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References from Bioinformatics approaches for unveiling virus-host interactions. Local targets link to admitted publications; unresolved targets remain external evidence.
10.1038/s41591-021-01282-0
10.1038/s41591-021-01282-0 · External reference
10.1016/j.jconrel.2022.01.046
10.1016/j.jconrel.2022.01.046 · External reference
10.1038/s41586-020-2012-7
10.1038/s41586-020-2012-7 · External reference
10.1038/s41422-020-0364-z
10.1038/s41422-020-0364-z · External reference
10.1126/science.abb7015
10.1126/science.abb7015 · External reference
10.1038/s41586-020-2169-0
10.1038/s41586-020-2169-0 · External reference
10.1038/s41564-021-00999-5
10.1038/s41564-021-00999-5 · External reference
10.1016/j.tibs.2010.10.002
10.1016/j.tibs.2010.10.002 · External reference
10.1073/pnas.1101440108
10.1073/pnas.1101440108 · External reference
10.1371/journal.ppat.1003778
10.1371/journal.ppat.1003778 · External reference
10.1016/j.cell.2019.08.005
10.1016/j.cell.2019.08.005 · External reference
10.1371/journal.pcbi.1008890
10.1371/journal.pcbi.1008890 · External reference
Protein interaction landscapes revealed by advanced in vivo cross-linking-mass spectrometry
10.1073/pnas.2023360118 · 2021 · External reference
10.1038/s41596-020-0365-x
10.1038/s41596-020-0365-x · External reference
A comprehensive SARS-CoV-2-human protein-protein interactome reveals COVID-19 pathobiology and potential host therapeutic targets
2022 · External reference
Unresolved reference
2020 · External reference
A proteome-scale map of the SARS-CoV-2-human contactome
2022 · External reference
The IntAct database: efficient access to fine-grained molecular interaction data
10.1093/nar/gkab1006 · 2022 · External reference
VirusMentha: a new resource for virus-host protein interactions
10.1093/nar/gku830 · 2015 · External reference
VirusMINT: a viral protein interaction database
10.1093/nar/gkn739 · 2009 · External reference
HPIDB 2.0: a curated database for host-pathogen interactions
2016 · External reference
Unresolved reference
2020 · External reference
The intricacy of the viral-human protein interaction networks: Resources, data, and analyses
10.3389/fmicb.2022.849781 · 2022 · External reference
The extent of codon usage bias in human RNA viruses and its evolutionary origin
10.1016/s0168-1702(02)00309-x · 2003 · External reference
10.1038/nature24039
10.1038/nature24039 · External reference
10.1371/journal.pone.0015674
10.1371/journal.pone.0015674 · External reference
10.3390/v13050800
10.3390/v13050800 · External reference
10.1126/science.aap9072
10.1126/science.aap9072 · External reference
10.1093/nar/gkw1002
10.1093/nar/gkw1002 · External reference
Alignment-free sequence comparison (i): statistics and power
10.1089/cmb.2009.0198 · 2009 · External reference
WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs
2017 · External reference
Predicting the host of influenza viruses based on the word vector
10.7717/peerj.3579 · 2017 · External reference
Unresolved reference
External reference
10.1073/pnas.0911915106
10.1073/pnas.0911915106 · External reference
VIDHOP, viral host prediction with deep learning
2021 · External reference
10.1038/ncomms5498
10.1038/ncomms5498 · External reference
Computational prediction of inter-species relationships through omics data analysis and machine learning
10.1186/s12859-018-2388-7 · 2018 · External reference
Predicting bacteriophage hosts based on sequences of annotated receptor-binding proteins
10.1038/s41598-021-81063-4 · 2021 · External reference
ML-AdVInfect: A Machine-Learning Based Adenoviral Infection Predictor
10.3389/fmolb.2021.647424 · 2021 · External reference
Degenerate target sites mediate rapid primed CRISPR adaptation
10.1073/pnas.1400071111 · 2014 · External reference
10.1093/nar/gkab133
10.1093/nar/gkab133 · External reference
CRISPRDetect: A flexible algorithm to define CRISPR arrays
10.1186/s12864-016-2627-0 · 2016 · External reference
10.1002/prot.22458
10.1002/prot.22458 · External reference
10.1038/s41586-021-03819-2
10.1038/s41586-021-03819-2 · External reference
10.1126/science.abj8754
10.1126/science.abj8754 · External reference
10.1038/s41587-022-01432-w
10.1038/s41587-022-01432-w · External reference
10.1016/j.csbj.2019.12.005
10.1016/j.csbj.2019.12.005 · External reference
