|
| Status |
Public on Dec 18, 2018 |
| Title |
NonstimulatedSmad4IPA |
| Sample type |
SRA |
| |
|
| Source name |
MS1 Cell line
|
| Organism |
Mus musculus |
| Characteristics |
stimulation: No
antibody for ip: SMAD4 (Cell Signaling)
cell line: MS1
|
| Treatment protocol |
Cells were serum starved for 24 hours before addition of fresh media or 1 ng/mL BMP9/10 recombinant protein
|
| Growth protocol |
Cells were grown in DMEM with 10% FBS and 1% antibiotics/antimycotics.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP was performed using Cell Signaling SimpleChIP Plus Sonication Kit and Smad4 antibody (Cell Signaling 46535).
TruSeq ChIP Library Preparation Kit (Illumina IP-202-1012)
10 ng starting material was used for library prep. DNA quantity was measured using Qubit DNA HS kit (Thermo 32851). Libraries were sequenced using NextSeq 500 High Output v2 kit. Library quality and quantity was assessed using Agilent DNA 1000 chip (Agilent 5067-1504) and Qubit DNA HS kit respectively
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Smad4 bound DNA from unstimulated Ms1
UnstimUn_peaks.xls
|
| Data processing |
ChIP-Seq App on Illuminia BaseSpace: MACS2 to identify enriched regions and HOMER for motif discovery
Genome_build: mm10
Supplementary_files_format_and_content: MACS2-peaks
|
| |
|
| Submission date |
Jun 18, 2018 |
| Last update date |
Dec 18, 2018 |
| Contact name |
Stryder Meadows |
| E-mail(s) |
smeadows@tulane.edu
|
| Organization name |
Tulane University
|
| Department |
Cell and Molecular Biology
|
| Street address |
6400 Freret
|
| City |
New Orleans |
| State/province |
LA |
| ZIP/Postal code |
70118 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE115921 |
ChIP-Seq: Unstimulated and BMP9/10 Stimulated Endothelial Cells |
|
| Relations |
| BioSample |
SAMN09435857 |
| SRA |
SRX4225885 |
