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| Status |
Public on Jul 11, 2019 |
| Title |
Profiling chromatin state by single-cell itChIP-seq [ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We present a low-cost, generalizable ChIP-seq (itChIP), compatible to both low-input and single cells for profiling chromatin states. This method combines chromatin opening, simultaneous cellular indexing and chromatin tagmentation in a single tube. Single-cell itChIP data yield ~ 5000 unique reads per cell, sufficiently defining cell identifies and subpopulations of a given cell type. Our results demonstrate that itChIP is a generalizable technology for single-cell chromatin profiling of samples limited to ultra-low number of cells.
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| Overall design |
ATAC-seq was processed with 50K mouse embryonic cells as previously described. Tn5-MEA/B was used to tagment the native chromatin.
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| Contributor(s) |
Li C, Luo Y, Shi Q, He A |
| Citation(s) |
31481796 |
| |
| Submission date |
Jan 29, 2018 |
| Last update date |
Oct 10, 2019 |
| Contact name |
Chen Li |
| E-mail(s) |
chenli_imm@pku.edu.cn
|
| Organization name |
Peking University
|
| Department |
Institute of Molecular Medicine
|
| Lab |
Aibin He Lab
|
| Street address |
Yihe Yuan Road No.5
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE109762 |
Profiling chromatin state by single-cell itChIP-seq |
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| Relations |
| BioProject |
PRJNA431984 |
| SRA |
SRP131646 |
