|
| Status |
Public on Jan 05, 2015 |
| Title |
H2A.Z_ChIPSeq_WT_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Saccharomyces cerevisiae grown in SD medium
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: MATalpha can1-delta::STE2pr-SP_his5 lyp1-delta his3-delta-1 ura3-delta-0 met15-delta-0 HTZ1-HpH
chip antibody: anti-Htz1
|
| Treatment protocol |
None
|
| Growth protocol |
Yeast cells were grown in SD medium to mid-log phase before harvesting for ChIP or RNA extraction.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cultures were crosslinked with 1% (v/v) formaldehyde, quenched with glycine, and cells were lysed with beads in a FastPrep-24 (MP Biomedicals) cell homogeniser. Sonicated, clarified extracts were immunoprecipitated with anti-Htz1 antibodies before washing and DNA extraction, or were used directly to prepare input DNA. Illumina TruSeq ChIP Sample Prep Kit were used for library preparation.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Htz1 ChIP-seq of wild type S.cerevisiae, replicate 2
|
| Data processing |
Sequence reads were mapped to the S. cerevisiae genome assembly sacCer1 using Bowtie version 0.12.9, allowing up to 2 mismatches and no ambiguously mapped reads.Mapped reads were then converted to WIG files.
Genome_build: sacCer1
Supplementary_files_format_and_content: BedGraph (WIG)
|
| |
|
| Submission date |
Jan 15, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Muxin Gu |
| E-mail(s) |
muxingu@gmail.com, mg445@cam.ac.uk
|
| Phone |
01223767800
|
| Organization name |
University of Cambridge
|
| Department |
Haematology
|
| Lab |
George Vassiliou
|
| Street address |
Jeffrey Cheah Biomedical Centre, Puddicombe Way
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 0AW |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL13821 |
| Series (1) |
| GSE54105 |
H2A.Z marks antisense promoters and has positive effects on antisense transcript levels in budding yeast |
|
| Relations |
| BioSample |
SAMN02585014 |
| SRA |
SRX433135 |
