Journal
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
Volume 15, Issue 3, Pages 3495-3506Publisher
MDPI
DOI: 10.3390/ijms15033495
Keywords
general form; large-scale datasets; pseudo-amino acid composition
Funding
- National Science Foundation of China [NSFC 61005041]
- Specialized Research Fund for the Doctoral Program of Higher Education [SRFDP 20100032120039]
- Tianjin Natural Science Foundation [12JCQNJC02300]
- China Post-doctoral Science Foundation [2012T50240, 2013M530114]
- HK Scholar Program [XJ2012033]
- Seed Foundation of Tianjin University [60302006, 60302024]
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The general form pseudo-amino acid composition (PseAAC) has been widely used to represent protein sequences in predicting protein structural and functional attributes. We developed the program PseAAC-General to generate various different modes of Chou's general PseAAC, such as the gene ontology mode, the functional domain mode, and the sequential evolution mode. This program allows the users to define their own desired modes. In every mode, 544 physicochemical properties of the amino acids are available for choosing. The computing efficiency is at least 100 times that of existing programs, which makes it able to facilitate the extensive studies on proteins and peptides. The PseAAC-General is freely available via SourceForge. It runs on both Linux and Windows.
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