lncFunTK specifications

Information


Unique identifier OMICS_29085
Name lncFunTK
Alternative name lncFunNet (lncRNA Functional inference through integrated Network)
Interface Web user interface
Restrictions to use None
Input data Some gene expression profiles of distinct stages/cell types/tissues, genomewide transcription factor, and miRNA binding profiles from RNA-seq, ChIP-seq, and AGO2-CLIP-seq.
Output data A list of query lncRNAs with associated FISs; the most significant GO terms associated with the lncRNA for its functional annotation; a visualized gene regulatory network including top 5 predicted functional lncRNAs and their key neighboring genes, which act as a starting point for further experimental validation.
Programming languages Perl
License MIT License
Computer skills Basic
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Hao Sun <>
  • person_outline Huating Wang <>
  • person_outline Jiajian Zhou <>
  • person_outline Jie Yuan <>

Information


Unique identifier OMICS_29085
Name lncFunTK
Alternative name lncFunNet (lncRNA Functional inference through integrated Network)
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some gene expression profiles of distinct stages/cell types/tissues, genomewide transcription factor, and miRNA binding profiles from RNA-seq, ChIP-seq, and AGO2-CLIP-seq.
Output data A list of query lncRNAs with associated FISs; the most significant GO terms associated with the lncRNA for its functional annotation; a visualized gene regulatory network including top 5 predicted functional lncRNAs and their key neighboring genes, which act as a starting point for further experimental validation.
Operating system Unix/Linux
Programming languages Perl, Python
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Download


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Maintainers


  • person_outline Hao Sun <>
  • person_outline Huating Wang <>
  • person_outline Jiajian Zhou <>
  • person_outline Jie Yuan <>

Publications for lncFunTK

lncFunTK institution(s)
Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Prince of Wales Hospital, New Territories, Hong Kong, China; Department of Chemical Pathology, The Chinese University of Hong Kong, Prince of Wales Hospital, New Territories, Hong Kong, China; Department of Orthopaedics and Traumatology, The Chinese University of Hong Kong, Prince of Wales Hospital, New Territories, Hong Kong, China
lncFunTK funding source(s)
Supported by the General Research Funds (GRF), the Research Grants Council (RGC) of the Hong Kong S.A.R, China (Project Code: 14102315, 14113514, 473713).

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