|
Status |
Public on Mar 08, 2017 |
Title |
I1_HFF_ATAC |
Sample type |
SRA |
|
|
Source name |
HFF_infected
|
Organism |
Homo sapiens |
Characteristics |
cell type: hff infection status: T. gondii infected
|
Treatment protocol |
Cells were infected with T. gondii and harvested 24 hours after the infection for DNA extraction.
|
Growth protocol |
HFFs were grown to confluency prior to infection using DMEM supplemented with 10% FBS, 1% penicilin streptomycin and 1% L-glutamine.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Each sample was prepared as previously described in Buenrostro J.D. Nature Methods 2013 Each sample was prepared as previously described in Buenrostro J.D. Nature Methods 2013
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
Transposase accessible chromatin
|
Data processing |
Library strategy: ATAC-seq The fastq files were aligned using bwa-mem Genome_build: hg19-TgME49v9.0 Supplementary_files_format_and_content: A bed file of peaks for each sample. See Supplemental materials from publication for more details.
|
|
|
Submission date |
Mar 25, 2016 |
Last update date |
May 15, 2019 |
Contact name |
John Greally |
E-mail(s) |
john.greally@einsteinmed.edu
|
Phone |
7186781234
|
Organization name |
Albert Einstein College of Medicine
|
Department |
Genetics
|
Street address |
1301 Morris Park Avenue
|
City |
Bronx |
State/province |
NY |
ZIP/Postal code |
10461 |
Country |
USA |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE79609 |
Toxoplasma gondii remodels the cis-regulatory landscape of infected human host cells [ATAC-seq] |
GSE79612 |
Toxoplasma gondii remodels the cis-regulatory landscape of infected human host cells |
|
Relations |
BioSample |
SAMN04580026 |
SRA |
SRX1662131 |