10.1016/j.csbj.2021.05.039 · Admitted local publication
A multitask transfer learning framework for the prediction of virus-human protein-protein interactions
10.1186/s12859-021-04484-y · 2021 · External reference
10.1038/s41592-019-0598-1
10.1038/s41592-019-0598-1 · External reference
The future of zoonotic risk prediction
2021 · External reference
10.1371/journal.pbio.3001135
10.1371/journal.pbio.3001135 · External reference
10.1038/s41467-022-29268-7
10.1038/s41467-022-29268-7 · External reference
10.1016/j.csbj.2022.06.025
10.1016/j.csbj.2022.06.025 · External reference
Negatome 2.0: a database of non-interacting proteins derived by literature mining, manual annotation and protein structure analysis
10.1093/nar/gkt1079 · 2014 · External reference
Towards a unified open access dataset of molecular interactions
10.1038/s41467-020-19942-z · 2020 · External reference
Unresolved reference
2017 · External reference
Positive-unlabeled learning in bioinformatics and computational biology: a brief review
10.1093/bib/bbab461 · 2022 · External reference
10.1126/science.abj6987
10.1126/science.abj6987 · External reference
10.1038/s41592-019-0437-4
10.1038/s41592-019-0437-4 · External reference
MGnify: the microbiome analysis resource in 2020
2020 · External reference
Protein Data Bank: the single global archive for 3D macromolecular structure data
10.1093/nar/gky949 · 2019 · External reference
10.1038/s41467-022-28865-w
10.1038/s41467-022-28865-w · External reference
10.1146/annurev-virology-100114-055218
10.1146/annurev-virology-100114-055218 · External reference
10.1016/j.cell.2020.04.011
10.1016/j.cell.2020.04.011 · External reference
SARS-CoV-2 expresses a microRNA-like small RNA able to selectively repress host genes
10.1073/pnas.2116668118 · 2021 · External reference
10.1038/s41564-020-00846-z
10.1038/s41564-020-00846-z · External reference
10.1016/j.molcel.2021.05.023
10.1016/j.molcel.2021.05.023 · External reference
10.1016/j.cell.2021.03.012
10.1016/j.cell.2021.03.012 · External reference
10.1093/nar/gkaa864
10.1093/nar/gkaa864 · External reference
Unresolved reference
2022 · External reference
10.1093/bioinformatics/btp003
10.1093/bioinformatics/btp003 · External reference
Predicting host tropism of influenza A virus proteins using random forest
10.1186/1755-8794-7-s3-s1 · 2014 · External reference
10.1093/nar/gku1207
10.1093/nar/gku1207 · External reference
The European Nucleotide Archive in 2020
10.1093/nar/gkaa1028 · 2021 · External reference
HostPhinder: A Phage Host Prediction Tool
10.3390/v8050116 · 2016 · External reference
Predicting Zoonotic Risk of Influenza A Viruses from Host Tropism Protein Signature Using Random Forest
10.3390/ijms18061135 · 2017 · External reference
10.1093/bioinformatics/btw711
10.1093/bioinformatics/btw711 · External reference
10.1093/nar/gkx1094
10.1093/nar/gkx1094 · External reference
Comparative studies of alignment, alignment-free and SVM based approaches for predicting the hosts of viruses based on viral sequences
10.1038/s41598-018-28308-x · 2018 · External reference
10.1038/nature22975
10.1038/nature22975 · External reference
Database resources of the national center for biotechnology information
10.1093/nar/gkw1071 · 2017 · External reference
Host taxon predictor - a tool for predicting taxon of the host of a newly discovered virus
10.1038/s41598-019-39847-2 · 2019 · External reference
10.3390/v8030066
10.3390/v8030066 · External reference
Unresolved reference
External reference
Predicting virus-host association by Kernelized logistic matrix factorization and similarity network fusion
10.1186/s12859-019-3082-0 · 2019 · External reference
10.1111/tbed.13314
10.1111/tbed.13314 · External reference
VHost-Classifier: virus-host classification using natural language processing
2019 · External reference
10.1016/j.compbiolchem.2018.11.029
10.1016/j.compbiolchem.2018.11.029 · External reference
A network-based integrated framework for predicting virus-prokaryote interactions
10.1093/nargab/lqaa044 · 2020 · External reference
Machine learning methods accurately predict host specificity of coronaviruses based on spike sequences alone
10.1016/j.bbrc.2020.09.010 · 2020 · External reference
10.1371/journal.pcbi.1007894
10.1371/journal.pcbi.1007894 · External reference
A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction
