Cargando…

Predicting enzymatic function of protein sequences with attention

MOTIVATION: There is a growing number of available protein sequences, but only a limited amount has been manually annotated. For example, only 0.25% of all entries of UniProtKB are reviewed by human annotators. Further developing automatic tools to infer protein function from sequence alone can alle...

Descripción completa

Detalles Bibliográficos
Autores principales:	Buton, Nicolas, Coste, François, Le Cunff, Yann
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2023
Materias:	Original Paper
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10612403/ https://www.ncbi.nlm.nih.gov/pubmed/37874958 http://dx.doi.org/10.1093/bioinformatics/btad620

Ejemplares similares

Gut microbiota analysis for prediction of clinical relapse in Crohn’s disease
por: Buffet-Bataillon, Sylvie, et al.
Publicado: (2022)

ECPred: a tool for the prediction of the enzymatic functions of protein sequences based on the EC nomenclature
por: Dalkiran, Alperen, et al.
Publicado: (2018)

How Evolving Heterogeneity Distributions of Resource Allocation Strategies Shape Mortality Patterns
por: Le Cunff, Yann, et al.
Publicado: (2013)

CFAGO: cross-fusion of network and attributes based on attention mechanism for protein function prediction
por: Wu, Zhourun, et al.
Publicado: (2023)

Becoming political while avoiding politics: a study of Yellow Vests first-timers
por: Reungoat, Emmanuelle, et al.
Publicado: (2022)

Effusion: prediction of protein function from sequence similarity networks
por: Yunes, Jeffrey M, et al.
Publicado: (2019)

DeepGOPlus: improved protein function prediction from sequence
por: Kulmanov, Maxat, et al.
Publicado: (2019)

Improving protein function prediction using protein sequence and GO-term similarities
por: Makrodimitris, Stavros, et al.
Publicado: (2019)

Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction
por: Bryant, Drew H, et al.
Publicado: (2010)

Protein multiple sequence alignment benchmarking through secondary structure prediction
por: Le, Quan, et al.
Publicado: (2017)

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

Perceiver CPI: a nested cross-attention network for compound–protein interaction prediction
por: Nguyen, Ngoc-Quang, et al.
Publicado: (2022)

Learning graph representations of biochemical networks and its application to enzymatic link prediction
por: Jiang, Julie, et al.
Publicado: (2020)

GrAPFI: predicting enzymatic function of proteins from domain similarity graphs
por: Sarker, Bishnu, et al.
Publicado: (2020)

AFTGAN: prediction of multi-type PPI based on attention free transformer and graph attention network
por: Kang, Yanlei, et al.
Publicado: (2023)

Phylogenetic inference of the emergence of sequence modules and protein-protein interactions in the ADAMTS-TSL family
por: Dennler, Olivier, et al.
Publicado: (2023)

Unsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function
por: Villegas-Morcillo, Amelia, et al.
Publicado: (2020)

Enzymatic Protein Immobilization on Amino-Functionalized Nanoparticles
por: Ma, Qun, et al.
Publicado: (2023)

Conjoint Feature Representation of GO and Protein Sequence for PPI Prediction Based on an Inception RNN Attention Network
por: Zhao, Lingling, et al.
Publicado: (2020)

Enzymatic and Non-Enzymatic Molecules with Antioxidant Function
por: Irato, Paola, et al.
Publicado: (2021)

PITHIA: Protein Interaction Site Prediction Using Multiple Sequence Alignments and Attention
por: Hosseini, SeyedMohsen, et al.
Publicado: (2022)

DeepCellEss: cell line-specific essential protein prediction with attention-based interpretable deep learning
por: Li, Yiming, et al.
Publicado: (2022)

Enzymatic changes in myosin regulatory proteins may explain vasoplegia in terminally ill patients with sepsis
por: Zheng, Wentao, et al.
Publicado: (2016)

Across-population genomic prediction in grapevine opens up promising prospects for breeding
por: Brault, Charlotte, et al.
Publicado: (2022)

Using graph neural networks for site-of-metabolism prediction and its applications to ranking promiscuous enzymatic products
por: Porokhin, Vladimir, et al.
Publicado: (2023)

Attentive Variational Information Bottleneck for TCR–peptide interaction prediction
por: Grazioli, Filippo, et al.
Publicado: (2022)

AllerCatPro—prediction of protein allergenicity potential from the protein sequence
por: Maurer-Stroh, Sebastian, et al.
Publicado: (2019)

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

PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics
por: von Grotthuss, Marcin, et al.
Publicado: (2006)

Enzymatic activity of fungi isolated from crops
por: Żukiewicz-Sobczak, Wioletta A., et al.
Publicado: (2016)

Controlling enzymatic activity by immobilization on graphene oxide
por: Bolibok, Paulina, et al.
Publicado: (2017)

Alkaline phosphatase interference in immuno-enzymatic assays
por: Oğuz, Osman, et al.
Publicado: (2022)

Improving protein structure prediction using templates and sequence embedding
por: Wu, Fandi, et al.
Publicado: (2022)

Interest of phenomic prediction as an alternative to genomic prediction in grapevine
por: Brault, Charlotte, et al.
Publicado: (2022)

Structural Characterization and Antifungal Studies of Zinc-Doped Hydroxyapatite Coatings
por: Iconaru, Simona Liliana, et al.
Publicado: (2017)

Development of Novel Tetracycline and Ciprofloxacin Loaded Silver Doped Hydroxyapatite Suspensions for Biomedical Applications
por: Predoi, Daniela, et al.
Publicado: (2022)

Stereochemistry and Mechanism of Enzymatic and Non-Enzymatic Hydrolysis of Benzylic sec-Sulfate Esters
por: Toesch, Michael, et al.
Publicado: (2014)

Prediction and characterization of enzymatic activities guided by sequence similarity and genome neighborhood networks
por: Zhao, Suwen, et al.
Publicado: (2014)

Multiple sequence alignment based on deep reinforcement learning with self-attention and positional encoding
por: Liu, Yuhang, et al.
Publicado: (2023)

CAPLA: improved prediction of protein–ligand binding affinity by a deep learning approach based on a cross-attention mechanism
por: Jin, Zhi, et al.
Publicado: (2023)

Cannot write session to /tmp/vufind_sessions/sess_0tok4v03g68509cidk9om5cvke