|
| Status |
Public on Feb 27, 2024 |
| Title |
TF ChIP-seq from whole organism (ENCLB807FCF) |
| Sample type |
SRA |
| |
|
| Source name |
Caenorhabditis elegans strain RW12226 (st12226[pbrm-1::TY1::EGFP::3xFLAG] I) young adult (64.5 hours) at L1 larva starved after bleaching stage whole organism genetically modified (insertion) using CRISPR targeting C. elegans pbrm-1
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
antibody: pbrm-1
cell_type: whole organism
biomaterial_type: whole organisms
biosample encode accession: ENCBS597RGR (SAMN40085298)
collection date: not applicable
geographic location: not applicable
encode accession: ENCBS597RGR
Sex: not collected
dev stage: young adult
age: 64.5 hour
donor_id: ENCDO223KDW
lab: Valerie Reinke, Yale
source: Valerie Reinke
worm synchronization stage: L1 larva starved after bleaching
link: ENCBS597RGR at ENCODE; https://www.encodeproject.org/ENCBS597RGR/
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
general protocol: https://www.encodeproject.org/documents/d89f19f3-31f8-4079-9635-5d3dd799471e/@@download/attachment/Reinke_Lab_ModENCODE_ChIP_protocol_%28revised%205-24-13%29_4_mg.pdf
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
https://www.encodeproject.org/experiments/ENCSR111IAZ/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on transgenic worms expressing pbrm-1-eGFP fusion proteins. The IP was performed using an anti-GFP antibody.
experiment encode accession: ENCSR111IAZ
assay title: TF ChIP-seq
assembly: ce11
possible controls: ENCSR868TYN
encode release date: 2022-11-01
lab: Valerie Reinke, Yale
library encode accession: ENCLB807FCF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-800
|
| Data processing |
See GSM*_README.txt supplementary file linked below
|
| |
|
| Submission date |
Feb 24, 2024 |
| Last update date |
Feb 27, 2024 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
encode-help@lists.stanford.edu
|
| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL26672 |
| Series (1) |
| GSE256615 |
TF ChIP-seq from whole organism (ENCSR111IAZ) |
|
| Relations |
| BioSample |
SAMN40085298 |
