|
Status |
Public on Apr 28, 2016 |
Title |
POB_WT-FLAG |
Sample type |
SRA |
|
|
Source name |
Primary osteoblasts
|
Organism |
Mus musculus |
Characteristics |
cell type: Calvarial osteoblasts age: P1 strain: C57BL/6 genotype: wild-type chip antibody: FLAG M2 antibody (Sigma, F1804)
|
Treatment protocol |
In in vitro culture, osteogenic media contained 10% FBS/alpha-MEM supplemented with 50 ug/mL ascorbic acid phosphate, 10 mM b-glycerophosphate and 10 ng/ml recombinant human BMP‑2 (rhBMP-2, 355-BM, R&D)
|
Growth protocol |
Primary osteoblasts were isolated from P1 calvaria. In vitro cultured osteoblasts were isolated from MC3T3E1 cells cultured for 1 week
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Cells were isolated by 1 unit/ml Liberase TM (05401119001, Roche), Protein-DNA complexes were crosslinked with 1% formaldehyde, Lysates were clarified from sonicated nuclei and Protein-DNA complexes were purified with FLAG antibody. Libraries were prepared ThruPLEX®-FD Prep Kit (R40012, Rubicon Genomics) according to manufacturer’s instruction
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
FLAG_ChIP-seq
|
Data processing |
DNA-sequence information was aligned to the unmasked mouse genome build 37 by the ELAND aligner Peak calling was performed by two-sample analysis on CisGenome software (Ji et al., 2008) with a P-value cutoff of 10-5 comparing with the input control Genome_build: mm9 Supplementary_files_format_and_content: .bed file reports peaks
|
|
|
Submission date |
Dec 20, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Hironori Hojo |
E-mail(s) |
[email protected]
|
Phone |
+81-3-5841-1427
|
Organization name |
The University of Tokyo
|
Department |
Center for Disease Biology and Integrative Medicine
|
Lab |
Clinical Biotechnology
|
Street address |
7-3-1 Hongo
|
City |
Bunkyo-ku |
State/province |
Tokyo |
ZIP/Postal code |
113-8655 |
Country |
Japan |
|
|
Platform ID |
GPL19057 |
Series (2) |
GSE76185 |
Sp7/Osterix is restricted to bone-forming vertebrates where it acts as a Dlx co-factor in osteoblast specification [ChIP-Seq] |
GSE76187 |
Sp7/Osterix is restricted to bone-forming vertebrates where it acts as a Dlx co-factor in osteoblast specification |
|
Relations |
BioSample |
SAMN04357053 |
SRA |
SRX1492980 |