R3D198 last accessed: 2022-11-04

Other names: HPIDB, Host - Pathogen Interaction Database

HPIDB 3.0 is a resource that helps annotate, predict and display host-pathogen interactions (HPI). HPI that underpin infectious diseases are critical for developing novel intervention strategies. HPIDB is a host-pathogen protein-protein interaction (PPI) database, which serves as a unified resource for host-pathogen interactions. HPIDB integrates experimental PPIs from several public databases into a single, non-redundant web accessible resource.

Webpage:

http://hpidb.igbb.msstate.edu/

Licence:

Name: Copyrights
URL: https://hpidb.igbb.msstate.edu/about.html

Publications:

Publications
More detailed information about this field from each metasource.

HPIDB--a unified resource for host-pathogen interactions
PMID: 20946599
metasource: Fairsharing.org
version: FAIRsharing.org: HPIDB; Host Pathogen Interaction Database; DOI: https://doi.org/10.25504/FAIRsharing.fk0z49; Last edited: July 2, 2019, 12:01 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

HPIDB 2.0: a curated database for host-pathogen interactions
PMID: 27374121
metasource: Fairsharing.org
version: FAIRsharing.org: HPIDB; Host Pathogen Interaction Database; DOI: https://doi.org/10.25504/FAIRsharing.fk0z49; Last edited: July 2, 2019, 12:01 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

HPIDB--a unified resource for host-pathogen interactions PubMed citations: 72.

