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| Status |
Public on Jun 19, 2019 |
| Title |
Comparing 3D genome organization in multiple species using Phylo-HMRF |
| Organisms |
Gorilla gorilla; Pan paniscus; Pan troglodytes |
| Experiment type |
Other
|
| Summary |
We developed a continuous-trait probabilistic model to identify genome-wide evolutionary patterns of 3D genome structures based on multi-species Hi-C data. We applied the proposed method to analyzing cross-species Hi-C data from the same cell type in multiple primate species. The results showed that the proposed method enables discovery of distinct Hi-C contact frequency evolutionary patterns across species.
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| Overall design |
Comparing Hi-C contact frequencies among multiple primate species
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| Contributor(s) |
Yang Y, Zhang Y, Ren B, Dixon J, Ma J |
| Citation(s) |
31229558 |
| Submission date |
Mar 25, 2019 |
| Last update date |
Jul 03, 2019 |
| Contact name |
Yang Yang |
| E-mail(s) |
yy3@andrew.cmu.edu
|
| Organization name |
Carnegie Mellon University
|
| Department |
Computational Biology
|
| Street address |
5000 Forbes Ave
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15213 |
| Country |
USA |
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| Platforms (3) |
| GPL19148 |
Illumina HiSeq 2500 (Pan troglodytes) |
| GPL24148 |
Illumina HiSeq 2500 (Gorilla gorilla) |
| GPL24149 |
Illumina HiSeq 2500 (Pan paniscus) |
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| Samples (3) |
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| Relations |
| BioProject |
PRJNA528916 |
| SRA |
SRP189342 |
