Predicting protein–protein interactions between human and hepatitis C virus via an ensemble learning method

Incorporating the type and direction information in predicting novel regulatory interactions between HIV-1 and human proteins using a biclustering approach

(2014) Anirban Mukhopadhyay et al.   BMC BIOINFORMATICS

iHyd-PseAAC: Predicting Hydroxyproline and Hydroxylysine in Proteins by Incorporating Dipeptide Position-Specific Propensity into Pseudo Amino Acid Composition

(2014) Yan Xu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Ensemble learning prediction of protein–protein interactions using proteins functional annotations

(2014) Indrajit Saha et al.   Molecular BioSystems

The intrinsic disorder status of the human hepatitis C virus proteome

(2014) Xiao Fan et al.   Molecular BioSystems

HCV Genotypes, Characterization of Mutations Conferring Drug Resistance to Protease Inhibitors, and Risk Factors among Blood Donors in São Paulo, Brazil

(2014) Anna S. Nishiya et al.   PLoS One

Computational Prediction of Protein–Protein Interaction Networks: Algorithms and Resources

(2013) Javad Zahiri et al.   CURRENT GENOMICS

PPIevo : Protein–protein interaction prediction from PSSM based evolutionary information

(2013) Javad Zahiri et al.   GENOMICS

Identification and comparative analysis of hepatitis C virus–host cell protein interactions

(2013) Patrick T. Dolan et al.   Molecular BioSystems

The Reactome pathway knowledgebase

(2013) David Croft et al.   NUCLEIC ACIDS RESEARCH

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Dual Coordination of Post Translational Modifications in Human Protein Networks

(2013) Jonathan Woodsmith et al.   PLoS Computational Biology

Prediction of protein-protein interactions between viruses and human by an SVM model

(2012) Guangyu Cui et al.   BMC BIOINFORMATICS

Topological analysis of protein co-abundance networks identifies novel host targets important for HCV infection and pathogenesis

(2012) Jason E McDermott et al.   BMC Systems Biology

The BioGRID interaction database: 2013 update

(2012) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

PROGRESS IN COMPUTATIONAL STUDIES OF HOST–PATHOGEN INTERACTIONS

(2012) HUFENG ZHOU et al.   Journal of Bioinformatics and Computational Biology

Revisiting the negative example sampling problem for predicting protein-protein interactions

(2011) Y. Park et al.   BIOINFORMATICS

Supervised learning and prediction of physical interactions between human and HIV proteins

(2011) Matthew D. Dyer et al.   INFECTION GENETICS AND EVOLUTION

Prediction of protein–protein interactions between human host and a pathogen and its application to three pathogenic bacteria

(2011) O. Krishnadev et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

Predicting protein folding rates using the concept of Chou's pseudo amino acid composition

(2011) Jianxiu Guo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

The IntAct molecular interaction database in 2012

(2011) S. Kerrien et al.   NUCLEIC ACIDS RESEARCH

SMART 7: recent updates to the protein domain annotation resource

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

Computational Prediction of Host-Parasite Protein Interactions between P. falciparum and H. sapiens

(2011) Stefan Wuchty   PLoS One

Mapping Protein Interactions between Dengue Virus and Its Human and Insect Hosts

(2011) Janet M. Doolittle et al.   PLoS Neglected Tropical Diseases

Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins

(2010) Y. Qi et al.   BIOINFORMATICS

Simple sequence-based kernels do not predict protein-protein interactions

(2010) J. Yu et al.   BIOINFORMATICS

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Cross-talk between post-translational modifications regulates life or death decisions by E2F1

(2010) Haroula Kontaki et al.   CELL CYCLE

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

Structural similarity-based predictions of protein interactions between HIV-1 and Homo sapiens

(2010) Janet M Doolittle et al.   Virology Journal

Prediction of HIV-1 virus-host protein interactions using virus and host sequence motifs

(2009) Perry Evans et al.   BMC Medical Genomics

Akt-dependent and -independent mechanisms of mTOR regulation in cancer

(2009) Regan M. Memmott et al.   CELLULAR SIGNALLING

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

(2009) Kuo-Chen Chou   Current Proteomics

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Prediction of Protein Secondary Structure Content by Using the Concept of Chous Pseudo Amino Acid Composition and Support Vector Machine

(2009) Chao Chen et al.   PROTEIN AND PEPTIDE LETTERS

Hepatitis C virus infection protein network

(2008) B de Chassey et al.   Molecular Systems Biology

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH

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

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