72 articles citing: HPIDB--a unified resource for host-pathogen interactions

The Landscape of Virus-Host Protein-Protein Interaction Databases. PMID:35910656
Deciphering the Crosstalk Mechanisms of Wheat-Stem Rust Pathosystem: Genome-Scale Prediction Unravels Novel Host Targets. PMID:35800602
PHILM2Web: A high-throughput database of macromolecular host-pathogen interactions on the Web. PMID:35776535
Integrated analysis of microbe-host interactions in Crohn's disease reveals potential mechanisms of microbial proteins on host gene expression. PMID:35479407
Tandem Mass Tagging (TMT) Reveals Tissue-Specific Proteome of L4 Larvae of Anisakis simplex s. s.: Enzymes of Energy and/or Carbohydrate Metabolism as Potential Drug Targets in Anisakiasis. PMID:35457153
Deciphering the Host-Pathogen Interactome of the Wheat-Common Bunt System: A Step towards Enhanced Resilience in Next Generation Wheat. PMID:35269732
Computational Systems Biology of Alfalfa - Bacterial Blight Host-Pathogen Interactions: Uncovering the Complex Molecular Networks for Developing Durable Disease Resistant Crop. PMID:35251063
Proteomic Profiling and In Silico Characterization of the Secretome of Anisakis simplex Sensu Stricto L3 Larvae. PMID:35215189
Computational Biology and Machine Learning Approaches to Understand Mechanistic Microbiome-Host Interactions. PMID:34046017
A Molecular Interaction Map of Klebsiella pneumoniae and Its Human Host Reveals Potential Mechanisms of Host Cell Subversion. PMID:33679637
Comparative Genomics and Integrated Network Approach Unveiled Undirected Phylogeny Patterns, Co-mutational Hot Spots, Functional Cross Talk, and Regulatory Interactions in SARS-CoV-2. PMID:33622851
Internetwork connectivity of molecular networks across species of life. PMID:33441907
Elucidating potential molecular signatures through host-microbe interactions for reactive arthritis and inflammatory bowel disease using combinatorial approach. PMID:32934294
Methanobacterium formicicum as a target rumen methanogen for the development of new methane mitigation interventions: A review. PMID:32734058
MicrobioLink: An Integrated Computational Pipeline to Infer Functional Effects of Microbiome-Host Interactions. PMID:32455748
Novel Target Exploration from Hypothetical Proteins of Klebsiella pneumoniae MGH 78578 Reveals a Protein Involved in Host-Pathogen Interaction. PMID:32318354
Recent trends in molecular diagnostics of yeast infections: from PCR to NGS. PMID:31158289
MAFFT-DASH: integrated protein sequence and structural alignment. PMID:31062021
Collective influencers in protein interaction networks. PMID:30850642
Transposon mutagenesis and identification of mutated genes in growth-delayed Edwardsiella ictaluri. PMID:30849940
Interface-Based Structural Prediction of Novel Host-Pathogen Interactions. PMID:30298406
Evolution of In Silico Strategies for Protein-Protein Interaction Drug Discovery. PMID:30082644
Protein-protein interactions of human viruses. PMID:30031213
Prediction of human-Bacillus anthracis protein-protein interactions using multi-layer neural network. PMID:29945178
Beyond degree and betweenness centrality: Alternative topological measures to predict viral targets. PMID:29795705
System-wide coordinates of higher order functions in host-pathogen environment upon Mycobacterium tuberculosis infection. PMID:29567998
Development of Protein-Protein Interaction Inhibitors for the Treatment of Infectious Diseases. PMID:29459032
A Systematic In-silico Analysis of Helicobacter pylori Pathogenic Islands for Identification of Novel Drug Target Candidates. PMID:29081700
Structural host-microbiota interaction networks. PMID:29023448
Protein-Protein Interactions in Virus-Host Systems. PMID:28861068
Study of intra-inter species protein-protein interactions for potential drug targets identification and subsequent drug design for Escherichia coli O104:H4 C277-11. PMID:28401513
Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis. PMID:28376709
PCPPI: a comprehensive database for the prediction of Penicillium-crop protein-protein interactions. PMID:28365721
Comparative Genomics of the Zoonotic Pathogen Ehrlichia chaffeensis Reveals Candidate Type IV Effectors and Putative Host Cell Targets. PMID:28180111
