|
| Status |
Public on May 07, 2024 |
| Title |
ctrl_CUTTag |
| Sample type |
SRA |
| |
|
| Source name |
bone-marrow-derived macrophage
|
| Organism |
Mus musculus |
| Characteristics |
cell type: bone-marrow-derived macrophage
genotype: WT
treatment: Osteoclastic differentiation
time: ctrl
antibody: ctrl
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted after tagementation of Tn5 transposome. Barcoded libraries were then amplified with PCR reactions (TruePrep DNA Library Prep Kit V2 for Illumina, Vazyme)
CUT&Tag libraries were constructed with CUT&Tag Assay Kit (pAG-Tn5) for illumina, (Abclonal)
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The CUT&Tag reads were aligned to the mm10 genome by using Bowtie2. Low-mapping-quality reads were filtered by SAMtools (v.1.9), and duplicate reads were removed by Picard tools (v1.90).MACS2 (41) was used to call，peaks with a q-value < 0.01. BigWig files were generated by deeptools (46) by theRPKM normalization method and visualized in igv (v.2.13.1)
Assembly: mm10
Supplementary files format and content: bigWig
Library strategy: CUT&Tag
|
| |
|
| Submission date |
May 06, 2024 |
| Last update date |
May 07, 2024 |
| Contact name |
Zhaoming Ye |
| E-mail(s) |
yezhaoming@zju.edu.cn
|
| Organization name |
The Second Affiliated Hospital, Zhejiang University School of Medicine
|
| Street address |
88 jiefang road
|
| City |
hangzhou |
| ZIP/Postal code |
310031 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE231933 |
The chromatin remodeling factor Arid1a cooperates with Jun/Fos to promote osteoclastogenesis by epigenetically upregulating Siglec15 expression |
|
| Relations |
| BioSample |
SAMN41240524 |
| SRA |
SRX24476326 |
