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| Status |
Public on Apr 24, 2024 |
| Title |
ChIP-seq analysis of gene expression regulated by LSD1 in CD8+ T cells |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
ChIP-seq assay was performed with GSK- or Vehicle-treated CD8+ T cells to interrogate the genome-wide distribution of LSD1, H3K4me1, H3K4me2, H3K4me3, H3K27ac, and Pol II, and their alterations in response to LSD1 inhibition.
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| Overall design |
In vitro cultured CD8+ T cells were fixed in 1% formaldehyde for 10 min at RT on a shaker, followed by quenching in 125 mM glycine. Next, cells were washed twice with ice-cold PBS and lysed in sonication buffer, then sonicated to obtain DNA fragments mostly between 300-800 bp. Subsequent procedures were performed following the Epigenetics Protocols Database PROT-11 (https://www.epigenome-noe.net/researchtools/protocols.php.html). ChIP-seq libraries were prepared using the VAHTS Universal DNA Library Prep Kit (Vazyme, ND607-01) according to the manufacturer’s instructions. Library concentrations were quantified by Qubit (Invitrogen) and mixed equally for sequencing at Novaseq 6000 (Illumina) to generate 150 bp paired-end reads or at DNBSEQ-T7 (MGI Tech) to generate 100 bp paired-end reads.
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| Web link |
http://10.1038/s41467-024-48607-4
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| Contributor(s) |
Jiang P, Sheng W |
| Citation(s) |
38773088 |
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| Submission date |
Nov 29, 2023 |
| Last update date |
May 27, 2024 |
| Contact name |
Wanqiang Sheng |
| E-mail(s) |
nussheng@gmail.com
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| Organization name |
Zhejiang University School of Medicine
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| Department |
Department of Immunology
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| Lab |
The Sheng Lab
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| Street address |
866 Yuhangtang Road
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| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310058 |
| Country |
China |
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| Platforms (2) |
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| Samples (16)
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| Relations |
| BioProject |
PRJNA1046394 |
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