|
| Status |
Public on Feb 07, 2018 |
| Title |
Hoxb5 |
| Sample type |
SRA |
| |
|
| Source name |
Pro-/Pre-B
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Bone marrow
antibody: M-280 Streptavidin
|
| Treatment protocol |
Target cells were sorted from the infected Pro-/preB cells.
|
| Growth protocol |
All mice in this study were kept in C57BL/6J backgroud. Pro-/pre B cells were sorted from Rosa26BirA/BirA transgenic mice transduced with virus over-expressing bio-tagged Hoxb5 gene (day 3).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Sonication and Chromatin Immunprecipitation (Chip) by dynabeads M-280 Streptavidin antibody (Thermo Fisher, catalog is 11205D,2 mL, lot:00381796), and genomic DNA was extracted by Phenol chloroform method.
Chipseq libraries were constructed using VAHTSTM Universal DNA library Prep Kit for illumina (ND604) and libraries sequence procedure performed on HiSeq X Ten system.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
Hoxb5 antibody enriched DNA (Chip DNA)
|
| Data processing |
Chipseq fastq files were aligned to mm10 genome by bowtie2.
The generated bam files werer used as the input files for Homer packages. Finding Hoxb5 binding peaks and annotation information procedure was according to the Homer user manual with default parameters for transcription factor. Bigwig (.bw) files were generated by homer software packages.
Genome_build: mm10
Supplementary_files_format_and_content: bw
|
| |
|
| Submission date |
Nov 20, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yong Dong |
| E-mail(s) |
dongyong@cmc.edu.cn
|
| Organization name |
Chengdu medical college
|
| Department |
Immunology
|
| Street address |
Xindu road 783, Xindu district
|
| City |
chengdu |
| State/province |
sichuan |
| ZIP/Postal code |
610500 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (2) |
| GSE105007 |
Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes [ChIP-Seq] |
| GSE105057 |
Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes |
|
| Relations |
| BioSample |
SAMN08045518 |
| SRA |
SRX3410337 |
