Predicting Gram-positive bacterial protein subcellular localization based on localization motifs

DOI10.1016/J.JTBI.2012.05.031MaRDI QIDQ2632058zbMATH OpenOpenAlexWikidataFDO

Authors Yinxia Hu, Tonghua Li, Jiangming Sun, Shengnan Tang, Wenwei Xiong, Guanyan Chen, Peisheng Cong, Dapeng Li

Publication date 14 May 2019

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jtbi.2012.05.031

zbMATH Keywords

motif findingposition-specific frequencies encodingsubcellular location predictionsupport vector machine (SVM)

Mathematics Subject Classification ID

Cell biology (92C37)

Recommendations

• Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC
• Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins
• Feature extraction by statistical contact potentials and wavelet transform for predicting subcellular localizations in gram negative bacterial proteins
• pLoc\_bal-mGneg: predict subcellular localization of Gram-negative bacterial proteins by quasi-balancing training dataset and general PseAAC
• Predicting mycobacterial proteins subcellular locations by incorporating pseudo-average chemical shift into the general form of Chou's pseudo amino acid composition

Cites work

• \textbf{iLoc-Virus}: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites
• A novel representation for apoptosis protein subcellular localization prediction using support vector machine
• Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins
• Some remarks on protein attribute prediction and pseudo amino acid composition

Cited in

(9)

• A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes
• pLoc\_bal-mGneg: predict subcellular localization of Gram-negative bacterial proteins by quasi-balancing training dataset and general PseAAC
• Identify Gram-negative bacterial secreted protein types by incorporating different modes of PSSM into Chou's general PseAAC via Kullback-Leibler divergence
• Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins
• Identification of protein subcellular localization via integrating evolutionary and physicochemical information into Chou's general PseAAC
• Predicting mycobacterial proteins subcellular locations by incorporating pseudo-average chemical shift into the general form of Chou's pseudo amino acid composition
• GOASVM: a subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition
• Feature extraction by statistical contact potentials and wavelet transform for predicting subcellular localizations in gram negative bacterial proteins
• Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC

Describes a project that uses

Uses Software

• ESLpred
• iLoc-Hum
• Gpos-PLoc
• Cell-PLoc
• Psortb
• iLoc-Virus
• Gneg-mPLoc
• Gpos-mPLoc

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