|
| Status |
Public on Jan 13, 2022 |
| Title |
NF2-H3K4me3_ChIPseq |
| Sample type |
SRA |
| |
|
| Source name |
Left ventricle tissues
|
| Organism |
Homo sapiens |
| Characteristics |
protocol: Non-failing
antibody: H3K4me3
Sex: male
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Ninety mg of the left ventricle (LV) tissues were used for each ChIP-seq experiment. Lysates were clarifeid from sonicated nuclei and histone-DNA complexs were isoalted with antibodies
Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
NF_H3K4me3_commonPeak.bed
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence,then aligned to the human reference genome (hg19) using Bowtie2 (Galaxy version 2.3.4.2) with the default setting
Model-based analysis of ChIP-seq (MACS, Galaxy version 2.1.2 ) was used for peak calling (nomodel; extension size: 200; FDR [q-value] cutoff: 0.05)
Genome_build: hg19
Supplementary_files_format_and_content: commonPeaks.bed
|
| |
|
| Submission date |
Aug 19, 2019 |
| Last update date |
Jan 13, 2022 |
| Contact name |
Chia-Feng Liu |
| E-mail(s) |
liuc2@ccf.org
|
| Organization name |
Cleveland Clinic Lerner Research Institute
|
| Department |
Cardiovascular & Metabolic Sciences
|
| Lab |
NE3-216
|
| Street address |
9500 Euclid Avenue,
|
| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44195 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (2) |
| GSE135953 |
Genome-wide chromatin state in non-failing and dilated cardiomyaphty human left ventricles [ChIP-Seq] |
| GSE135956 |
Genome-wide chromatin state in non-failing and dilated cardiomyaphty human left ventricles |
|
| Relations |
| BioSample |
SAMN12599113 |
| SRA |
SRX6733701 |
