Protein remote homology detection by combining Chou’s distance-pair pseudo amino acid composition and principal component analysis

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

miRNA-dis: microRNA precursor identification based on distance structure status pairs

(2015) Bin Liu et al.   Molecular BioSystems

3D Structural Conformation and Functional Domains of Polysialyltransferase ST8Sia IV Required for Polysialylation of Neural Cell Adhesion Molecules

(2015) Guo-Ping Zhou et al.   PROTEIN AND PEPTIDE LETTERS

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

(2015) Bin Liu et al.   PLoS One

Predicting peroxidase subcellular location by hybridizing different descriptors of Chou’ pseudo amino acid patterns

(2014) Yong-Chun Zuo et al.   ANALYTICAL BIOCHEMISTRY

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

(2014) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

Prediction of bacterial protein subcellular localization by incorporating various features into Chou's PseAAC and a backward feature selection approach

(2014) Liqi Li et al.   BIOCHIMIE

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

iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition

(2014) Shou-Hui Guo et al.   BIOINFORMATICS

nDNA-prot: identification of DNA-binding proteins based on unbalanced classification

(2014) Li Song et al.   BMC BIOINFORMATICS

Discriminating protein structure classes by incorporating Pseudo Average Chemical Shift to Chou's general PseAAC and Support Vector Machine

(2014) Maqsood Hayat et al.   COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

Molecular Science for Drug Development and Biomedicine

(2014) Wei-Zhu Zhong et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Prediction of Protein S-Nitrosylation Sites Based on Adapted Normal Distribution Bi-Profile Bayes and Chou’s Pseudo Amino Acid Composition

(2014) Cangzhi Jia et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

PSNO: Predicting Cysteine S-Nitrosylation Sites by Incorporating Various Sequence-Derived Features into the General Form of Chou’s PseAAC

(2014) Jian Zhang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

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

(2014) Pufeng Du et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

iRSpot-TNCPseAAC: Identify Recombination Spots with Trinucleotide Composition and Pseudo Amino Acid Components

(2014) Wang-Ren Qiu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

PECM: Prediction of extracellular matrix proteins using the concept of Chou’s pseudo amino acid composition

(2014) Jian Zhang et al.   JOURNAL OF THEORETICAL BIOLOGY

Chou׳s pseudo amino acid composition improves sequence-based antifreeze protein prediction

(2014) Sukanta Mondal et al.   JOURNAL OF THEORETICAL BIOLOGY

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

Predict protein structural class for low-similarity sequences by evolutionary difference information into the general form of Chou׳s pseudo amino acid composition

(2014) Lichao Zhang 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

iDNA-Prot|dis: Identifying DNA-Binding Proteins by Incorporating Amino Acid Distance-Pairs and Reduced Alphabet Profile into the General Pseudo Amino Acid Composition

(2014) Bin Liu et al.   PLoS One

Prediction of protein structural classes based on feature selection technique

(2014) Hui Ding et al.   Interdisciplinary Sciences-Computational Life Sciences

Combining evolutionary information extracted from frequency profiles with sequence-based kernels for protein remote homology detection

(2013) Bin Liu et al.   BIOINFORMATICS

propy: a tool to generate various modes of Chou’s PseAAC

(2013) Dong-Sheng Cao et al.   BIOINFORMATICS

Using radial basis function on the general form of Chou's pseudo amino acid composition and PSSM to predict subcellular locations of proteins with both single and multiple sites

(2013) Chao Huang et al.   BIOSYSTEMS

BinMemPredict: a Web Server and Software for Predicting Membrane Protein Types

(2013) Quan Zou et al.   Current Proteomics

The pH-Triggered Conversion of the PrPc to PrPsc

(2013) Guo-Ping Zhou et al.   CURRENT TOPICS IN MEDICINAL CHEMISTRY

Locating apoptosis proteins by incorporating the signal peptide cleavage sites into the general form of Chou's Pseudo amino acid composition

(2013) Yufang Qin et al.   INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY

EuLoc: a web-server for accurately predict protein subcellular localization in eukaryotes by incorporating various features of sequence segments into the general form of Chou’s PseAAC

(2013) Tzu-Hao Chang et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Predicting protein subchloroplast locations with both single and multiple sites via three different modes of Chou's pseudo amino acid compositions

(2013) Chao Huang et al.   JOURNAL OF THEORETICAL BIOLOGY

GOASVM: A subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition

(2013) Shibiao Wan et al.   JOURNAL OF THEORETICAL BIOLOGY

A two-stage SVM method to predict membrane protein types by incorporating amino acid classifications and physicochemical properties into a general form of Chou's PseAAC

