Research graph
References from SpatialPPI: Three-dimensional space protein-protein interaction prediction with AlphaFold Multimer. Local targets link to admitted publications; unresolved targets remain external evidence.
Benchmark evaluation of protein–protein interaction prediction algorithms
10.3390/molecules27010041 · 2021 · External reference
LSTM-PHV: prediction of human-virus protein–protein interactions by LSTM with word2vec.
10.1093/bib/bbab228 · 2021 · External reference
Sequence-based prediction of protein protein interaction using a deep-learning algorithm
2017 · External reference
10.1109/iciibms.2017.8279749
10.1109/iciibms.2017.8279749 · External reference
Prism: a web server and repository for prediction of protein–protein interactions and modeling their 3D complexes.
10.1093/nar/gku397 · 2014 · External reference
Struct2Graph: a graph attention network for structure based predictions of protein–protein interactions.
10.1186/s12859-022-04910-9 · 2022 · External reference
Homology-based prediction of interactions between proteins using averaged one-dependence estimators
10.1186/1471-2105-15-213 · 2014 · External reference
PPISearch: a web server for searching homologous protein–protein interactions across multiple species.
2009 · External reference
10.1093/bioinformatics/bty573
10.1093/bioinformatics/bty573 · External reference
An integration of deep learning with feature embedding for protein–protein interaction prediction.
2019 · External reference
10.1093/bioinformatics/btz328
10.1093/bioinformatics/btz328 · External reference
10.3390/molecules23081923
10.3390/molecules23081923 · External reference
10.1016/j.cels.2021.08.010
10.1016/j.cels.2021.08.010 · External reference
DeepTrio: a ternary prediction system for protein–protein interaction using mask multiple parallel convolutional neural networks
10.1093/bioinformatics/btab737 · 2021 · External reference
PEPPI: whole-proteome protein-protein interaction prediction through structure and sequence similarity, functional association, and machine learning
10.1016/j.jmb.2022.167530 · 2022 · External reference
Scikit-learn: machine learning in python
2011 · External reference
10.1021/ci300579r
10.1021/ci300579r · External reference
10.1016/s0022-2836(05)80360-2
10.1016/s0022-2836(05)80360-2 · External reference
10.1016/j.str.2013.08.007
10.1016/j.str.2013.08.007 · External reference
Announcing the worldwide Protein Data Bank
10.1038/nsb1203-980 · 2003 · External reference
Uniprot: the universal protein knowledgebase in 2023
2022 · External reference
10.1016/j.csbj.2022.08.070
10.1016/j.csbj.2022.08.070 · External reference
Templates are available to model nearly all complexes of structurally characterized proteins
10.1073/pnas.1200678109 · 2012 · External reference
Deciphering protein–protein interactions. part II. computational methods to predict protein and domain interaction partners.
10.1371/journal.pcbi.0030043 · 2007 · External reference
bioRxiv preprint
2021 · External reference
Improved prediction of protein-protein interactions using AlphaFold2
2022 · External reference
10.1038/s41586-021-03819-2
10.1038/s41586-021-03819-2 · External reference
10.1101/2023.04.15.536993
10.1101/2023.04.15.536993 · External reference
Improved protein–ligand binding affinity prediction with structure-based deep fusion inference
10.1021/acs.jcim.0c01306 · 2021 · External reference
One network to segment them all: a general, lightweight system for accurate 3D medical image segmentation
2019 · External reference
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10.1109/cvpr.2018.00675
10.1109/cvpr.2018.00675 · External reference
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10.1109/cvpr.2017.243
10.1109/cvpr.2017.243 · External reference
10.1109/cvpr.2016.90
10.1109/cvpr.2016.90 · External reference
10.1109/cvpr.2019.00065
10.1109/cvpr.2019.00065 · External reference
10.1109/cvpr.2018.00291
10.1109/cvpr.2018.00291 · External reference
MARPPI: boosting prediction of protein–protein interactions with multi-scale architecture residual network.
2022 · External reference
A web-based protocol for Interprotein contact prediction by Deep Learning
2019 · External reference
10.1093/nar/gkj109
10.1093/nar/gkj109 · External reference
Improved prediction of protein–protein interactions using novel negative samples, features, and an ensemble classifier.
10.1016/j.artmed.2017.03.001 · 2017 · 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 · 2013 · External reference
10.1038/s41586-019-1923-7
10.1038/s41586-019-1923-7 · External reference
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10.1093/bioinformatics/btm098
10.1093/bioinformatics/btm098 · External reference
10.1093/nar/gkac1052
10.1093/nar/gkac1052 · External reference
MGnify: the microbiome sequence data analysis resource in 2023
10.1093/nar/gkac1080 · 2022 · External reference
10.1038/s41592-019-0437-4
10.1038/s41592-019-0437-4 · External reference
10.1038/s41467-018-04964-5
10.1038/s41467-018-04964-5 · External reference
10.1038/s41586-021-03828-1
10.1038/s41586-021-03828-1 · External reference
10.1038/nmeth.1818
10.1038/nmeth.1818 · External reference
Amalgamation of 3D structure and sequence information for protein–protein interaction prediction.
2020 · External reference
Structural landscapes of PPI interfaces
10.1093/bib/bbac165 · 2022 · External reference
D2P2: database of disordered protein predictions
10.1093/nar/gks1226 · 2012 · External reference
10.1016/s0968-0004(02)02169-2
10.1016/s0968-0004(02)02169-2 · External reference
Protein residue contacts and prediction methods
10.1007/978-1-4939-3572-7_24 · 2016 · External reference
10.1063/1.1725697
10.1063/1.1725697 · External reference
10.1021/acs.chemrev.1c00757
10.1021/acs.chemrev.1c00757 · External reference
10.1109/cvpr.2018.00961
10.1109/cvpr.2018.00961 · External reference
10.1007/bf02193624
10.1007/bf02193624 · External reference
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Fast and sensitive taxonomic assignment to metagenomic contigs
10.1093/bioinformatics/btab184 · 2021 · External reference
10.1021/acs.jctc.7b00125
10.1021/acs.jctc.7b00125 · External reference
Topsy-Turvy: integrating a global view into sequence-based PPI prediction
10.1093/bioinformatics/btac258 · 2022 · External reference
Unresolved reference
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10.1016/s0166-218x(97)81456-4
10.1016/s0166-218x(97)81456-4 · External reference
