|
| Status |
Public on Feb 27, 2024 |
| Title |
Histone ChIP-seq from BLaER1 (ENCLB655AKK) |
| Sample type |
SRA |
| |
|
| Source name |
Homo sapiens BLaER1 cell line 48 hours after the sample was treated with 100 nM 17beta-estradiol, 10 ng/mL Interleukin-3, 10 ng/mL CSF1
|
| Organism |
Homo sapiens |
| Characteristics |
antibody: H4K20me1
line: BLaER1
biomaterial_type: cell line
biosample encode accession: ENCBS766HUL (SAMN40088282)
collection date: not applicable
geographic location: not applicable
encode accession: ENCBS766HUL
Sex: female
dev stage: unknown
age: unknown
donor_id: ENCDO305PTK
lab: Roderic Guigo, CRG
source: Thomas Graf
treatments: treatment_term_id: CHEBI:16469; treatment_term_name: 17beta-estradiol; treatment_type: chemical; treatment_term_id: UniProtKB:P08700; treatment_term_name: Interleukin-3; treatment_type: protein; treatment_term_id: UniProtKB:P09603; treatment_term_name: CSF1; treatment_type: protein;
link: ENCBS766HUL at ENCODE; https://www.encodeproject.org/ENCBS766HUL/
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
general protocol: https://www.encodeproject.org/documents/74685878-ae42-4070-955a-b3faabf64d44/@@download/attachment/growth_and_transdifferentiation.pdf, general protocol: https://www.encodeproject.org/documents/a60eb23e-58cd-4b29-a925-cf0c3d7d2e42/@@download/attachment/chromatin_immunoprecipitation.pdf, pipeline protocol: https://www.encodeproject.org/documents/cbec7655-48a2-4166-af75-d71b44e00f46/@@download/attachment/ChIP-seq_data_processing.pdf
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
https://www.encodeproject.org/experiments/ENCSR660WMS/
***************
biological replicate number: 2
technical replicate number: 1
description: H4K20me1 ChIP-Seq on BLaER1 cell line after 48 h treatment with 100 nM 17β-estradiol, 10 ng/mL Interleukin-3, 10 ng/mL CSF1.
experiment encode accession: ENCSR660WMS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR978XYH
encode release date: 2022-05-10
lab: Roderic Guigo, CRG
library encode accession: ENCLB655AKK
fragmentation methods: shearing (Covaris generic)
|
| Data processing |
See GSM*_README.txt supplementary file linked below
|
| |
|
| Submission date |
Feb 25, 2024 |
| Last update date |
Mar 13, 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 |
GPL11154 |
| Series (1) |
| GSE258773 |
Histone ChIP-seq from BLaER1 (ENCSR660WMS) |
|
| Relations |
| BioSample |
SAMN40088282 |
| Named Annotation |
GSM8110395_ENCFF113CEU_signal_p-value_GRCh38.bigWig |
| Named Annotation |
GSM8110395_ENCFF939REJ_signal_p-value_GRCh38.bigWig |
| Named Annotation |
GSM8110395_ENCFF727CYW_fold_change_over_control_GRCh38.bigWig |
| Named Annotation |
GSM8110395_ENCFF623FPH_fold_change_over_control_GRCh38.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8110395_ENCFF016FVN_pseudoreplicated_peaks_GRCh38.bed.gz |
899.6 Kb |
(ftp)(http) |
BED |
| GSM8110395_ENCFF113CEU_signal_p-value_GRCh38.bigWig |
1.2 Gb |
(ftp)(http) |
BIGWIG |
| GSM8110395_ENCFF404GPO_peaks_GRCh38.bed.gz |
2.4 Mb |
(ftp)(http) |
BED |
| GSM8110395_ENCFF580UID_peaks_GRCh38.bigBed |
4.5 Mb |
(ftp)(http) |
BIGBED |
| GSM8110395_ENCFF593BPF_pseudoreplicated_peaks_GRCh38.bigBed |
1.7 Mb |
(ftp)(http) |
BIGBED |
| GSM8110395_ENCFF623FPH_fold_change_over_control_GRCh38.bigWig |
943.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM8110395_ENCFF727CYW_fold_change_over_control_GRCh38.bigWig |
1.5 Gb |
(ftp)(http) |
BIGWIG |
| GSM8110395_ENCFF939REJ_signal_p-value_GRCh38.bigWig |
1.4 Gb |
(ftp)(http) |
BIGWIG |
| GSM8110395_ENCLB655AKK_README.txt.gz |
1.4 Kb |
(ftp)(http) |
TXT |
| Raw data are available in SRA |
