Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins

DOI10.1016/j.jtbi.2010.01.018zbMath1406.92211OpenAlexW2087548537WikidataQ38507610 ScholiaQ38507610MaRDI QIDQ1716218

Kuo-Chen Chou, Hong-Bin Shen

Publication date: 4 February 2019

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

Full work available at URL: https://doi.org/10.1016/j.jtbi.2010.01.018

zbMATH Keywords

gene ontologyensemble classifierhomology searchfunctional domainsequential evolutionfusion approachmultiplex proteinrepresentative proteins

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) Biochemistry, molecular biology (92C40) Cell biology (92C37)

Related Items (16)

Predicting Gram-positive bacterial protein subcellular localization based on localization motifs ⋮ \textit{SVM} ensemble based transfer learning for large-scale membrane proteins discrimination ⋮ Some remarks on protein attribute prediction and pseudo amino acid composition ⋮ Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC ⋮ 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 ⋮ Large-scale frequent stem pattern mining in RNA families ⋮ CE-PLoc: An ensemble classifier for predicting protein subcellular locations by fusing different modes of pseudo amino acid composition ⋮ Identification of protein subcellular localization via integrating evolutionary and physicochemical information into Chou's general PseAAC ⋮ High performance set of PseAAC and sequence based descriptors for protein classification ⋮ Bi-PSSM: position specific scoring matrix based intelligent computational model for identification of mycobacterial membrane proteins ⋮ iPHLoc-ES: identification of bacteriophage protein locations using evolutionary and structural features ⋮ Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC ⋮ \textbf{iLoc-Virus}: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites ⋮ Predicting protein subchloroplast locations with both single and multiple sites via three different modes of Chou's pseudo amino acid compositions ⋮ mLASSO-Hum: a LASSO-based interpretable human-protein subcellular localization predictor

Uses Software

• Cell-PLoc
• Psortb
• SMART
• Pfam
• Gneg-mPLoc
• Euk-mPLoc
• Hum-mPLoc

Cites Work

• Unnamed Item
• Using the augmented Chou's pseudo amino acid composition for predicting protein submitochondria locations based on auto covariance approach
• The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition
• Nearest neighbor pattern classification

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