10.1109/tcbb.2020.3017386 · 2021 · External reference
10.1093/nar/gkaa1100
10.1093/nar/gkaa1100 · External reference
10.1016/j.patter.2021.100274
10.1016/j.patter.2021.100274 · External reference
10.1093/nar/gky448
10.1093/nar/gky448 · External reference
Sensitive identification of phages from CRISPR spacers in prokaryotic hosts
2021 · External reference
10.1093/femsre/fuv048
10.1093/femsre/fuv048 · External reference
Taxonomy-aware, sequence similarity ranking reliably predicts phage-host relationships
10.1186/s12915-021-01146-6 · 2021 · External reference
Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV)
10.1093/nar/gkx932 · 2018 · External reference
Prokaryotic virus host predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics
10.1186/s12915-020-00938-6 · 2021 · External reference
Database of host-pathogen and related species interactions, and their global distribution
10.1038/sdata.2015.49 · 2015 · External reference
Divide-and-conquer: machine-learning integrates mammalian and viral traits with network features to predict virus-mammal associations
10.1038/s41467-021-24085-w · 2021 · External reference
Interpretable detection of novel human viruses from genome sequencing data
10.1093/nargab/lqab004 · 2021 · External reference
10.1371/journal.ppat.1009149
10.1371/journal.ppat.1009149 · External reference
10.1016/j.jbi.2021.103736
10.1016/j.jbi.2021.103736 · External reference
10.1093/nar/gkr859
10.1093/nar/gkr859 · External reference
10.1111/j.1750-2659.2011.00331.x
10.1111/j.1750-2659.2011.00331.x · External reference
Epidemiological characteristics of human-infective RNA viruses
10.1038/sdata.2018.17 · 2018 · External reference
10.1073/pnas.1919176117
10.1073/pnas.1919176117 · External reference
10.1371/journal.pbio.3001390
10.1371/journal.pbio.3001390 · External reference
VPF-Class: Taxonomic assignment and host prediction of uncultivated viruses based on viral protein families
2021 · External reference
10.1016/j.meegid.2011.02.022
10.1016/j.meegid.2011.02.022 · External reference
Prediction of protein-protein interactions between viruses and human by an SVM model
10.1186/1471-2105-13-s7-s5 · 2012 · External reference
Predicting protein-protein interactions between human and hepatitis C virus via an ensemble learning method
10.1039/c4mb00410h · 2014 · External reference
10.1371/journal.pone.0112034
10.1371/journal.pone.0112034 · External reference
A novel one-class SVM based negative data sampling method for reconstructing proteome-wide HTLV-human protein interaction networks
10.1038/srep08034 · 2015 · External reference
DeNovo: virus-host sequence-based protein-protein interaction prediction
2016 · External reference
based approach for integrating multiple data sources to predict HIV-1-human PPIs
10.1186/s12859-016-0952-6 · 2016 · External reference
An improved method for predicting interactions between virus and human proteins
10.1142/s0219720016500244 · 2017 · External reference
Computational prediction of virus-human protein-protein interactions using embedding kernelized heterogeneous data
10.1039/c6mb00065g · 2016 · External reference
Training host-pathogen protein-protein interaction predictors
10.1142/s0219720018500142 · 2018 · External reference
A generalized approach to predicting protein-protein interactions between virus and host
10.1186/s12864-018-4924-2 · 2018 · External reference
Predicting interactions between virus and host proteins using repeat patterns and composition of amino acids
2018 · External reference
Machine learning techniques for sequence-based prediction of viral-host interactions between SARS-CoV-2 and human proteins
10.1016/j.bj.2020.08.003 · 2020 · External reference
10.1007/s12250-020-00259-6
10.1007/s12250-020-00259-6 · External reference
10.1016/j.jmb.2020.01.025
10.1016/j.jmb.2020.01.025 · External reference
10.1093/bioinformatics/btaa879
10.1093/bioinformatics/btaa879 · External reference
DeepViral: prediction of novel virus-host interactions from protein sequences and infectious disease phenotypes
2021 · External reference
Transfer learning via multi-scale convolutional neural layers for human-virus protein-protein interaction prediction
2021 · External reference
Graph convolutional network based virus-human protein-protein interaction prediction for novel viruses
10.1016/j.compbiolchem.2022.107755 · 2022 · External reference