|
| Status |
Public on Sep 08, 2020 |
| Title |
11-wt-k36me2-2 |
| Sample type |
SRA |
| |
|
| Source name |
CD8+ splenic T cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: CD8+ splenic T cells
genotype: WT
chip antibody: H3K36me2 (Millipore; Cat# 07-024; RRID: AB_310484)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
CD8+ splenic T cells from wildtype and cTKO animals were isolated by flow cytometry, and ChIP-seq using anti-H3K27me3 and anti-H3K36me2 antibodies was performed
see https://doi.org/10.1038/ncomms7033
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Sequencing and base calling was performed by GeneWiz (https://www.genewiz.com/)
ChIP-seq reads were aligned to the mm10 genome assembly using bowtie2 with default parameters
THOR from the Regulatory Genomics Toolbox ( https://www.regulatory-genomics.org/thor-2) was used to generate postprocessed ChIP-seq signal (in bigWig format) , after normalization to housekeeping genes.
Genome_build: mm10 (GENCODE Release M20 (GRCm38.p6))
Supplementary_files_format_and_content: bigWig: postprocessed ChIP-seq signal from THOR pipeline; bed: bed files with coordinates of control regions used for normalization.
|
| |
|
| Submission date |
Nov 29, 2019 |
| Last update date |
Sep 09, 2020 |
| Contact name |
Boris Bartholdy |
| Organization name |
Albert Einstein College of Medicine
|
| Department |
Cell Biology
|
| Street address |
1300 Morris Park Ave
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE141185 |
H1 linker histones regulate the balance of repressive and active chromatin domains via localized genomic compaction [ChIP-seq] |
| GSE141187 |
H1 linker histones regulate the balance of repressive and active chromatin domains via localized genomic compaction |
|
| Relations |
| BioSample |
SAMN13429278 |
| SRA |
SRX7241837 |
