|
| Status |
Public on May 18, 2022 |
| Title |
Zic3-ChIP-seq-Mesp1WT-24hnodox |
| Sample type |
SRA |
| |
|
| Source name |
Differentiating mouse embryonic pluripotent stem cells where forced expression of Mesp1 is dox-inducible
|
| Organism |
Mus musculus |
| Characteristics |
target-protein: Zic3
chip antibody: Rabbit anti-Zic3 (Cat: ab222124,Abcam, ChIP-grade)
time: 24hours_after_day2-5
condition: no_dox
cell type: Differentiating embryonic pluripotent stem cells
|
| Treatment protocol |
Doxycyclin was added to induce the expression of Mesp1
|
| Growth protocol |
Pluripotent stem cells were differentiated using published hanging drop protocols (1000 initial cells in serum-condtining medium)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
NEB Next Ultra II DNA library Prep Kit for Illumina
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Quality filtering using trimmomatic
Alignment using bowtie2
Quality filtering using samtools and picard tools
Peak calling using Macs2
Genome_build: mm10
Supplementary_files_format_and_content: bigwig file for each sample
|
| |
|
| Submission date |
Sep 10, 2021 |
| Last update date |
May 18, 2022 |
| Contact name |
Cedric Blanpain |
| E-mail(s) |
[email protected]
|
| Organization name |
Université Libre de Bruxelles (ULB)
|
| Lab |
Laboratory of Stem Cells and Cancer
|
| Street address |
Route de Lennik 808, Bat C, C6-126
|
| City |
Brussels |
| State/province |
anderlecht |
| ZIP/Postal code |
1070 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE165102 |
Unravelling the chromatin landscape and enhancer logic mediating spatiotemporal patterning of early cardiovascular progenitors [ChIP-seq] |
| GSE165107 |
Unravelling the chromatin landscape and enhancer logic mediating spatiotemporal patterning of early cardiovascular progenitors |
|
| Relations |
| BioSample |
SAMN21392447 |
| SRA |
SRX12142051 |
