Cargando…

TransformerGO: predicting protein–protein interactions by modelling the attention between sets of gene ontology terms

MOTIVATION: Protein–protein interactions (PPIs) play a key role in diverse biological processes but only a small subset of the interactions has been experimentally identified. Additionally, high-throughput experimental techniques that detect PPIs are known to suffer various limitations, such as exag...

Descripción completa

Detalles Bibliográficos
Autores principales:	Ieremie, Ioan, Ewing, Rob M, Niranjan, Mahesan
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2022
Materias:	Original Papers
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9363134/ https://www.ncbi.nlm.nih.gov/pubmed/35176146 http://dx.doi.org/10.1093/bioinformatics/btac104

Ejemplares similares

PoGO: Prediction of Gene Ontology terms for fungal proteins
por: Jung, Jaehee, et al.
Publicado: (2010)

An evaluation of different classification algorithms for protein sequence-based reverse vaccinology prediction
por: Heinson, Ashley I., et al.
Publicado: (2019)

HPO2GO: prediction of human phenotype ontology term associations for proteins using cross ontology annotation co-occurrences
por: Doğan, Tunca
Publicado: (2018)

Ontological visualization of protein-protein interactions
por: Drabkin, Harold J, et al.
Publicado: (2005)

PFresGO: an attention mechanism-based deep-learning approach for protein annotation by integrating gene ontology inter-relationships
por: Pan, Tong, et al.
Publicado: (2023)

ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization
por: Huang, Wen-Lin, et al.
Publicado: (2008)

Summary Visualizations of Gene Ontology Terms With GO-Figure!
por: Reijnders, Maarten J. M. F., et al.
Publicado: (2021)

DeepGO: predicting protein functions from sequence and interactions using a deep ontology-aware classifier
por: Kulmanov, Maxat, et al.
Publicado: (2018)

The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks
por: Hsing, Michael, et al.
Publicado: (2008)

PFP-GO: Integrating protein sequence, domain and protein-protein interaction information for protein function prediction using ranked GO terms
por: Sengupta, Kaustav, et al.
Publicado: (2022)

GO2Vec: transforming GO terms and proteins to vector representations via graph embeddings
por: Zhong, Xiaoshi, et al.
Publicado: (2020)

Developing a Protein-Interactions Ontology
por: Ratsch, Esther, et al.
Publicado: (2003)

Graph embeddings on gene ontology annotations for protein–protein interaction prediction
por: Zhong, Xiaoshi, et al.
Publicado: (2020)

An ontology-based search engine for protein-protein interactions
por: Park, Byungkyu, et al.
Publicado: (2010)

Revealing protein functions based on relationships of interacting proteins and GO terms
por: Teng, Zhixia, et al.
Publicado: (2017)

BayGO: Bayesian analysis of ontology term enrichment in microarray data
por: Vêncio, Ricardo ZN, et al.
Publicado: (2006)

CirGO: an alternative circular way of visualising gene ontology terms
por: Kuznetsova, Irina, et al.
Publicado: (2019)

The Gene Ontology (GO) project in 2006
Publicado: (2006)

Gene Ontology Consortium: going forward
Publicado: (2014)

The protein-protein interaction ontology: for better representing and capturing the biological context of protein interaction
por: Li, Mansheng, et al.
Publicado: (2021)

Ontology integration to identify protein complex in protein interaction networks
por: Xu, Bo, et al.
Publicado: (2011)

Ontology quality assurance through analysis of term transformations
por: Verspoor, Karin, et al.
Publicado: (2009)

Using indirect protein interactions for the prediction of Gene Ontology functions
por: Chua, Hon Nian, et al.
Publicado: (2007)

goSTAG: gene ontology subtrees to tag and annotate genes within a set
por: Bennett, Brian D., et al.
Publicado: (2017)

Automated exploration of gene ontology term and pathway networks with ClueGO-REST
por: Mlecnik, Bernhard, et al.
Publicado: (2019)

Prediction of yeast protein–protein interaction network: insights from the Gene Ontology and annotations
por: Wu, Xiaomei, et al.
Publicado: (2006)

False positive reduction in protein-protein interaction predictions using gene ontology annotations
por: Mahdavi, Mahmoud A, et al.
Publicado: (2007)

Predicting gene ontology annotations of orphan GWAS genes using protein-protein interactions
por: Kuppuswamy, Usha, et al.
Publicado: (2014)

Protein-Protein Interactions Prediction Based on Iterative Clique Extension with Gene Ontology Filtering
por: Yang, Lei, et al.
Publicado: (2014)

HybridGO-Loc: Mining Hybrid Features on Gene Ontology for Predicting Subcellular Localization of Multi-Location Proteins
por: Wan, Shibiao, et al.
Publicado: (2014)

The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments
por: Roncaglia, Paola, et al.
Publicado: (2013)

InfersentPPI: Prediction of Protein-Protein Interaction Using Protein Sentence Embedding With Gene Ontology Information
por: Li, Meijing, et al.
Publicado: (2022)

GOProFormer: A Multi-Modal Transformer Method for Gene Ontology Protein Function Prediction
por: Kabir, Anowarul, et al.
Publicado: (2022)

GO2PUB: Querying PubMed with semantic expansion of gene ontology terms
por: Bettembourg, Charles, et al.
Publicado: (2012)

HNetGO: protein function prediction via heterogeneous network transformer
por: Zhang, Xiaoshuai, et al.
Publicado: (2023)

A Novel Network-Based Algorithm for Predicting Protein-Protein Interactions Using Gene Ontology
por: Hu, Lun, et al.
Publicado: (2021)

Prediction of anti-microtubular target proteins of tubulins and their interacting proteins using Gene Ontology tools
por: Ramesh Babu, Polani B.
Publicado: (2023)

CELLO2GO: A Web Server for Protein subCELlular LOcalization Prediction with Functional Gene Ontology Annotation
por: Yu, Chin-Sheng, et al.
Publicado: (2014)

Co-complex protein membership evaluation using Maximum Entropy on GO ontology and InterPro annotation
por: Armean, Irina M, et al.
Publicado: (2018)

Automatic annotation of protein motif function with Gene Ontology terms
por: Lu, Xinghua, et al.
Publicado: (2004)

Cannot write session to /tmp/vufind_sessions/sess_rgu1ump1n6mf2lh1dsf2qf8hdr