|
| Status |
Public on Jan 03, 2017 |
| Title |
H3K27m3 ChIP-seq for wild type flies |
| Sample type |
SRA |
| |
|
| Source name |
ovary
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: W1118
tissue: ovary
antibody: H3K27m3
|
| Treatment protocol |
Dissected ovaries (> 50 pairs) were homogenized in 1.5ml tubes .
|
| Growth protocol |
20 degrees C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Proteins were extracted using 300mM KCl buffer D. Equal amounts of ovarian extract were incubated with antibodies for 2 hours, followed by incubation with Protein A-conjugated Dynabeads (Invitrogen) for 2 hours. Beads were then washed with 0.05% T/PBS, and immunoprecipitates eluted by 2X loading buffer.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
ChIP-seq
|
| Data processing |
All the collected sequences from HiSeq2000 are mapped back to Drosophila melanogaster, which is dm3 from USCS genome browser. Up to 3 mismatches are allowed during the mapping process. The sequences that are mappable are subject to the MACS peak calling. Peaks with p-value less than 10-4 are retained for analysis.
Genome_build: dm3
Supplementary_files_format_and_content: text format, in which sequences that were mapped to genome are listed , together with their count number.
|
| |
|
| Submission date |
Aug 15, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Na Liu |
| E-mail(s) |
[email protected]
|
| Organization name |
Yale University
|
| Street address |
10 Amistad st
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06519 |
| Country |
USA |
| |
|
| Platform ID |
GPL13304 |
| Series (1) |
| GSE40150 |
Piwi negatively regulates Polycomb Group proteins in maintaining germline stem cells and oogenesis |
|
| Relations |
| SRA |
SRX177656 |
| BioSample |
SAMN01120149 |
