|
| Status |
Public on Sep 20, 2021 |
| Title |
Ocy454_Input_DNA |
| Sample type |
SRA |
| |
|
| Source name |
Ocy454
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Ocy454
cell type: Osteocyte-like cell line
chip antibody: none
|
| Growth protocol |
Ocy454 cells were cultured for 10 days at 37°C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and FLAG-Sp7-DNA complexes were isolated with antibody.
Libraries were prepared according to instructions accompanying the ThruPLEX®-FD Prep Kit (R40012, Rubicon Genomics). Libraries were sequenced on the Illumina HiSeq X platform.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Sequencing read quality was evaluated using FastQC.
ChIP-seq reads were aligned to the mouse genome (mm9) using bowtie2.
Peaks were identified using MACS2 with default parameters except for the effective genome size set for mouse (mm9)
Genome_build: mm9
Supplementary_files_format_and_content: bigwig file was generated by MACS2
Supplementary_files_format_and_content: bed file was generated by MACS2
|
| |
|
| Submission date |
Jul 20, 2020 |
| Last update date |
Sep 20, 2021 |
| Contact name |
Jialiang Wang |
| E-mail(s) |
jialiang.wang@utsouthwestern.edu
|
| Organization name |
University of Texas Southwestern Medical Center
|
| Street address |
5323 Harry Hines Blvd
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL21273 |
| Series (2) |
| GSE154716 |
Control of osteocyte dendrite formation by Sp7 and its target gene osteocrin [ChIP-Seq] |
| GSE154719 |
Control of osteocyte dendrite formation by Sp7 and its target gene osteocrin |
|
| Relations |
| BioSample |
SAMN15581611 |
| SRA |
SRX8771894 |
