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LocExpress
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LocExpress

LocExpress is web-based to quantify the expression of novel gene transcripts in RNA-seq data. The LocExpress algorithm work with human and mouse data. For the abundance estimation, LocExpress uses a minimum spanning bundle (MSB) region to allow quantification without the need to analyze a whole genome.



LocExpress

LocExpress is web-based to quantify the expression of novel gene transcripts in RNA-seq data. The LocExpress algorithm work with human and mouse data. For the abundance estimation, LocExpress uses a minimum spanning bundle (MSB) region to allow quantification without the need to analyze a whole genome.

Topic

Sequencing; RNA-Seq

Details

  • Operation: RNA-Seq analysis; RNA-Seq quantification
  • Input: GTF
  • Output: -
  • Software interface: Web user interface
  • Language: Python; Shell;Ruby
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: Not stated
    • Cost: Free for academic use.
  • Version name: -
  • Credit: China 863 Program Seeding Grant for Medicine and Life Sciences of Peking, International Collaboration Program for Proteome Biological Big Data and Standard System, State Key Laboratory of Protein and Plant Gene Research, National Program for Support of Top-notch Young Professionals.
  • Contact: loc-express _at_ mail.cbi.pku.edu.cn
  • Collection: -

Publications

Hou M, Tian F, Jiang S, Kong L, Yang D, Gao G "LocExpress: a web server for efficiently estimating expression of novel transcripts." BMC Genomics. 2016 Dec 22;17(Suppl 13):1023. https://doi.org/10.1186/s12864-016-3329-3
PMID: 28155723
PMCID: PMC5260097


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