|
| Status |
Public on Apr 20, 2023 |
| Title |
N_to_S_1 |
| Sample type |
SRA |
| |
|
| Source name |
budding yeast culture at OD=4
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype: MATa his3[delta]0 leu2[delta]0 met15[delta]0 ura3[delta]0 Msn2 :: Msn2(N_to_S)-Mnase (kanMX)
|
| Treatment protocol |
ChEC-Seq protocol as described in Zentner et al. 2015
|
| Growth protocol |
Overnight cultures from fresh colonies were diluted (>1:10000) and grown to OD4 in SC medium with glucose
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Phenol chlorofrom extraction
One tube library construction based on Skeene et al. 2017 as described in Gera 2021
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
demultiplexing with bcl2fastq
filtering of adapter dimers using cutadapt
paired end alignment to S288C_R64 with bowtie2 (-p8 --local --very-sensitive --trim-to 30 --dovetail)
genome coverage with bedtools (-5 -fs 1 -d)
Assembly: GCA_000146045.2 (R64)
Supplementary files format and content: *.out.gz file contains zipped genome coverage for all 12,157,105 bases in the S. cerevisiae genome (Chr 1-16+mitochondria)
Library strategy: ChEC-seq
|
| |
|
| Submission date |
Aug 31, 2022 |
| Last update date |
Apr 20, 2023 |
| Contact name |
Naama Barkai |
| Organization name |
Weizmann Institute
|
| Department |
Molecular Genetics
|
| Lab |
Barkai Lab
|
| Street address |
Herzl St 234
|
| City |
Rehovot |
| State/province |
--- Select a state --- |
| ZIP/Postal code |
7610001 |
| Country |
Israel |
| |
|
| Platform ID |
GPL27812 |
| Series (1) |
| GSE212466 |
The molecular grammar of protein disorder guiding genomic binding specificity |
|
| Relations |
| BioSample |
SAMN30631766 |
| SRA |
SRX17395176 |