Centrality in the host-pathogen interactome is associated with pathogen fitness during infection. PMID:28090086
Local Action with Global Impact: Highly Similar Infection Patterns of Human Viruses and Bacteriophages. PMID:27822522
A review on host-pathogen interactions: classification and prediction. PMID:27470504
HPIDB 2.0: a curated database for host-pathogen interactions. PMID:27374121
Reconstruction and Application of Protein-Protein Interaction Network. PMID:27338356
Viruses are a dominant driver of protein adaptation in mammals. PMID:27187613
Target identification in Fusobacterium nucleatum by subtractive genomics approach and enrichment analysis of host-pathogen protein-protein interactions. PMID:27176600
Editorial: Computational Systems Biology of Pathogen-Host Interactions. PMID:26870002
Uncovering New Pathogen-Host Protein-Protein Interactions by Pairwise Structure Similarity. PMID:26799490
Literature Mining and Ontology based Analysis of Host-Brucella Gene-Gene Interaction Network. PMID:26696993
Host-Microbe Protein Interactions during Bacterial Infection. PMID:26548613
Application of Functional Genomics for Bovine Respiratory Disease Diagnostics. PMID:26526746
Integrative Genomics-Based Discovery of Novel Regulators of the Innate Antiviral Response. PMID:26485378
Integrated inference and evaluation of host-fungi interaction networks. PMID:26300851
Computational analysis of protein interaction networks for infectious diseases. PMID:26261187
A review on computational systems biology of pathogen-host interactions. PMID:25914674
Prediction of host - pathogen protein interactions between Mycobacterium tuberculosis and Homo sapiens using sequence motifs. PMID:25887594
Computational approaches for prediction of pathogen-host protein-protein interactions. PMID:25759684
Computational prediction of molecular pathogen-host interactions based on dual transcriptome data. PMID:25705211
Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study. PMID:25652942
Network representations of immune system complexity. PMID:25625853
Identification of putative interactions between swine and human influenza A virus nucleoprotein and human host proteins. PMID:25547032
Diffusion of information throughout the host interactome reveals gene expression variations in network proximity to target proteins of hepatitis C virus. PMID:25461596
The Pathogen-Host Interactions database (PHI-base): additions and future developments. PMID:25414340
VirHostNet 2.0: surfing on the web of virus/host molecular interactions data. PMID:25392406
Predicting genome-scale Arabidopsis-Pseudomonas syringae interactome using domain and interolog-based approaches. PMID:25350354
Drug-Like Protein-Protein Interaction Modulators: Challenges and Opportunities for Drug Discovery and Chemical Biology. PMID:25254076
Integrating structure to protein-protein interaction networks that drive metastasis to brain and lung in breast cancer. PMID:24278371
High-throughput RNA interference screens integrative analysis: Towards a comprehensive understanding of the virus-host interplay. PMID:24175227
Computational analysis of virus-host interactomes. PMID:23996253
A systematic analysis of host factors reveals a Med23-interferon-λ regulatory axis against herpes simplex virus type 1 replication. PMID:23950709
Predicting and analyzing interactions between Mycobacterium tuberculosis and its human host. PMID:23844013
Multitask learning for host-pathogen protein interactions. PMID:23812987
Computational analysis of interactomes: current and future perspectives for bioinformatics approaches to model the host-pathogen interaction space. PMID:22750305
Infection Strategies of Bacterial and Viral Pathogens through Pathogen-Human Protein-Protein Interactions. PMID:22347880
Proceedings of the 2011 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. PMID:22165918
AgBase: supporting functional modeling in agricultural organisms. PMID:21075795
Proceedings of the 2010 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. PMID:20946592
HPIDB 2.0: a curated database for host-pathogen interactions PubMed citations: 63.

