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Sample GSM1665896 Query DataSets for GSM1665896
Status Public on Apr 24, 2015
Title P19 exp2 day 4
Sample type SRA
 
Source name P19 cells; ACC316 (DMSZ)
Organism Mus musculus
Characteristics differentiation stage: embryoid bodies (day 4)
Treatment protocol retinoic acid induction; 1µM
Growth protocol AlphaMEM-supplemented with L-glutamine and 10% FBS
Extracted molecule total RNA
Extraction protocol TRIZOL
Ribodepletion followed by default Illumina RNA-Seq for HiSeq2000 (TruSeq)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description embryoid bodies (day 4)
genome build: mm9
Data processing Illumina base calling, demultiplexing, and FASTQ conversion with CASAVA-1.8.2
alignment genome reference using bowtie2
20nt anchors from both ends of unaligned reads aligned to genome independently
aligned anchors were extended to find circRNA head-to-tail splice sites (see Suppl. Methods)
Supplementary_files_format_and_content: bed file; circRNA head-to-tail splice sites with number of supporting reads in the score column
 
Submission date Apr 23, 2015
Last update date May 15, 2019
Contact name Petar Glazar
Organization name Max Delbrück Center for Molecular Medicine
Department Systems Biology of Gene Regulatory Elements
Lab Rajewsky lab
Street address Robert Rössle Str. 10 (H. 87)
City Berlin
ZIP/Postal code 13092
Country Germany
 
Platform ID GPL13112
Series (1)
GSE65926 Circular RNAs in the mammalian brain are highly abundant, conserved, and dynamically expressed
Relations
BioSample SAMN03566470
SRA SRX1007584

Supplementary file Size Download File type/resource
GSM1665896_P19_exp2_Day_4_circRNAs.bed.gz 15.1 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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