Computational approaches for prediction of pathogen-host protein-protein interactions

Stringent homology-based prediction of H. sapiens-M. tuberculosis H37Rv protein-protein interactions

(2014) Hufeng Zhou et al.   Biology Direct

Computational reconstruction of proteome-wide protein interaction networks between HTLV retroviruses and Homo sapiens

(2014) Suyu Mei et al.   BMC BIOINFORMATICS

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

Computational prediction of the human-microbial oral interactome

(2014) Edgar D Coelho et al.   BMC Systems Biology

VirusMentha: a new resource for virus-host protein interactions

(2014) Alberto Calderone et al.   NUCLEIC ACIDS RESEARCH

Network-Based Study Reveals Potential Infection Pathways of Hepatitis-C Leading to Various Diseases

(2014) Anirban Mukhopadhyay et al.   PLoS One

AdaBoost Based Multi-Instance Transfer Learning for Predicting Proteome-Wide Interactions between Salmonella and Human Proteins

(2014) Suyu Mei et al.   PLoS One

The Domain Landscape of Virus-Host Interactomes

(2014) Lu-Lu Zheng et al.   Biomed Research International

Multitask learning for host–pathogen protein interactions

(2013) Meghana Kshirsagar et al.   BIOINFORMATICS

PHISTO: pathogen–host interaction search tool

(2013) Saliha Durmuş Tekir et al.   BIOINFORMATICS

Interspecies protein-protein interaction network construction for characterization of host-pathogen interactions: a Candida albicans-zebrafish interaction study

(2013) Yu-Chao Wang et al.   BMC Systems Biology

Structure homology and interaction redundancy for discovering virus–host protein interactions

(2013) Benoît de Chassey et al.   EMBO REPORTS

iPfam: a database of protein family and domain interactions found in the Protein Data Bank

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

PATRIC, the bacterial bioinformatics database and analysis resource

(2013) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

A Viral-Human Interactome Based on Structural Motif-Domain Interactions Captures the Human Infectome

(2013) Aldo Segura-Cabrera et al.   PLoS One

Probability Weighted Ensemble Transfer Learning for Predicting Interactions between HIV-1 and Human Proteins

(2013) Suyu Mei   PLoS One

Data-warehousing of protein-protein interactions indicates that pathogens preferentially target hub and bottleneck proteins

(2013) Sylvia Schleker et al.   Frontiers in Microbiology

Techniques to cope with missing data in host–pathogen protein interaction prediction

(2012) Meghana Kshirsagar et al.   BIOINFORMATICS

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

(2012) Guangyu Cui et al.   BMC BIOINFORMATICS

Prediction and Comparison of SalmonellaHuman and SalmonellaArabidopsis Interactomes

(2012) Sylvia Schleker et al.   CHEMISTRY & BIODIVERSITY

Conserved host–pathogen PPIs : Globally conserved inter-species bacterial PPIs based conserved host-pathogen interactome derived novel target in C. pseudotuberculosis, C. diphtheriae, M. tuberculosis, C. ulcerans, Y. pestis, and E. coli targeted by Piper betel compounds

(2012) Debmalya Barh et al.   Integrative Biology

Computational analysis of interactomes: Current and future perspectives for bioinformatics approaches to model the host–pathogen interaction space

(2012) Roland Arnold et al.   METHODS

Genes involved in host–parasite interactions can be revealed by their correlated expression

(2012) Adam James Reid et al.   NUCLEIC ACIDS RESEARCH

Associations between HIV and Human Pathways Revealed by Protein-Protein Interactions and Correlated Gene Expression Profiles

(2012) Kuang-Chi Chen et al.   PLoS One

A Novel Biclustering Approach to Association Rule Mining for Predicting HIV-1–Human Protein Interactions

(2012) Anirban Mukhopadhyay et al.   PLoS One

Toward a three-dimensional view of protein networks between species

(2012) Eric A. Franzosa et al.   Frontiers in Microbiology

Infection Strategies of Bacterial and Viral Pathogens through Pathogen–Human Protein–Protein Interactions

(2012) Saliha Durmuş Tekir et al.   Frontiers in Microbiology

Prediction of protein–protein interactions between Ralstonia solanacearum and Arabidopsis thaliana

(2011) Zhi-Gang Li et al.   AMINO ACIDS

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

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

(2011) Stefan Wuchty   PLoS One

Structural principles within the human-virus protein-protein interaction network

(2011) E. A. Franzosa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The current Salmonella-host interactome

(2011) Sylvia Schleker et al.   Proteomics Clinical Applications

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

HPIDB - a unified resource for host-pathogen interactions

(2010) Ranjit Kumar et al.   BMC BIOINFORMATICS

The Human-Bacterial Pathogen Protein Interaction Networks of Bacillus anthracis, Francisella tularensis, and Yersinia pestis

(2010) Matthew D. Dyer et al.   PLoS One

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

Prediction of protein–protein interactions between Helicobacter pylori and a human host

(2009) Nidhi Tyagi et al.   Molecular BioSystems

Predicting the Interactome of Xanthomonas oryzae pathovar oryzae for target selection and DB service

(2008) Jeong-Gu Kim et al.   BMC BIOINFORMATICS

Ortholog-based protein-protein interaction prediction and its application to inter-species interactions

(2008) Sheng-An Lee et al.   BMC BIOINFORMATICS

VirHostNet: a knowledge base for the management and the analysis of proteome-wide virus–host interaction networks

(2008) Vincent Navratil et al.   NUCLEIC ACIDS RESEARCH

The Landscape of Human Proteins Interacting with Viruses and Other Pathogens

(2008) Matthew D. Dyer et al.   PLoS Pathogens