PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets

PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets

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...

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Bibliographic Details
Main Authors: Pufeng Du, Shuwang Gu, Yasen Jiao
Format: Article
Language:English
Published: MDPI AG 2014-02-01
Series:International Journal of Molecular Sciences
Subjects:
general form
large-scale datasets
pseudo-amino acid composition
Online Access:http://www.mdpi.com/1422-0067/15/3/3495
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spelling doaj-4ffd501635194c0686a21dcd2baf68a82020-11-24T23:55:28ZengMDPI AGInternational Journal of Molecular Sciences1422-00672014-02-011533495350610.3390/ijms15033495ijms15033495PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein DatasetsPufeng Du0Shuwang Gu1Yasen Jiao2School of Computer Science and Technology, Tianjin University, Tianjin 300072, ChinaSchool of Computer Science and Technology, Tianjin University, Tianjin 300072, ChinaSchool of Computer Science and Technology, Tianjin University, Tianjin 300072, ChinaThe 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.http://www.mdpi.com/1422-0067/15/3/3495general formlarge-scale datasetspseudo-amino acid composition
collection DOAJ
language English
format Article
sources DOAJ
author Pufeng Du
Shuwang Gu
Yasen Jiao
spellingShingle Pufeng Du
Shuwang Gu
Yasen Jiao
PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
International Journal of Molecular Sciences
general form
large-scale datasets
pseudo-amino acid composition
author_facet Pufeng Du
Shuwang Gu
Yasen Jiao
author_sort Pufeng Du
title PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
title_short PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
title_full PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
title_fullStr PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
title_full_unstemmed PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets
title_sort pseaac-general: fast building various modes of general form of chou’s pseudo-amino acid composition for large-scale protein datasets
publisher MDPI AG
series International Journal of Molecular Sciences
issn 1422-0067
publishDate 2014-02-01
description 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.
topic general form
large-scale datasets
pseudo-amino acid composition
url http://www.mdpi.com/1422-0067/15/3/3495
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AT shuwanggu pseaacgeneralfastbuildingvariousmodesofgeneralformofchouspseudoaminoacidcompositionforlargescaleproteindatasets
AT yasenjiao pseaacgeneralfastbuildingvariousmodesofgeneralformofchouspseudoaminoacidcompositionforlargescaleproteindatasets
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