|
| Status |
Public on Nov 07, 2013 |
| Title |
wt_25min |
| Sample type |
SRA |
| |
|
| Source name |
Genomic DNA from S phase cells
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: RM14-3a
relevant genotype: MATa; cdc7-1; ura3-52; his6; trp1-289; leu2-2,112; bar1
growth protocol: Cells were released from a cdc7 arrest in rich media and a sample taken after 25 min.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was purified by phenol chloroform extraction.
Library preparation and sequencing was carried out according to SOLiD instructions.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
AB 5500 Genetic Analyzer |
| |
|
| Data processing |
Sequence reads were mapped to the S. cerevisiae reference genome.
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 cdc7 arrested) sample for each strain.
The resulting absolute ratios reflect the read numbers; therefore data was normalized to the read number in the two samples to give a genome-wide average of 1.
Finally the ratios were normalised to the FACS data to correct for the proportion of the was through S phase.
Genome_build: sacCer1
Supplementary_files_format_and_content: Wig file containing normalised replication profile.
|
| |
|
| Submission date |
Jul 05, 2013 |
| 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 |
GPL16234 |
| Series (1) |
| GSE48561 |
High-resolution genome replication profiles, modeling and single-cell imaging define the stochastic nature of replication initiation and termination |
|
| Relations |
| BioSample |
SAMN02226255 |
| SRA |
SRX318215 |
