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Nucleome Browser: An integrative and multimodal data navigation platform for 4D Nucleome

View ORCID ProfileXiaopeng Zhu, View ORCID ProfileYang Zhang, Yuchuan Wang, Dechao Tian, View ORCID ProfileAndrew S. Belmont, View ORCID ProfileJason R. Swedlow, View ORCID ProfileJian Ma
doi: https://doi.org/10.1101/2022.02.21.481225
Xiaopeng Zhu
1Computational Biology Department, School of Computer Science, Carnegie Mellon University, USA
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Yang Zhang
1Computational Biology Department, School of Computer Science, Carnegie Mellon University, USA
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Yuchuan Wang
1Computational Biology Department, School of Computer Science, Carnegie Mellon University, USA
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Dechao Tian
1Computational Biology Department, School of Computer Science, Carnegie Mellon University, USA
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Andrew S. Belmont
2Department of Cell and Development Biology, University of Illinois at Urbana-Champaign, USA
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Jason R. Swedlow
3Division of Computational Biology, School of Life Sciences, University of Dundee, Scotland, UK
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Jian Ma
1Computational Biology Department, School of Computer Science, Carnegie Mellon University, USA
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  • For correspondence: jianma@cs.cmu.edu
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Abstract

We introduce Nucleome Browser (http://www.nucleome.org), an interactive, multimodal data visualization and exploration platform for 4D Nucleome research. Our tool effectively integrates heterogeneous datasets (e.g., genomics, imaging, 3D genome structure models, and single-cell data) and external data portals by a new adaptive communication mechanism. Nucleome Browser provides a scalable solution for integrating massive amounts of 4D Nucleome data to navigate multiscale nuclear structure and function in a wide range of biological contexts, enabling hypothesis generation and data sharing with the broad community.

Competing Interest Statement

J.R.S. is affiliated with Glencoe Software, a commercial company that builds, delivers, supports and integrates image data management systems across academic, biotech and pharmaceutical industries. The remaining authors declare no competing interests.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted February 22, 2022.
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Nucleome Browser: An integrative and multimodal data navigation platform for 4D Nucleome
Xiaopeng Zhu, Yang Zhang, Yuchuan Wang, Dechao Tian, Andrew S. Belmont, Jason R. Swedlow, Jian Ma
bioRxiv 2022.02.21.481225; doi: https://doi.org/10.1101/2022.02.21.481225
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Nucleome Browser: An integrative and multimodal data navigation platform for 4D Nucleome
Xiaopeng Zhu, Yang Zhang, Yuchuan Wang, Dechao Tian, Andrew S. Belmont, Jason R. Swedlow, Jian Ma
bioRxiv 2022.02.21.481225; doi: https://doi.org/10.1101/2022.02.21.481225

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