Imbalanced multi-label learning for identifying antimicrobial peptides and their functional types

iSuc-PseOpt: Identifying lysine succinylation sites in proteins by incorporating sequence-coupling effects into pseudo components and optimizing imbalanced training dataset

(2016) Jianhua Jia et al.   ANALYTICAL BIOCHEMISTRY

pRNAm-PC: Predicting N6-methyladenosine sites in RNA sequences via physical–chemical properties

(2016) Zi Liu et al.   ANALYTICAL BIOCHEMISTRY

seqlm: an MDL based method for identifying differentially methylated regions in high density methylation array data

(2016) Raivo Kolde et al.   BIOINFORMATICS

iDHS-EL: identifying DNase I hypersensitive sites by fusing three different modes of pseudo nucleotide composition into an ensemble learning framework

(2016) Bin Liu et al.   BIOINFORMATICS

pSuc-Lys: Predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach

(2016) Jianhua Jia et al.   JOURNAL OF THEORETICAL BIOLOGY

iPhos-PseEvo: Identifying Human Phosphorylated Proteins by Incorporating Evolutionary Information into General PseAAC via Grey System Theory

(2016) Wang-Ren Qiu et al.   Molecular Informatics

iPPBS-Opt: A Sequence-Based Ensemble Classifier for Identifying Protein-Protein Binding Sites by Optimizing Imbalanced Training Datasets

(2016) Jianhua Jia et al.   MOLECULES

iDNA-Methyl: Identifying DNA methylation sites via pseudo trinucleotide composition

(2015) Zi Liu et al.   ANALYTICAL BIOCHEMISTRY

iEnhancer-2L: a two-layer predictor for identifying enhancers and their strength by pseudok-tuple nucleotide composition

(2015) Bin Liu et al.   BIOINFORMATICS

A multi-label classification based approach for sentiment classification

(2015) Shuhua Monica Liu et al.   EXPERT SYSTEMS WITH APPLICATIONS

iDrug-Target: predicting the interactions between drug compounds and target proteins in cellular networking via benchmark dataset optimization approach

(2015) Xuan Xiao et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Impacts of Bioinformatics to Medicinal Chemistry

(2015) Kuo-Chen Chou   Medicinal Chemistry

Addressing imbalance in multilabel classification: Measures and random resampling algorithms

(2015) Francisco Charte et al.   NEUROCOMPUTING

Distinct profiling of antimicrobial peptide families

(2014) Abdullah M. Khamis et al.   BIOINFORMATICS

dbaasp: database of antimicrobial activity and structure of peptides

(2014) Giorgi Gogoladze et al.   FEMS MICROBIOLOGY LETTERS

Prediction of Linear Cationic Antimicrobial Peptides Based on Characteristics Responsible for Their Interaction with the Membranes

(2014) Boris Vishnepolsky et al.   Journal of Chemical Information and Modeling

iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition

(2014) Hao Lin et al.   NUCLEIC ACIDS RESEARCH

Potential therapeutic applications of multifunctional host-defense peptides from frog skin as anti-cancer, anti-viral, immunomodulatory, and anti-diabetic agents

(2014) J. Michael Conlon et al.   PEPTIDES

Gene Function Prediction Based on the Gene Ontology Hierarchical Structure

(2014) Liangxi Cheng et al.   PLoS One

Antimicrobial peptides

(2014) Martin Malmsten   UPSALA JOURNAL OF MEDICAL SCIENCES

iAMP-2L: A two-level multi-label classifier for identifying antimicrobial peptides and their functional types

(2013) Xuan Xiao et al.   ANALYTICAL BIOCHEMISTRY

Prediction of Antimicrobial Activity of Synthetic Peptides by a Decision Tree Model

(2013) Felipe Lira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

iLoc-Animal: a multi-label learning classifier for predicting subcellular localization of animal proteins

(2013) Wei-Zhong Lin et al.   Molecular BioSystems

Some remarks on predicting multi-label attributes in molecular biosystems

(2013) Kuo-Chen Chou   Molecular BioSystems

CAMP: Collection of sequences and structures of antimicrobial peptides

(2013) Faiza Hanif Waghu et al.   NUCLEIC ACIDS RESEARCH

LAMP: A Database Linking Antimicrobial Peptides

(2013) Xiaowei Zhao et al.   PLoS One

C-PAmP: Large Scale Analysis and Database Construction Containing High Scoring Computationally Predicted Antimicrobial Peptides for All the Available Plant Species

