The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions

Here, we introduce the 3D Genome Browser, http://3dgenome.org, which allows users to conveniently explore both their own and over 300 publicly available chromatin interaction data of different types. We design a new binary data format for Hi-C data that reduces the file size by at least a magnitude...

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Detalles Bibliográficos
Autores principales: Wang, Yanli, Song, Fan, Zhang, Bo, Zhang, Lijun, Xu, Jie, Kuang, Da, Li, Daofeng, Choudhary, Mayank N. K., Li, Yun, Hu, Ming, Hardison, Ross, Wang, Ting, Yue, Feng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2018
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6172833/
https://www.ncbi.nlm.nih.gov/pubmed/30286773
http://dx.doi.org/10.1186/s13059-018-1519-9
Descripción
Sumario:Here, we introduce the 3D Genome Browser, http://3dgenome.org, which allows users to conveniently explore both their own and over 300 publicly available chromatin interaction data of different types. We design a new binary data format for Hi-C data that reduces the file size by at least a magnitude and allows users to visualize chromatin interactions over millions of base pairs within seconds. Our browser provides multiple methods linking distal cis-regulatory elements with their potential target genes. Users can seamlessly integrate thousands of other omics data to gain a comprehensive view of both regulatory landscape and 3D genome structure. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13059-018-1519-9) contains supplementary material, which is available to authorized users.

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