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| Status |
Public on Aug 01, 2020 |
| Title |
SPIN reveals genome-wide landscape of nuclear compartmentalization |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
We develop a new computational method called SPIN (Spatial Position Inference of the Nuclear genome) to identify genome-wide chromosome localization patterns relative to multiple nuclear compartments. SPIN states correlations with other features of genome structure and function, such as Hi-C subcompartments, TADs (Dixon et al., 2012; Nora et al., 2012), histone modification, and DNA replication timing.
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| |
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| Overall design |
Multi-fraction Repli-seq on K562 cell line.
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| |
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| Contributor(s) |
Sasaki T, Wang Y, Gilbert DM, Ma J |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Apr 09, 2020 |
| Last update date |
Aug 03, 2020 |
| Contact name |
Yuchuan Wang |
| E-mail(s) |
yuchuanw@andrew.cmu.edu
|
| Organization name |
Carnegie Mellon University
|
| Street address |
5000 Forbes Ave
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15213 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA624063 |
| SRA |
SRP255865 |
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