63 articles citing: HPIDB 2.0: a curated database for host-pathogen interactions

Deep learning frameworks for protein-protein interaction prediction. PMID:35832624
TritiKBdb: A Functional Annotation Resource for Deciphering the Complete Interaction Networks in Wheat-Karnal Bunt Pathosystem. PMID:35806459
LGCA-VHPPI: A local-global residue context aware viral-host protein-protein interaction predictor. PMID:35789333
PHILM2Web: A high-throughput database of macromolecular host-pathogen interactions on the Web. PMID:35776535
WeCoNET: a host-pathogen interactome database for deciphering crucial molecular networks of wheat-common bunt cross-talk mechanisms. PMID:35658913
Proteome-wide prediction and analysis of the Cryptosporidium parvum protein-protein interaction network through integrative methods. PMID:35615014
A Review and Meta-Analysis of Influenza Interactome Studies. PMID:35531276
Deep Learning-Powered Prediction of Human-Virus Protein-Protein Interactions. PMID:35495666
ImitateDB: A database for domain and motif mimicry incorporating host and pathogen protein interactions. PMID:35487995
Tandem Mass Tagging (TMT) Reveals Tissue-Specific Proteome of L4 Larvae of Anisakis simplex s. s.: Enzymes of Energy and/or Carbohydrate Metabolism as Potential Drug Targets in Anisakiasis. PMID:35457153
Investigation and Functional Enrichment Analysis of the Human Host Interaction Network with Common Gram-Negative Respiratory Pathogens Predicts Possible Association with Lung Adenocarcinoma. PMID:35366267
Identification of the Genes of the Plant Pathogen Pseudomonas syringae MB03 Required for the Nematicidal Activity Against Caenorhabditis elegans Through an Integrated Approach. PMID:35356513
Predicting protein-protein interactions between banana and Fusarium oxysporum f. sp. cubense race 4 integrating sequence and domain homologous alignment and neural network verification. PMID:35351140
Host-microbiome protein-protein interactions capture disease-relevant pathways. PMID:35246229
Proteomic Profiling and In Silico Characterization of the Secretome of Anisakis simplex Sensu Stricto L3 Larvae. PMID:35215189
The Landscape of Aminoacyl-tRNA Synthetases Involved in Severe Acute Respiratory Syndrome Coronavirus 2 Infection. PMID:35153822
Network analysis of host-pathogen protein interactions in microbe induced cardiovascular diseases. PMID:35001887
Protein-protein interactions: Methods, databases, and applications in virus-host study. PMID:34909403
Machine learning based predictive model and systems-level network of host-microbe interactions in post-COVID-19 mucormycosis. PMID:34861346
A multitask transfer learning framework for the prediction of virus-human protein-protein interactions. PMID:34837942
Artificial intelligence for the discovery of novel antimicrobial agents for emerging infectious diseases. PMID:34748992
An Ebola, Neisseria and Trypanosoma human protein interaction census reveals a conserved human protein cluster targeted by various human pathogens. PMID:34745452
Comparative Host-Pathogen Interaction Analyses of SARS-CoV2 and Aspergillus fumigatus, and Pathogenesis of COVID-19-Associated Aspergillosis. PMID:34738157
Aspergillus fumigatus versus Genus Aspergillus: Conservation, Adaptive Evolution and Specific Virulence Genes. PMID:34683335
Interactome of human and SARS-CoV-2 proteins to identify human hub proteins associated with comorbidities. PMID:34655901
GreeningDB: A Database of Host-Pathogen Protein-Protein Interactions and Annotation Features of the Bacteria Causing Huanglongbing HLB Disease. PMID:34639237
Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review. PMID:34439912
Predicting Protein-Protein Interactions Between Rice and Blast Fungus Using Structure-Based Approaches. PMID:34367213
alfaNET: A Database of Alfalfa-Bacterial Stem Blight Protein-Protein Interactions Revealing the Molecular Features of the Disease-causing Bacteria. PMID:34361108
Transfer learning via multi-scale convolutional neural layers for human-virus protein-protein interaction prediction. PMID:34273146
Identification of viral-mediated pathogenic mechanisms in neurodegenerative diseases using network-based approaches. PMID:34237135
LSTM-PHV: prediction of human-virus protein-protein interactions by LSTM with word2vec. PMID:34160596
mPPI: a database extension to visualize structural interactome in a one-to-many manner. PMID:34156447
Designing of Potential Polyvalent Vaccine Model for Respiratory Syncytial Virus by System Level Immunoinformatics Approaches. PMID:34136576
Structural Profiling of Bacterial Effectors Reveals Enrichment of Host-Interacting Domains and Motifs. PMID:34012977
Interactions of HIV-1 Capsid with Host Factors and Their Implications for Developing Novel Therapeutics. PMID:33807824
DeepViral: prediction of novel virus-host interactions from protein sequences and infectious disease phenotypes. PMID:33682875
Comparative Genomics and Integrated Network Approach Unveiled Undirected Phylogeny Patterns, Co-mutational Hot Spots, Functional Cross Talk, and Regulatory Interactions in SARS-CoV-2. PMID:33622851
Data science in unveiling COVID-19 pathogenesis and diagnosis: evolutionary origin to drug repurposing. PMID:33592108
Internetwork connectivity of molecular networks across species of life. PMID:33441907
Elucidating the network features and evolutionary attributes of intra- and interspecific protein-protein interactions between human and pathogenic bacteria. PMID:33420198
Towards a unified open access dataset of molecular interactions. PMID:33262342
Human Gene Functional Network-Informed Prediction of HIV-1 Host Dependency Factors. PMID:33144314
Network-Based Analysis of OMICs Data to Understand the HIV-Host Interaction. PMID:32625189
Medicinal chemistry strategies toward host targeting antiviral agents. PMID:32060956
A Bipartite Network Module-Based Project to Predict Pathogen-Host Association. PMID:32038713
Prediction of human-virus protein-protein interactions through a sequence embedding-based machine learning method. PMID:31969974
Genome Investigation of a Cariogenic Pathogen with Implications in Cardiovascular Diseases. PMID:31762508
Ontology based mining of pathogen-disease associations from literature. PMID:31533864
Recent trends in molecular diagnostics of yeast infections: from PCR to NGS. PMID:31158289
Understanding Human-Virus Protein-Protein Interactions Using a Human Protein Complex-Based Analysis Framework. PMID:30984872
MorCVD: A Unified Database for Host-Pathogen Protein-Protein Interactions of Cardiovascular Diseases Related to Microbes. PMID:30858555
Convergent perturbation of the human domain-resolved interactome by viruses and mutations inducing similar disease phenotypes. PMID:30759076
Inferring pathogen-host interactions between Leptospira interrogans and Homo sapiens using network theory. PMID:30723266
Comparative Genomics of Aeromonas hydrophila Secretion Systems and Mutational Analysis of hcp1 and vgrG1 Genes From T6SS. PMID:30687246
Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. PMID:30602777
STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. PMID:30476243
Viruses.STRING: A Virus-Host Protein-Protein Interaction Database. PMID:30249048
Evolution of In Silico Strategies for Protein-Protein Interaction Drug Discovery. PMID:30082644
The Psychiatric Cell Map Initiative: A Convergent Systems Biological Approach to Illuminating Key Molecular Pathways in Neuropsychiatric Disorders. PMID:30053424
Leveraging Experimental Details for an Improved Understanding of Host-Pathogen Interactome. PMID:30040202
Protein-Protein Interactions in Virus-Host Systems. PMID:28861068
Limitations of a metabolic network-based reverse ecology method for inferring host-pathogen interactions. PMID:28545448

