HiCPlus specifications

Information


Unique identifier OMICS_16602
Name HiCPlus
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
Computer skills Advanced
Stability Stable
Requirements
Theano, Lasagne, Nolearn
Maintained Yes

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Documentation


Maintainer


  • person_outline Feng Yue <>

Publication for HiCPlus

HiCPlus in publication

PMCID: 5821732
PMID: 29467363
DOI: 10.1038/s41467-018-03113-2

[…] studying 3d genome organization, due to sequencing cost, the resolution of most hi-c datasets are coarse and cannot be used to link distal regulatory elements to their target genes. here we develop hicplus, a computational approach based on deep convolutional neural network, to infer high-resolution hi-c interaction matrices from low-resolution hi-c data. we demonstrate that hicplus can impute […]


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HiCPlus institution(s)
Department of Computer Science and Engineering, University of South Carolina, Columbia, SC, USA; Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, Penn State University, University Park, PA, USA; Department of Quantitative Health Sciences, Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, OH, USA; Tianjin Key Laboratory of Cognitive Computing and Application, Tianjin University, Tianjing, China; Department of Biochemistry and Molecular Biology, Penn State School of Medicine, Hershey, PA, USA
HiCPlus funding source(s)
This work is supported by NIH grants U01CA200060 and R24DK106766, U54KD107977, and by NSF award #1161586.

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