|
| Status |
Public on Oct 15, 2009 |
| Title |
BY 15uL Mnase |
| Sample type |
SRA |
| |
|
| Source name |
Over digested Mnase-seq genomic DNA (~100% mononucleosomes)
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: BY4741
|
| Treatment protocol |
Yeast culture, fixation, and MNase titrations were carried out as previously described (Yuan et al. 2005)
|
| Growth protocol |
For rpb1-1 temperature shifts, cells were grown to an OD of 0.6 in YPD at 25 C, then culture aliquots were immediately shifted to 37 C by addition of an equal volume of YPD at 49 C.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
After recovery of digested DNA, mononucleosomes were gel-purified and subjected to Solexa sequencing as described in Shivwaswamy et al
|
| |
|
| Library strategy |
MNase-Seq |
| Library source |
genomic |
| Library selection |
MNase |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
Over digested Mnase-seq genomic DNA (~100% mononucleosomes)
|
| Data processing |
Mapped Reads: Unique reads mapped to the yeast genome with minimal errors (as described in Yassour et al. PNAS, 2008)
|
| |
|
| Submission date |
Oct 13, 2009 |
| Last update date |
May 15, 2019 |
| Contact name |
Assaf Weiner |
| E-mail(s) |
assafwe@cs.huji.ac.il
|
| Organization name |
The Hebrew University of Jerusalem
|
| Department |
Computer Science
|
| Street address |
Givat Ram
|
| City |
Jerusalem |
| ZIP/Postal code |
91904 |
| Country |
Israel |
| |
|
| Platform ID |
GPL9134 |
| Series (1) |
| GSE18530 |
High-Resolution Nucleosome Mapping Reveals Transcription-Dependent Promoter Packaging |
|
| Relations |
| SRA |
SRX015105 |
| BioSample |
SAMN00007189 |
