|
| Status |
Public on Mar 10, 2014 |
| Title |
Brachyury ChIPSeq antibody #2 |
| Sample type |
SRA |
| |
|
| Source name |
ES cell derived Mesoendoderm Cells
|
| Organism |
Mus musculus |
| Characteristics |
mouse strain of origin: (C3H/HeH x 101/H)F1
cell line: D3
antibody: Anti-Brachyury antibody Rabbit #2, Custom-made, rabbits were immunized with Brachyury residues 249-436 GST fusion protein
|
| Treatment protocol |
Activin A dependent Serum free in vitro differentiation of ES cells was performed to derive mesoendoderm cells.
|
| Growth protocol |
Regular mouse ES cell culturing protocol
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody
Libraries were prepared using Illumina ChIP-seq sample preparation kit
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
ChIP-seq enriched genomic DNA
|
| Data processing |
Reads Mapping: Bowtie
ChIP-seq Peak calling: MACS2
Detection of common bound regions detected by both antibodies: Customized
Genome_build: mm9
Supplementary_files_format_and_content: Bed files containing ChIP-seq regions detected by both antibodies
|
| |
|
| Submission date |
Feb 13, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Zhe Liu |
| E-mail(s) |
liuz11@janelia.hhmi.org
|
| Organization name |
Howard Hughes Medical Institute
|
| Department |
Janelia Farm Research Campus
|
| Lab |
Liu
|
| Street address |
19700 Helix Dr.
|
| City |
Ashburn |
| State/province |
Virginia |
| ZIP/Postal code |
20147 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (2) |
| GSE54978 |
Map Brachyury-bound enhancers by ChIP-seq |
| GSE54985 |
Charting Brachyury-mediated Developmental Pathways During Early Mouse Embryogenesis |
|
| Relations |
| BioSample |
SAMN02641376 |
| SRA |
SRX470250 |