(2013) Anastasia Niarchou et al.   PLoS One

Predicting Antibacterial Peptides by the Concept of Chou's Pseudo-amino Acid Composition and Machine Learning Methods

(2013) Maede Khosravian et al.   PROTEIN AND PEPTIDE LETTERS

From antimicrobial to anticancer peptides. A review

(2013) Diana Gaspar et al.   Frontiers in Microbiology

mGOASVM: Multi-label protein subcellular localization based on gene ontology and support vector machines

(2012) Shibiao Wan et al.   BMC BIOINFORMATICS

Using ensemble methods to deal with imbalanced data in predicting protein–protein interactions

(2012) Yongqing Zhang et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

ClassAMP: A Prediction Tool for Classification of Antimicrobial Peptides

(2012) Shaini Joseph et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Virus-mPLoc: A Fusion Classifier for Viral Protein Subcellular Location Prediction by Incorporating Multiple Sites

(2012) Hong-Bin Shen et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Synthesis, structure and antimicrobial activity of 6-(propan-2-yl)-3-methyl-morpholine-2,5-dione

(2012) Denitsa Yancheva et al.   JOURNAL OF MOLECULAR STRUCTURE

Inverse random under sampling for class imbalance problem and its application to multi-label classification

(2012) Muhammad Atif Tahir et al.   PATTERN RECOGNITION

Peptides with antimicrobial and anti-inflammatory activities that have therapeutic potential for treatment of acne vulgaris

(2012) Suzana Popovic et al.   PEPTIDES

Imbalanced Multi-Modal Multi-Label Learning for Subcellular Localization Prediction of Human Proteins with Both Single and Multiple Sites

(2012) Jianjun He et al.   PLoS One

iLoc-Gpos: A Multi-Layer Classifier for Predicting the Subcellular Localization of Singleplex and Multiplex Gram-Positive Bacterial Proteins

(2012) Zhi-Cheng Wu et al.   PROTEIN AND PEPTIDE LETTERS

iLoc-Virus: A multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites

(2011) Xuan Xiao et al.   JOURNAL OF THEORETICAL BIOLOGY

Classifier chains for multi-label classification

(2011) Jesse Read et al.   MACHINE LEARNING

iLoc-Plant: a multi-label classifier for predicting the subcellular localization of plant proteins with both single and multiple sites

(2011) Zhi-Cheng Wu et al.   Molecular BioSystems

iLoc-Hum: using the accumulation-label scale to predict subcellular locations of human proteins with both single and multiple sites

(2011) Kuo-Chen Chou et al.   Molecular BioSystems

A combined SMOTE and PSO based RBF classifier for two-class imbalanced problems

(2011) Ming Gao et al.   NEUROCOMPUTING

iLoc-Euk: A Multi-Label Classifier for Predicting the Subcellular Localization of Singleplex and Multiplex Eukaryotic Proteins

(2011) Kuo-Chen Chou et al.   PLoS One

Prediction of Antimicrobial Peptides Based on Sequence Alignment and Feature Selection Methods

(2011) Ping Wang et al.   PLoS One

AntiBP2: improved version of antibacterial peptide prediction

(2010) Sneh Lata et al.   BMC BIOINFORMATICS

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

(2010) Hong-Bin Shen et al.   JOURNAL OF THEORETICAL BIOLOGY

Some remarks on protein attribute prediction and pseudo amino acid composition

(2010) Kuo-Chen Chou   JOURNAL OF THEORETICAL BIOLOGY

Addressing data complexity for imbalanced data sets: analysis of SMOTE-based oversampling and evolutionary undersampling

(2010) Julián Luengo et al.   SOFT COMPUTING

Pseudo Amino Acid Composition and its Applications in Bioinformatics, Proteomics and System Biology

(2009) Kuo-Chen Chou   Current Proteomics

Feature selection for multi-label naive Bayes classification

(2009) Min-Ling Zhang et al.   INFORMATION SCIENCES

CAMP: a useful resource for research on antimicrobial peptides

(2009) Shaini Thomas et al.   NUCLEIC ACIDS RESEARCH

Gpos-mPLoc: A Top-Down Approach to Improve the Quality of Predicting Subcellular Localization of Gram-Positive Bacterial Proteins

(2009) Hong-Bin Shen et al.   PROTEIN AND PEPTIDE LETTERS

Cell-PLoc: a package of Web servers for predicting subcellular localization of proteins in various organisms

(2008) Kuo-Chen Chou et al.   Nature Protocols

APD2: the updated antimicrobial peptide database and its application in peptide design

(2008) Guangshun Wang et al.   NUCLEIC ACIDS RESEARCH