|
| Status |
Public on Feb 15, 2018 |
| Title |
GFPRNAi_H3K9Me3ChIP3_filtered.fastq.gz |
| Sample type |
SRA |
| |
|
| Source name |
Drosophila S2 cells
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: embryonic
cell type: S2
antibody: H3K9Me3
treatment: GFPRNAi
|
| Treatment protocol |
5-day dsRNA treatment with DOTAP transfection reagent
|
| Growth protocol |
25ºC in Schneider medium + 10% FBS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
chromatin crosslinking with 1% paraformaldehyde for 10 minutes, shearing with Bioruptor sonicator (30 cycles), immunoprecipitation with anti-H3K9me3 or anti-H3K36me3 antibodies with Protein-A Dynabeads
standard Illumina TruSeq protocol
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Read filtering by FastX
Bowtie alignment to Release 5.22 Drosophila genome assembly
broadPeak calling by Macs2
Bowtie alignment to repetitive DNA library
Genome_build: Release 5.22 Drosophila genome assembly
Supplementary_files_format_and_content: Mean enrichment of H3K9me3 or H3K36me3 at various repetitive regions
|
| |
|
| Submission date |
May 17, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
serafin colmenares |
| E-mail(s) |
[email protected]
|
| Organization name |
lawrence berkeley national lab
|
| Street address |
1 cyclotron road MS977R180A
|
| City |
berkeley |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL13304 |
| Series (1) |
| GSE99027 |
ChIP-Seq of H3K9me3 and H3K36me3 after GFP or dKDM4A RNAi of S2 cells |
|
| Relations |
| BioSample |
SAMN07138528 |
| SRA |
SRX2832095 |
