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

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

Using deformation energy to analyze nucleosome positioning in genomes

(2016) Wei Chen et al.   GENOMICS

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

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

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

Identification of Heat Shock Protein families and J-protein types by incorporating Dipeptide Composition into Chou's general PseAAC

(2015) Saeed Ahmad et al.   COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

iMiRNA-PseDPC: microRNA precursor identification with a pseudo distance-pair composition approach

(2015) Bin Liu et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

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

Discrimination of acidic and alkaline enzyme using Chou’s pseudo amino acid composition in conjunction with probabilistic neural network model

(2015) Zaheer Ullah Khan et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction of β-lactamase and its class by Chou’s pseudo-amino acid composition and support vector machine

(2015) Ravindra Kumar et al.   JOURNAL OF THEORETICAL BIOLOGY

Identification of microRNA precursor with the degenerate K-tuple or Kmer strategy

(2015) Bin Liu et al.   JOURNAL OF THEORETICAL BIOLOGY

iPPI-Esml: An ensemble classifier for identifying the interactions of proteins by incorporating their physicochemical properties and wavelet transforms into PseAAC

(2015) Jianhua Jia et al.   JOURNAL OF THEORETICAL BIOLOGY

Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou׳s general PseAAC

(2015) Abdollah Dehzangi et al.   JOURNAL OF THEORETICAL BIOLOGY

Impacts of Bioinformatics to Medicinal Chemistry

(2015) Kuo-Chen Chou   Medicinal Chemistry

Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences

(2015) Wei Chen et al.   Molecular BioSystems

Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences

(2015) Bin Liu et al.   NUCLEIC ACIDS RESEARCH

Identification of Real MicroRNA Precursors with a Pseudo Structure Status Composition Approach

(2015) Bin Liu et al.   PLoS One

iTIS-PseTNC: A sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition

(2014) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

PseKNC: A flexible web server for generating pseudo K-tuple nucleotide composition

(2014) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects

(2014) Bin Liu et al.   BIOINFORMATICS

Prediction of protein structure classes by incorporating different protein descriptors into general Chou’s pseudo amino acid composition

(2014) Loris Nanni et al.   JOURNAL OF THEORETICAL BIOLOGY

PseDNA-Pro: DNA-Binding Protein Identification by Combining Chou’s PseAAC and Physicochemical Distance Transformation

(2014) Bin Liu et al.   Molecular Informatics

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

Prediction of DNase I Hypersensitive Sites by Using Pseudo Nucleotide Compositions

(2014) Pengmian Feng et al.   TheScientificWorldJOURNAL

iCTX-Type: A Sequence-Based Predictor for Identifying the Types of Conotoxins in Targeting Ion Channels

(2014) Hui Ding et al.   Biomed Research International

iSS-PseDNC: Identifying Splicing Sites Using Pseudo Dinucleotide Composition

(2014) Wei Chen et al.   Biomed Research International

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

(2013) Xuan Xiao et al.   ANALYTICAL BIOCHEMISTRY

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

iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition

(2013) Wei Chen et al.   NUCLEIC ACIDS RESEARCH

iSNO-PseAAC: Predict Cysteine S-Nitrosylation Sites in Proteins by Incorporating Position Specific Amino Acid Propensity into Pseudo Amino Acid Composition

(2013) Yan Xu et al.   PLoS One

Genome-Wide Identification of Regulatory DNA Elements and Protein-Binding Footprints Using Signatures of Open Chromatin in Arabidopsis

(2012) W. Zhang et al.   PLANT CELL

Correlation Between DNase I Hypersensitive Site Distribution and Gene Expression in HeLa S3 Cells

(2012) Ya-Mei Wang et al.   PLoS One

RSARF: Prediction of Residue Solvent Accessibility from Protein Sequence Using Random Forest Method

(2012) Ganesan Pugalenthi et al.   PROTEIN AND PEPTIDE LETTERS

Current bioinformatic approaches to identify DNase I hypersensitive sites and genomic footprints from DNase-seq data

(2012) Pedro Madrigal et al.   Frontiers in Genetics

Discriminative prediction of mammalian enhancers from DNA sequence

(2011) D. Lee et al.   GENOME RESEARCH

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

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

iDNA-Prot: Identification of DNA Binding Proteins Using Random Forest with Grey Model

(2011) Wei-Zhong Lin et al.   PLoS One

AFP-Pred: A random forest approach for predicting antifreeze proteins from sequence-derived properties

(2010) Krishna Kumar Kandaswamy 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

Predicting Human Nucleosome Occupancy from Primary Sequence

(2008) Shobhit Gupta et al.   PLoS Computational Biology