|
| Status |
Public on Feb 18, 2010 |
| Title |
SEG40input |
| Sample type |
SRA |
| |
|
| Source name |
yeast cell
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
treatment: alpha factor
chip antibody: none
|
| Treatment protocol |
Incubation at 30C for 30 minutes in presence of 5uM alpha factor.
|
| Growth protocol |
Yeast cells were grown in 500ml YPAD medium to mid-log phase (O.D. = 0.6).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin immunoprecipitation was performed as in Aparicio et al., Curr Protoc Cell Biol (2004). Sequencing library was constructed as in Lefrancois et al., BMC Genomics (2009).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
SEG40input
|
| Data processing |
Sequence reads were parsed by barcodes, and mapped to the S. cerevisiae S288C (Oct 2003) genome using the Illumina Genome Analyzer Pipeline. Uniquely mapped reads with at most 2 mismatches are retained for downstream analysis.
Peaks: Peak detection was performed with the Model-based Analysis of ChIP-Seq (MACS) algorithm (http://liulab.dfci.harvard.edu/MACS/).
|
| |
|
| Submission date |
Feb 18, 2010 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Wei Zheng |
| E-mail(s) |
[email protected]
|
| Organization name |
Yale University
|
| Street address |
Suite 503, 300 George Street
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06510 |
| Country |
USA |
| |
|
| Platform ID |
GPL9134 |
| Series (2) |
| GSE19635 |
Genome-wide Ste12-binding site mapping in MATa segregants of YJM789 x S96 cross |
| GSE19636 |
Genetic Analysis of Variation in Transcription Factor Binding in Yeast |
|
| Relations |
| BioSample |
SAMN02196222 |
