|
| Status |
Public on Feb 21, 2012 |
| Title |
WT_OF_sample |
| Sample type |
SRA |
| |
|
| Source name |
WT_OF
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: WT [yIW160]
cell cycle stage: Asynchronous culture
|
| Growth protocol |
Cells were grown at 30 degrees in YEP + 2% raffinose to O.D. 0.3, then shifted to 37 degrees after addition of galactose to 2% and doxycycline to 40ug/ml
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was purified and heat-denatured: DNA was bound to Source 15Q resin in batch at 300mM NaCl, pH12, and eluted in 50mM steps. Fractions from 800-900 mM were collected, neutralized and concentrated by precipitation. Double-stranded sequencing adaptors with N6 random overhangs ligated to each end; after second-strand synthesis using Taq, material from 200-1000bp was gel-purified and amplified by PCR. Products from 200-800 bp were gel-purified from two successive 2.5% agarose gels
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Columns in the bed file are as follows:
column 1: chromosome
column 2: range first bp
column 3: range last bp
column 4: length of fragment in bp
column 5: count of reads
column 6: strand
|
| Data processing |
Data were aligned to the May 2008 build of the S. cerevisiae genome: paired-end reads each beginning with a 20bp perfect match to a unique genomic locus and within 1kb of one another were considered.
|
| |
|
| Submission date |
Nov 17, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Iestyn Whitehouse |
| E-mail(s) |
whitehoi@mskcc.org
|
| Organization name |
Sloan-Kettering Institute
|
| Department |
Molecular Biology
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL13821 |
| Series (1) |
| GSE33786 |
Intrinsic Coupling of Lagging Strand Synthesis to Chromatin Assembly |
|
| Relations |
| Reanalyzed by |
GSM999266 |
| SRA |
SRX105997 |
| BioSample |
SAMN00759070 |
