|
| Status |
Public on May 29, 2017 |
| Title |
Wild-type ChIP-Seq |
| Sample type |
SRA |
| |
|
| Source name |
HeLa cells
|
| Organism |
Homo sapiens |
| Characteristics |
genotype: Wild-type
cell line: HeLa
|
| Growth protocol |
RPMI 1640
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Formaldehye-crosslinked chromatin was sheared by sonication to an average size of ~300bp and then immunoprecipitated with anti-H3K9me3 antibody ab8898 (Abcam)
NEBNext ChIP-seq Library Prep Kit (NEB)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads trimmed of adaptor sequences using Trim Galore
Aligned to the reference human genome using Bowtie2
Uniquely mapping reads imported into SeqMonk
H3K9me3 scores generated for a series of 1kb windows across the genome, discounting windows with low H3K9me3 levels (<40 reads in wild-type cells)
Genome_build: GRCh37
Supplementary_files_format_and_content: H3K9me3 scores for 1kb windows across the genome
|
| |
|
| Submission date |
Feb 27, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Iva Tchasovnikarova |
| E-mail(s) |
it257@cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Department |
The Gurdon Institute
|
| Lab |
Tchasovnikarova Lab
|
| Street address |
Tennis Court Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE95456 |
Assessing the impact of loss of MORC2 and SETDB1 on the global distribution of H3K9me3 |
| GSE95480 |
Hyper-activation of HUSH complex function by Charcot-Marie-Tooth disease mutation in MORC2 |
|
| Relations |
| BioSample |
SAMN06468404 |
| SRA |
SRX2598534 |
