Cargando…

The protein-protein interaction ontology: for better representing and capturing the biological context of protein interaction

BACKGROUND: With the rapid increase in the amount of Protein-Protein Interaction (PPI) data, the establishment of an event-centered PPI ontology that contains temporal and spatial vocabularies is urgently needed to clarify PPI biological annotations. In this paper, we propose a precisely designed sc...

Descripción completa

Detalles Bibliográficos
Autores principales:	Li, Mansheng, He, Qiang, Yang, Chunyuan, Ma, Jie, He, Fuchu, Chen, Tao, Zhu, Yunping
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2021
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8596923/ https://www.ncbi.nlm.nih.gov/pubmed/34789143 http://dx.doi.org/10.1186/s12864-021-07827-4

Ejemplares similares

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

Evidence for the additions of clustered interacting nodes during the evolution of protein interaction networks from network motifs
por: Liu, Zhongyang, et al.
Publicado: (2011)

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

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

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

MoGCN: A Multi-Omics Integration Method Based on Graph Convolutional Network for Cancer Subtype Analysis
por: Li, Xiao, et al.
Publicado: (2022)

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

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

Identification of protein–protein interaction associated functions based on gene ontology and KEGG pathway
por: Yang, Lili, et al.
Publicado: (2022)

The Interaction Network Ontology-supported modeling and mining of complex interactions represented with multiple keywords in biomedical literature
por: Özgür, Arzucan, et al.
Publicado: (2016)

A miniaturized sandwich immunoassay platform for the detection of protein-protein interactions
por: Liu, Qiongming, et al.
Publicado: (2010)

On the specificity of protein–protein interactions in the context of disorder
por: Teilum, Kaare, et al.
Publicado: (2021)

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

iProX in 2021: connecting proteomics data sharing with big data
por: Chen, Tao, et al.
Publicado: (2021)

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)

Annotating activation/inhibition relationships to protein-protein interactions using gene ontology relations
por: Yim, Soorin, et al.
Publicado: (2018)

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

Adding Protein Context to the Human Protein-Protein Interaction Network to Reveal Meaningful Interactions
por: Schaefer, Martin H., et al.
Publicado: (2013)

Capturing RNA–protein interaction via CRUIS
por: Zhang, Ziheng, et al.
Publicado: (2020)

Filtering Gene Ontology semantic similarity for identifying protein complexes in large protein interaction networks
por: Wang, Jian, et al.
Publicado: (2012)

An improved method for scoring protein-protein interactions using semantic similarity within the gene ontology
por: Jain, Shobhit, et al.
Publicado: (2010)

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)

Protein–protein interaction specificity is captured by contact preferences and interface composition
por: Nadalin, Francesca, et al.
Publicado: (2018)

Host-microbiome protein-protein interactions capture disease-relevant pathways
por: Zhou, Hao, et al.
Publicado: (2022)

RNA‐protein interactions in an unstructured context
por: Zagrovic, Bojan, et al.
Publicado: (2018)

Electrostatics tunes protein interactions to context
por: Fuxreiter, Monika
Publicado: (2022)

SigFlux: A novel network feature to evaluate the importance of proteins in signal transduction networks
por: Liu, Wei, et al.
Publicado: (2006)

PANDA: A comprehensive and flexible tool for quantitative proteomics data analysis
por: Chang, Cheng, et al.
Publicado: (2019)

An anatomy ontology to represent biological knowledge in Dictyostelium discoideum
por: Gaudet, Pascale, et al.
Publicado: (2008)

Advances in the Study of SR Protein Family
por: Ma, Xiaoyun, et al.
Publicado: (2003)

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

Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression
por: De Bodt, Stefanie, et al.
Publicado: (2009)

How to link ontologies and protein–protein interactions to literature: text-mining approaches and the BioCreative experience
por: Krallinger, Martin, et al.
Publicado: (2012)

TransformerGO: predicting protein–protein interactions by modelling the attention between sets of gene ontology terms
por: Ieremie, Ioan, et al.
Publicado: (2022)

Novel Protein-Protein Interactions Inferred from Literature Context
por: van Haagen, Herman H. H. B. M., et al.
Publicado: (2009)

Representing virus-host interactions and other multi-organism processes in the Gene Ontology
por: Foulger, R. E., et al.
Publicado: (2015)

Identification of native protein structures captured by principal interactions
por: Mirzaie, Mehdi
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_0621u413a7lg9slo3h38o54g03