|
| Status |
Public on Oct 26, 2020 |
| Title |
BG350_Runx1_Hoxb8FL |
| Sample type |
SRA |
| |
|
| Source name |
Hoxb8-FL cell line
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
cell type: early hematopoietic progenitor cells
genotype: Cas9 expressing, Hoxb8 expressing
treatment: Not treated
day: NA
antibody: Runx1
|
| Treatment protocol |
No treatment
|
| Growth protocol |
Hoxb8-FL cells were grown in: DMEM with 10% FCS, 5% Flt3L-conditioned medium, 50 uM 2-Mercaptoethanol, 1% Penicillin + Streptomycin, 1% Glutamine solution, 1 uM β-Estradiol, unless otherwise indicated
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were fixed in 1% formaldehyde, isolated chromatin was fragment and immunoprecipitated using the indicated antisera.
ChIP followed by Illumina TruSeq library generation. Please see the accompanying publication for a detailed protocol.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
ChIP-Seq from Hoxb8-FL cells grown under self-renewal conditions
|
| Data processing |
Reads aligned to mm10 using Bowtie2.
bedGraphs created using bedtools.
bigWigs created using UCSC utilities.
Peaks called using MACS2.
Genome_build: mm10
Supplementary_files_format_and_content:bigWig: density profile of mapped reads; bed: peaks
|
| |
|
| Submission date |
Feb 28, 2020 |
| Last update date |
Oct 26, 2020 |
| Contact name |
Bertie Gottgens |
| E-mail(s) |
bg200@cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Street address |
Jeffrey Cheah Biomedical Centre
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 0AW |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE146128 |
Functional Dissection of Transcription Factor Networks Governing Haematopoietic Progenitor States |
|
| Relations |
| BioSample |
SAMN14248033 |
| SRA |
SRX7821112 |
