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Sample GSM1856451 Query DataSets for GSM1856451
Status Public on Dec 07, 2015
Title RNAseq_serum_BR1
Sample type SRA
 
Source name Embryonic stem cells
Organism Mus musculus
Characteristics developmental stage: E14
chip antibody: none
Treatment protocol Serum mESCs were grown in DMEM containing 10% fetal calf serum in presence of LIF, together called Serum medium.
Growth protocol All cell-culture was conducted in feeder-free condition.
Extracted molecule total RNA
Extraction protocol Libraries were prepared according to Illumina's instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Illumina Casava software 1.8.2 used for basecalling of Hiseq2000 and NextSeq 500 data.
Library strategy: RNA-seq. MMSEQ package was used to infer gene expression levels. Reads were mapped to mouse gene annotation (Ensemble release 67).
Genome_build: mm9
 
Submission date Aug 18, 2015
Last update date May 15, 2019
Contact name Shuang-Yin Wang
Organization name RIMLS
Department Molecular Biology
Street address Geert Grooteplein 28
City Nijmegen
ZIP/Postal code 6525GA
Country Netherlands
 
Platform ID GPL13112
Series (1)
GSE72164 Dynamic reorganization of extremely long-range promoter-promoter interactions between two states of pluripotency
Relations
BioSample SAMN03998785
SRA SRX1158310

Supplementary file Size Download File type/resource
GSM1856451_5700.bw 56.6 Mb (ftp)(http) BW
GSM1856451_5700.gene.mmseq.txt.gz 1.6 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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