iNuc-STNC: a sequence-based predictor for identification of nucleosome positioning in genomes by extending the concept of SAAC and Chou's PseAAC

“iSS-Hyb-mRMR”: Identification of splicing sites using hybrid space of pseudo trinucleotide and pseudo tetranucleotide composition

(2016) Muhammad Iqbal et al.   COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

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

(2015) Zi Liu et al.   ANALYTICAL BIOCHEMISTRY

iORI-PseKNC: A predictor for identifying origin of replication with pseudo k-tuple nucleotide composition

(2015) Wen-Chao Li et al.   CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS

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

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

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

Discrimination of membrane transporter protein types using K-nearest neighbor method derived from the similarity distance of total diversity measure

(2015) Yong-Chun Zuo et al.   Molecular BioSystems

PSOFuzzySVM-TMH: identification of transmembrane helix segments using ensemble feature space by incorporated fuzzy support vector machine

(2015) Maqsood Hayat et al.   Molecular BioSystems

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

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

Sequence-based identification of recombination spots using pseudo nucleic acid representation and recursive feature extraction by linear kernel SVM

(2014) Liqi Li 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

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

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

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

iNitro-Tyr: Prediction of Nitrotyrosine Sites in Proteins with General Pseudo Amino Acid Composition

(2014) Yan Xu et al.   PLoS One

WRF-TMH: predicting transmembrane helix by fusing composition index and physicochemical properties of amino acids

(2013) Maqsood Hayat et al.   AMINO ACIDS

iHSP-PseRAAAC: Identifying the heat shock protein families using pseudo reduced amino acid alphabet composition

(2013) Peng-Mian Feng et al.   ANALYTICAL BIOCHEMISTRY

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

(2013) Xuan Xiao et al.   ANALYTICAL BIOCHEMISTRY

iCDI-PseFpt: Identify the channel–drug interaction in cellular networking with PseAAC and molecular fingerprints

(2013) Xuan Xiao et al.   JOURNAL OF THEORETICAL BIOLOGY

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

iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteineS-nitrosylation sites in proteins

(2013) Yan Xu et al.   PeerJ

iNR-PhysChem: A Sequence-Based Predictor for Identifying Nuclear Receptors and Their Subfamilies via Physical-Chemical Property Matrix

(2012) Xuan Xiao et al.   PLoS One

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

(2012) Wei Chen et al.   PLoS One

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

Mito-GSAAC: mitochondria prediction using genetic ensemble classifier and split amino acid composition

(2011) Tariq Habib Afridi et al.   AMINO ACIDS

Prediction of membrane proteins using split amino acid and ensemble classification

(2011) Maqsood Hayat et al.   AMINO ACIDS

MemHyb: Predicting membrane protein types by hybridizing SAAC and PSSM

(2011) Maqsood Hayat et al.   JOURNAL OF THEORETICAL BIOLOGY

Predicting membrane protein types by fusing composite protein sequence features into pseudo amino acid composition

(2010) Maqsood Hayat et al.   JOURNAL OF THEORETICAL BIOLOGY

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

(2010) Krishna Kumar Kandaswamy et al.   JOURNAL OF THEORETICAL BIOLOGY

The organization of nucleosomes around splice sites

(2010) Wei Chen et al.   NUCLEIC ACIDS RESEARCH

Prediction of nuclear proteins using SVM and HMM models

(2009) Manish Kumar et al.   BMC BIOINFORMATICS

A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome

(2008) T. N. Mavrich et al.   GENOME RESEARCH

Predicting Human Nucleosome Occupancy from Primary Sequence

(2008) Shobhit Gupta et al.   PLoS Computational Biology