Tags:

Tags
More detailed information about this field from each metasource.

host
metasource: Fairsharing.org
version: FAIRsharing.org: HPIDB; Host Pathogen Interaction Database; DOI: https://doi.org/10.25504/FAIRsharing.fk0z49; Last edited: July 2, 2019, 12:01 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

pathogen
metasource: Fairsharing.org
version: FAIRsharing.org: HPIDB; Host Pathogen Interaction Database; DOI: https://doi.org/10.25504/FAIRsharing.fk0z49; Last edited: July 2, 2019, 12:01 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

metasource: re3data.org
version: re3data.org: Host - Pathogen Interaction Database; editing status 2021-02-26; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3D198 last accessed: 2022-11-04

protein interaction
metasource: Fairsharing.org
version: FAIRsharing.org: HPIDB; Host Pathogen Interaction Database; DOI: https://doi.org/10.25504/FAIRsharing.fk0z49; Last edited: July 2, 2019, 12:01 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

infectious desease
metasource: re3data.org
version: re3data.org: Host - Pathogen Interaction Database; editing status 2021-02-26; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3D198 last accessed: 2022-11-04

protein interactions
metasource: re3data.org
version: re3data.org: Host - Pathogen Interaction Database; editing status 2021-02-26; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3D198 last accessed: 2022-11-04

host pathogen protein interaction infectious desease protein interaction

More to explore:

1/20

Previous Next

Need help integrating and/or managing biomedical data?

Webpage:

Licence:

More to explore:

1/20

Host Pathogen Interactions Ontology

Ontology of Host-Pathogen Interactions

PIG - Pathogen Interaction Gateway

HoPaCI-DB

Pathogen-Host Interaction Data integration and Analysis System

DualSeqDB

GreeningDB

HPID - Human Protein Interaction database

Pathogen Host Interaction Phenotype Ontology

Molecular INTeraction database

ImitateDB

PHILM2Web

Microbial Protein Interaction Database

Eukaryotic Pathogen, Vector and Host Informatics Resource

Pathogen Portal

Virus Pathogen Database and Analysis Resource

Bacterial Protein Interaction Database

Interologous Interaction Database

Pathogen Host Interactions

IntAct molecular interaction database