|
| Status |
Public on Apr 20, 2018 |
| Title |
Unsupervised clustering and epigenetic classification of single cells |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
96 scATAC-seq samples generated for the retinoic acid-induced mESC differentiation at day 4.
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| |
|
| Overall design |
We present a method that solely utilizes scATAC-seq data for the unsupervised clustering of cells and determination of cluster-specific open regions. The proposed procedure allows for the discovery of open chromatin regions specific to cell identity and the identification of transcription factors that drive the variation in cell identity.
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| |
|
| Contributor(s) |
Zamanighomi M, Lin Z, Daley T, Chen X, Duren Z, Schep A, Greenleaf WJ, Wong WH |
| Citation(s) |
29925875, 31601804 |
| |
| Submission date |
Dec 04, 2017 |
| Last update date |
Oct 21, 2019 |
| Contact name |
Mahdi Zamanighomi |
| E-mail(s) |
[email protected]
|
| Organization name |
Stanford University
|
| Department |
Statistics
|
| Street address |
390 Serra Mall
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (96)
|
|
| Relations |
| BioProject |
PRJNA420974 |
| SRA |
SRP126072 |
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