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Sample GSM1286172 Query DataSets for GSM1286172
Status Public on Mar 22, 2018
Title d8 ctrl
Sample type SRA
 
Source name differentiating ES cells
Organism Mus musculus
Characteristics cell type: differentiating ES cells
strain: 129 x castaneus
developmental stage: day 8
Extracted molecule total RNA
Extraction protocol The NEBNext Small RNA Sample Prep Set 1 (Illumina Compatible) library construction protocol was followed (NEB #E6120S/L), along with the SMART kit and Nextera kit for Illumina sequencing for RNA-seq libraries.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Genome_build: mm9Reads were mapped using TopHat-2.0.8 against the mm9 version of the mouse genomes while supplying a gtf file containing the ENSEMBL annotation. Read-coverage tracks were generated using custom-written python scripts
Genome_build: mm9
 
Submission date Dec 10, 2013
Last update date May 15, 2019
Contact name Diane E Trout
Organization name California Institute of Technology
Department Biology
Lab Wold
Street address 1200 E California Blvd M/C 156-29
City Pasadena
State/province CA
ZIP/Postal code 91125
Country USA
 
Platform ID GPL13112
Series (1)
GSE39884 Small RNAs in undifferentiated and differentiating mouse embryonic stem cells
Relations
BioSample SAMN02469163
SRA SRX396272

Supplementary file Size Download File type/resource
GSM1286172_13693-D8-W-TopHat-2.0.8-ENSEMBL66.bigWig 54.5 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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