RNAex specifications

Unique identifier:
OMICS_11686
Interface:
Web user interface
Input data:
To use RNAex, users are required to first select two matched probing datasets and a folding method. Then, users need to input their transcripts of interest for structure prediction, by providing the transcript IDs or the genomic locations in GTF format. RNAex can run multiple transcripts in parallel. RNAex accepts the following transcript IDs for known transcripts: TAIR (v10) ID for Arabidopsis transcripts, SGD (SacCer2) ID for yeast transcripts, GENCODE (v19 for DMS-seq and v12 for PARS data) ID for human transcripts and GENCODE (v2) ID for mouse transcripts. RNAex also accepts genomic locations in GTF format for novel transcripts.
Stability:
Stable
Name:
RNA secondary structure prediction enhanced by high-throughput experimental data
Restrictions to use:
None
Computer skills:
Basic
Maintained:
Yes
  • Animals
    • Homo sapiens
    • Mus musculus
  • Fungi
    • Saccharomyces cerevisiae
  • Plants
    • Arabidopsis thaliana

RNAex support

Documentation

Maintainer

  • Rex Team <>

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Publications

Institution(s)

MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Center for Plant Biology and Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing, China

Funding source(s)

National Key Basic Research Program of China [2012CB316503]; National High-Tech Research and Development Program of China [2014AA021103]; National Natural Science Foundation of China [31271402, 31522030]; Tsinghua University Initiative Scientific Research Program [2014z21045]; Computing Platform of National Protein Facilities (Tsinghua University)

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