|
| Status |
Public on Feb 03, 2015 |
| Title |
wild-type S phase (5 min) |
| Sample type |
SRA |
| |
|
| Source name |
Genomic DNA from cells 55 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 55 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 |
SAMN03098155 |
| SRA |
SRX727122 |
