|
| Status |
Public on Feb 27, 2024 |
| Title |
Control ChIP-seq from SK-N-SH (ENCLB527GNI) |
| Sample type |
SRA |
| |
|
| Source name |
Homo sapiens SK-N-SH cell line genetically modified (insertion) using CRISPR targeting H. sapiens OSR1 treated with 6 uM all-trans-retinoic acid for 48 hours
|
| Organism |
Homo sapiens |
| Characteristics |
line: SK-N-SH
biomaterial_type: cell line
biosample encode accession: ENCBS120KUK (SAMN40088243)
collection date: not applicable
geographic location: not applicable
encode accession: ENCBS120KUK
Sex: female
health state: Metastatic neuroblastoma from bone marrow
dev stage: child
age: 4 year
donor_id: ENCDO000ABD
lab: Michael Snyder, Stanford
source: ATCC
treatments: treatment_term_id: CHEBI:15367; treatment_term_name: all-trans-retinoic acid; treatment_type: chemical; duration: 48; duration_units: hour;
link: ENCBS120KUK at ENCODE; https://www.encodeproject.org/ENCBS120KUK/
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
general protocol: https://www.encodeproject.org/documents/716003cd-3ce7-41ce-b1e3-6f203b6632a0/@@download/attachment/ENCODE4%20_Snyder_ChIP-seq_BiorupterTruSeqProtocol_v1.pdf
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
https://www.encodeproject.org/experiments/ENCSR017UWW/
***************
biological replicate number: 1
technical replicate number: 1
description: ChIP-seq on human SK-N-SH
experiment encode accession: ENCSR017UWW
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-08-17
lab: Michael Snyder, Stanford
library encode accession: ENCLB527GNI
fragmentation methods: sonication (Bioruptor Pico)
size range: 250-450
|
| 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 |
GPL24676 |
| Series (1) |
| GSE256707 |
Control ChIP-seq from SK-N-SH (ENCSR017UWW) |
|
| Relations |
| BioSample |
SAMN40088243 |