(2013) Guo-Sheng Han et al.   JOURNAL OF THEORETICAL BIOLOGY

Predicting anticancer peptides with Chou′s pseudo amino acid composition and investigating their mutagenicity via Ames test

(2013) Zohre Hajisharifi et al.   JOURNAL OF THEORETICAL BIOLOGY

Accurate prediction of protein structural classes by incorporating predicted secondary structure information into the general form of Chou's pseudo amino acid composition

(2013) Liang Kong et al.   JOURNAL OF THEORETICAL BIOLOGY

Protein Remote Homology Detection by Combining Chou’s Pseudo Amino Acid Composition and Profile-Based Protein Representation

(2013) Bin Liu et al.   Molecular Informatics

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

Hierarchical Classification of Protein Folds Using a Novel Ensemble Classifier

(2013) Chen Lin et al.   PLoS One

AcalPred: A Sequence-Based Tool for Discriminating between Acidic and Alkaline Enzymes

(2013) Hao Lin 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

Using ensemble SVM to identify human GPCRs N-linked glycosylation sites based on the general form of Chou's PseAAC

(2013) H.-L. Xie et al.   PROTEIN ENGINEERING DESIGN & SELECTION

PseAAC-Builder: A cross-platform stand-alone program for generating various special Chou’s pseudo-amino acid compositions

(2012) Pufeng Du et al.   ANALYTICAL BIOCHEMISTRY

Predict mycobacterial proteins subcellular locations by incorporating pseudo-average chemical shift into the general form of Chou’s pseudo amino acid composition

(2012) Guo-Liang Fan et al.   JOURNAL OF THEORETICAL BIOLOGY

Predicting plant protein subcellular multi-localization by Chou's PseAAC formulation based multi-label homolog knowledge transfer learning

(2012) Suyu Mei   JOURNAL OF THEORETICAL BIOLOGY

Predicting membrane protein types by incorporating protein topology, domains, signal peptides, and physicochemical properties into the general form of Chou’s pseudo amino acid composition

(2012) Yen-Kuang Chen et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction of Allergenic Proteins by Means of the Concept of Chou's Pseudo Amino Acid Composition and a Machine Learning Approach

(2012) Hassan Mohabatkar et al.   Medicinal Chemistry

Identifying protein quaternary structural attributes by incorporating physicochemical properties into the general form of Chou's PseAAC via discrete wavelet transform

(2012) Xing-Yu Sun et al.   Molecular BioSystems

BioShell Threader: protein homology detection based on sequence profiles and secondary structure profiles

(2012) D. Gront et al.   NUCLEIC ACIDS RESEARCH

Hepatitis C Virus Network Based Classification of Hepatocellular Cirrhosis and Carcinoma

(2012) Tao Huang et al.   PLoS One

Identification of Colorectal Cancer Related Genes with mRMR and Shortest Path in Protein-Protein Interaction Network

(2012) Bi-Qing Li et al.   PLoS One

Using Amino Acid Physicochemical Distance Transformation for Fast Protein Remote Homology Detection

(2012) Bin Liu et al.   PLoS One

iNuc-PhysChem: A Sequence-Based Predictor for Identifying Nucleosomes via Physicochemical Properties

(2012) Wei Chen et al.   PLoS One

Prediction of Apoptosis Protein Locations with Genetic Algorithms and Support Vector Machines Through a New Mode of Pseudo Amino Acid Composition

(2012) Krishna Kumar Kandaswamy et al.   PROTEIN AND PEPTIDE LETTERS

Identifying GPCRs and their Types with Chou's Pseudo Amino Acid Composition: An Approach from Multi-scale Energy Representation and Position Specific Scoring Matrix

(2012) Zia-ur-Rehman et al.   PROTEIN AND PEPTIDE LETTERS

Discriminating Outer Membrane Proteins with Fuzzy K-Nearest Neighbor Algorithms Based on the General Form of Chou’s PseAAC

(2012) Maqsood Hayat et al.   PROTEIN AND PEPTIDE LETTERS

Predicting protein submitochondria locations by combining different descriptors into the general form of Chou’s pseudo amino acid composition

(2011) Guo-Liang Fan et al.   AMINO ACIDS

Remote protein homology detection and fold recognition using two-layer support vector machine classifiers

(2011) Hilmi M. Muda et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Protein remote homology detection based on auto-cross covariance transformation

