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Sample GSM2125967 Query DataSets for GSM2125967
Status Public on Oct 28, 2016
Title Ssb2 ChIP-exo, Rnh1 overexp., Induced, Rep2
Sample type SRA
 
Source name Yeast DNA
Organism Schizosaccharomyces pombe
Characteristics strain: DSB-PpoI system, pNmt1::Rnh1
ppoi induction: ON
antibody: a-Flag
protein tag: Flag tag
beads: a-Flag
Treatment protocol For treatment protocol please refer to the Materials and Methods.
Growth protocol Cultures were grown in full media (YEA) at 30ÂșC to O.D. of 0.8.
Extracted molecule genomic DNA
Extraction protocol For extraction and library preparation protocol please refer to the Materials and Methods. (ChIP-exo)
For extraction and library preparation protocol please refer to the Materials and Methods. (ChIP-exo)
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina HiSeq 2000
 
Data processing Demultiplexing and removal of adapter conatmination was done in one step.
Reads were mapped to modified S. pombe genome, with Bowtie2 software. (v2.2.5)
PCR duplicates were filtered out and genome-wide coverage was calculated using R Bioconductor packages.
Datasets were normalised for coverage over Chr I.
Genome_build: ASM294v2.29 with insertion at position 1231078. Insert length is 1842 bases. Insert sequence (txt file), modified genome (fasta format) and modified annotations (bedfile) are included in the upload.
Supplementary_files_format_and_content: BigWig format containing normalised genome-wide coverage for forward (.fw) and for reverse (.rev) strands separately
 
Submission date Apr 18, 2016
Last update date May 15, 2019
Contact name Tamas Fischer
E-mail(s) tamas.fischer@bzh.uni-heidelberg.de
Phone +49 6221 544728
Organization name Biochemie Zentrum Heidelebrg
Department BZH
Lab AG Fischer
Street address Im Neuenheimer Feld 328
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL13988
Series (2)
GSE80398 Transient RNA-DNA Hybrids Are Required for Efficient Double-Strand Break Repair
GSE84883 Transient RNA-DNA Hybrids Are Required for Efficient Double-Strand Break Repair
Relations
BioSample SAMN04867748
SRA SRX1711762

Supplementary file Size Download File type/resource
GSM2125967_ChEx.059.Ssb2-Flag.Pnmt1-Rnh1.t4h.fw.bw 87.9 Mb (ftp)(http) BW
GSM2125967_ChEx.059.Ssb2-Flag.Pnmt1-Rnh1.t4h.rev.bw 87.9 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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