|
Status |
Public on Dec 01, 2012 |
Title |
nrpe1 H3 rep 1 |
Sample type |
SRA |
|
|
Source name |
2-3 week seedlings
|
Organism |
Arabidopsis thaliana |
Characteristics |
strain: nrpe1 antibody: H3 vendor/catalog#: abcam ab1791
|
Growth protocol |
Strains were grown under long day conditions for 2-3 weeks.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
H3 bound DNA was immunoprecipitated using abcam ab1791 antibody.
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
H3 ChIP-seq
|
Data processing |
Image analysis and base calling were performed using standard illumina pipelines. ChIP-Seq reads were aligned to the TAIR10 genome via the Bowtie software. Reads were overlapped with nucleosomes called in Mnase-seq. Differential nucleosomes were kept with a poisson score less than 0.05. Genome_build: TAIR10 Supplementary_files_format_and_content: peak file with nucleosomes occuring in Col-0 or nrpe1
|
|
|
Submission date |
Sep 25, 2012 |
Last update date |
May 15, 2019 |
Contact name |
M Jordan Rowley |
E-mail(s) |
jordan.rowley@unmc.edu, jordrow@gmail.com
|
Phone |
7343580454
|
Organization name |
Univ of Nebraska Medical Center
|
Department |
GCBA
|
Lab |
Rowley
|
Street address |
601 S Saddle Creek Rd
|
City |
Omaha |
State/province |
NE |
ZIP/Postal code |
68106 |
Country |
USA |
|
|
Platform ID |
GPL13222 |
Series (2) |
GSE38464 |
Nucleosome remodeling by the SWI/SNF complex in non-coding RNA-mediated transcriptional gene silencing |
GSE41143 |
Nucleosome remodeling by the SWI/SNF complex in non-coding RNA-mediated transcriptional gene silencing (ChIP-seq) |
|
Relations |
SRA |
SRX189363 |
BioSample |
SAMN01730072 |