(2011) Xuan Liu et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Identifying Bacterial Virulent Proteins by Fusing a Set of Classifiers Based on Variants of Chou's Pseudo Amino Acid Composition and on Evolutionary Information

(2011) Loris Nanni et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

The disposition of the LZCC protein residues in wenxiang diagram provides new insights into the protein–protein interaction mechanism

(2011) Guo-Ping Zhou   JOURNAL OF THEORETICAL BIOLOGY

Prediction of GABAA receptor proteins using the concept of Chou's pseudo-amino acid composition and support vector machine

(2011) Hassan Mohabatkar et al.   JOURNAL OF THEORETICAL BIOLOGY

Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization

(2011) Suyu Mei   JOURNAL OF THEORETICAL BIOLOGY

Detailed Biophysical Characterization of the Acid-Induced PrPcto PrPβConversion Process

(2010) Trent C. Bjorndahl et al.   BIOCHEMISTRY

COMA server for protein distant homology search

(2010) Mindaugas Margelevičius et al.   BIOINFORMATICS

A novel feature representation method based on Chou's pseudo amino acid composition for protein structural class prediction

(2010) Sitanshu Sekhar Sahu et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

Graphic Rule for Drug Metabolism Systems

(2010) Kuo-Chen Chou   CURRENT DRUG METABOLISM

Supersecondary structure prediction using Chou's pseudo amino acid composition

(2010) Dongsheng Zou et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

SecretP: Identifying bacterial secreted proteins by fusing new features into Chou’s pseudo-amino acid composition

(2010) Lezheng Yu 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

Prediction of Cyclin Proteins Using Chous Pseudo Amino Acid Composition

(2010) Hassan Mohabatkar   PROTEIN AND PEPTIDE LETTERS

Prediction of Subcellular Localization of Apoptosis Protein Using Chou’s Pseudo Amino Acid Composition

(2009) Hao Lin et al.   ACTA BIOTHEORETICA

pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination

(2009) Anna Lobley et al.   BIOINFORMATICS

Prediction of protein binding sites in protein structures using hidden Markov support vector machine

(2009) Bin Liu et al.   BMC BIOINFORMATICS

Exploiting three kinds of interface propensities to identify protein binding sites

(2009) Bin Liu et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

Using the augmented Chou's pseudo amino acid composition for predicting protein submitochondria locations based on auto covariance approach

(2009) Yu-hong Zeng et al.   JOURNAL OF THEORETICAL BIOLOGY

Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses

(2009) Maryam Esmaeili et al.   JOURNAL OF THEORETICAL BIOLOGY

Protein structure prediction on the Web: a case study using the Phyre server

(2009) Lawrence A Kelley et al.   Nature Protocols

COMPASS server for homology detection: improved statistical accuracy, speed and functionality

(2009) R. I. Sadreyev et al.   NUCLEIC ACIDS RESEARCH

webPRC: the Profile Comparer for alignment-based searching of public domain databases

(2009) B. W. Brandt et al.   NUCLEIC ACIDS RESEARCH

Using Chou’s pseudo amino acid composition to predict protein quaternary structure: a sequence-segmented PseAAC approach

(2008) Shao-Wu Zhang et al.   AMINO ACIDS

Genetic programming for creating Chou’s pseudo amino acid based features for submitochondria localization

(2008) Loris Nanni et al.   AMINO ACIDS

A discriminative method for protein remote homology detection and fold recognition combining Top-n-grams and latent semantic analysis

(2008) Bin Liu et al.   BMC BIOINFORMATICS

Probing the Interaction between the Coiled Coil Leucine Zipper of cGMP-dependent Protein Kinase Iα and the C Terminus of the Myosin Binding Subunit of the Myosin Light Chain Phosphatase

(2008) Alok K. Sharma et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Predicting the cofactors of oxidoreductases based on amino acid composition distribution and Chou's amphiphilic pseudo-amino acid composition

(2008) Guang-Ya Zhang et al.   JOURNAL OF THEORETICAL BIOLOGY

Remote protein homology detection using recurrence quantification analysis and amino acid physicochemical properties

(2008) Yuchen Yang et al.   JOURNAL OF THEORETICAL BIOLOGY

Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition

(2008) D.N. Georgiou et al.   JOURNAL OF THEORETICAL BIOLOGY

PseAAC: A flexible web server for generating various kinds of protein pseudo amino acid composition

(2007) Hong-Bin Shen et al.   ANALYTICAL BIOCHEMISTRY