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Sample GSM800367 Query DataSets for GSM800367
Status Public on Apr 15, 2012
Title trePABPN1.A17.2.12mth
Sample type SRA
Source name 3'-Seq in OPMD mouse model #2; age of 12 months
Organism Mus musculus
Characteristics strain: FvB
tissue: muscle
age: 12 months
Extracted molecule polyA RNA
Extraction protocol Total RNA was extracted from muscle tissue of either 20 weeks or 12 months old mice (either control mice or OPMD mice). mRNA was isolated, heat fragmented and the fragmented mRNA was then converted to single-stranded cDNA using SuperScript III reverse transcriptase and P7-t25-vn oligo-dT primer. This was followed by second-strand cDNA synthesis and end-repair using T4 DNA polymerase, Klenow DNA polymerase and T4 polynucleotide kinase. After purification, a P5-splinkerette was ligated and the splikerette-ligated cDNA was size-selected for approximately 220 bp long cDNA fragments using the E-Gel iBase Power System from Invitrogen. The final 3'Seq libraries were then generated by PCR amplification of the linker-ligated cDNA with P5 and P7 primers. After a last purification step the 3'Seq libraries were sequenced on the HiSeq systems. The 3 trePABPN1.A17 20-weeks old mice samples were indexed, pooled and sequenced together in one lane. Same is true for the 3 control 20-weeks old samples.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description 3'-Seq in OPMD mouse model #2; age of 12 months
Data processing Reads were aligned to the mouse genome (mm9) using bowtie.
Submission date Sep 22, 2011
Last update date May 15, 2019
Contact name Ran Elkon
Organization name Tel Aviv University
Department Human Genetics
Street address Ramat Aviv
City Tel Aviv
ZIP/Postal code 69494
Country Israel
Platform ID GPL13112
Series (2)
GSE32302 Genome-wide maps of polyadenylation sites in OPMD-model and control mice
GSE32303 PABPN1 role in regulation of alternative cleavage and polyadenylation
SRA SRX099201
BioSample SAMN00727934

Supplementary file Size Download File type/resource
GSM800367_A17.2.12mths.wig.gz 19.5 Mb (ftp)(http) WIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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