|
Status |
Public on Apr 20, 2023 |
Title |
rep2x3_A |
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(rep2x3)-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 |
SAMN30631720 |
SRA |
SRX17395250 |