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Localizes gene products at the subcellular level will substantially advance Arabidopsis gene annotation. AtSubP is based on the combinatorial presence of diverse protein features, such as its amino acid composition, sequence-order effects, terminal information, Position-Specific Scoring Matrix, and similarity search-based Position-Specific Iterated-Basic Local Alignment Search Tool information. AtSubP outperformed all the existing tools currently being used for Arabidopsis proteome annotation.

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AtSubP classification

  • Plants
    • Arabidopsis thaliana

AtSubP specifications

Software type:
Package
Restrictions to use:
None
Computer skills:
Basic
Interface:
Web user interface
Input format:
FASTA
Stability:
Stable

AtSubP support

Documentation

Credits

Publications

  • (Kaundal et al., 2010) Combining machine learning and homology-based approaches to accurately predict subcellular localization in Arabidopsis. Plant Physiol.
    PMID: 20647376

Institution(s)

Bioinformatics Laboratory, Plant Biology Division, Samuel Roberts Noble Foundation, Ardmore, OK, USA; Centre for Biocrystallography, Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznan, Poland

Funding source(s)

This work was supported by the Samuel Roberts Noble Foundation.

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