914_thymus-1.bigwig 34.2 Mb (ftp)(http) BIGWIG
GSM850914_thymus-2.bigwig 32.1 Mb (ftp)(http) BIGWIG
GSM850914_thymus1.bam 334.5 Mb (ftp)(http) BAM
GSM850914_thymus2.bam 304.3 Mb (ftp)(http) BAM
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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