Paul D. Thomas
Orcid: 0000-0002-9074-3507
According to our database1,
Paul D. Thomas
authored at least 44 papers
between 2002 and 2024.
Collaborative distances:
Collaborative distances:
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Bibliography
2024
Functional implications of glycans and their curation: insights from the workshop held at the 16th Annual International Biocuration Conference in Padua, Italy.
Database J. Biol. Databases Curation, January, 2024
2023
2022
Nucleic Acids Res., 2022
Annotation Query (AnnoQ): an integrated and interactive platform for large-scale genetic variant annotation.
Nucleic Acids Res., 2022
A roadmap for the functional annotation of protein families: a community perspective.
Database J. Biol. Databases Curation, 2022
2021
Bayesian parameter estimation for automatic annotation of gene functions using observational data and phylogenetic trees.
PLoS Comput. Biol., 2021
PANTHER version 16: a revised family classification, tree-based classification tool, enhancer regions and extensive API.
Nucleic Acids Res., 2021
Nucleic Acids Res., 2021
Bioinform., 2021
Bioinform., 2021
Setting the basis of best practices and standards for curation and annotation of logical models in biology - highlights of the [BC]2 2019 CoLoMoTo/SysMod Workshop.
Briefings Bioinform., 2021
2020
Nucleic Acids Res., 2020
Nucleic Acids Res., 2020
2019
InterPro in 2019: improving coverage, classification and access to protein sequence annotations.
Nucleic Acids Res., 2019
PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools.
Nucleic Acids Res., 2019
Ancestral Genomes: a resource for reconstructed ancestral genes and genomes across the tree of life.
Nucleic Acids Res., 2019
GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness.
BMC Bioinform., 2019
TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations.
Bioinform., 2019
CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination.
Bioinform., 2019
2018
The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database.
Nucleic Acids Res., 2018
2017
PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements.
Nucleic Acids Res., 2017
Nucleic Acids Res., 2017
2016
Nucleic Acids Res., 2016
PANTHER-PSEP: predicting disease-causing genetic variants using position-specific evolutionary preservation.
Bioinform., 2016
Large-scale inference of gene function through phylogenetic annotation of Gene Ontology terms: case study of the apoptosis and autophagy cellular processes.
Database J. Biol. Databases Curation, 2016
2015
Nucleic Acids Res., 2015
2014
PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools.
Nucleic Acids Res., 2014
2013
PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees.
Nucleic Acids Res., 2013
2012
On the Use of Gene Ontology Annotations to Assess Functional Similarity among Orthologs and Paralogs: A Short Report.
PLoS Comput. Biol., 2012
Nucleic Acids Res., 2012
2011
Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.
Briefings Bioinform., 2011
2010
PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium.
Nucleic Acids Res., 2010
BMC Bioinform., 2010
2009
2007
PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathways.
Nucleic Acids Res., 2007
2006
Applications for protein sequence-function evolution data: mRNA/protein expression analysis and coding SNP scoring tools.
Nucleic Acids Res., 2006
2005
Nucleic Acids Res., 2005
2003
PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification.
Nucleic Acids Res., 2003
2002