Huaiyu Mi

According to our database1, Huaiyu Mi authored at least 27 papers between 2003 and 2021.

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Bibliography

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

The Gene Ontology resource: enriching a GOld mine.
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Nucleic Acids Res., 2021

The InterPro protein families and domains database: 20 years on.
Nucleic Acids Res., 2021

Reactome and the Gene Ontology: digital convergence of data resources.
Bioinform., 2021

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

Systems Biology Graphical Notation: Process Description language Level 1 Version 2.0.
J. Integr. Bioinform., 2019

2017
PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements.
Nucleic Acids Res., 2017

InterPro in 2017 - beyond protein family and domain annotations.
Nucleic Acids Res., 2017

2016
PANTHER version 10: expanded protein families and functions, and analysis tools.
Nucleic Acids Res., 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
The InterPro protein families database: the classification resource after 15 years.
Nucleic Acids Res., 2015

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.
J. Integr. Bioinform., 2015

Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3.
J. Integr. Bioinform., 2015

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2 .
J. Integr. Bioinform., 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
InterPro in 2011: new developments in the family and domain prediction database.
Nucleic Acids Res., 2012

Software support for SBGN maps: SBGN-ML and LibSBGN.
Bioinform., 2012

2011
BioPAX support in CellDesigner.
Bioinform., 2011

Applications of Pathway Logic Modeling to Target Identification.
Proceedings of the Formal Modeling: Actors, Open Systems, Biological Systems, 2011

2010
PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium.
Nucleic Acids Res., 2010

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
The PANTHER database of protein families, subfamilies, functions and pathways.
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


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