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Sample GSM1519718 Query DataSets for GSM1519718
Status Public on Feb 03, 2015
Title wild-type S phase (15 min)
Sample type SRA
 
Source name Genomic DNA from cells 65 minutes post-elutriation
Organism Schizosaccharomyces pombe
Characteristics strain: AMC501
relevant genotype: h- ura4-D18 leu1-32 ade6-704
growth protocol: Cells were synchronised in G2 by elutriation, concentrated into a volume of 200 mls, grown in fresh media at 27 °C and a sample taken after 65 min.
treatment protocol: None.
Extracted molecule genomic DNA
Extraction protocol Library preparation and sequencing was carried out according to Illumina instructions.
DNA was prepared using the QIAGEN 100/G Genomic-tip"
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina HiSeq 2000
 
Data processing Sequence reads were mapped to the S. pombe reference genome using stampy.
Sequence reads mapping to a single genomic location were summed in 1 kb bins. Windows where fewer than 250 reads were mapped in either sample were excluded.
Normalised copy numbers were generated by dividing the sequence read counts from the replicating sample by counts from the non-replicating 45 min post-elutriation.
The resulting absolute ratios reflect the read numbers; therefore data were normalized for read number and the fraction of bulk genome replication (determined by flow cytometry). This resulted in >95% of the data points lying between 1 and 2 (a biologically imposed restraint).
Genome_build: ASM294v2
Supplementary_files_format_and_content: Wig & bedgraph files containing analysed datasets.
 
Submission date Oct 06, 2014
Last update date May 15, 2019
Contact name Conrad A Nieduszynski
Organization name Earlham Institute
Lab DNA replication & genome stability
Street address Norwich Research Park
City Norwich
ZIP/Postal code NR4 7UZ
Country United Kingdom
 
Platform ID GPL13988
Series (1)
GSE62108 A global profile of replication polymerase usage
Relations
BioSample SAMN03098156
SRA SRX727123

Supplementary file Size Download File type/resource
GSM1519718_rep_timing_15min.wig.gz 54.0 Kb (ftp)(http) WIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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