Author details

Full Name

Tanya Z Berardini

Affiliation

Carnegie Institution for Science

ORCID

Career Start Year

1997

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36866529	The Gene Ontology knowledgebase in 2023.	Genetics	2023
37971715	Data sharing andÂ ontology use among agricultural genetics, genomics, andÂ breeding databases andÂ resources ofÂ the Agbiodata Consortium.	Database (Oxford)	2023
36200836	Using the Arabidopsis Information Resource (TAIR) to Find Information About Arabidopsis Genes.	Curr Protoc	2022
34710081	Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO).	PLoS Comput Biol	2021
32699173	Araport Lives: An Updated Framework for Arabidopsis Bioinformatics.	Plant Cell	2020
33392435	PhyloGenes: An online phylogenetics and functional genomics resource for plant gene function inference.	Plant Direct	2020
29440116	Improving Interpretation of Cardiac Phenotypes and Enhancing Discovery With Expanded Knowledge in the Gene Ontology.	Circ Genom Precis Med	2018
30239679	AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture.	Database (Oxford)	2018
27794554	RNAcentral: a comprehensive database of non-coding RNA sequences.	Nucleic Acids Res	2017
26989150	Sustainable funding for biocuration: The Arabidopsis Information Resource (TAIR) as a case study of a subscription-based funding model.	Database (Oxford)	2016
27589964	Modeling biochemical pathways in the gene ontology.	Database (Oxford)	2016
26201819	The Arabidopsis information resource: Making and mining the "gold standard" annotated reference plant genome.	Genesis	2015
24057361	Arabidopsis database and stock resources.	Methods Mol Biol	2014
25937883	TermGenie - a web-application for pattern-based ontology class generation.	J Biomed Semantics	2014
23220694	The plant ontology as a tool for comparative plant anatomy and genomic analyses.	Plant Cell Physiol	2013
24093723	The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments.	J Biomed Semantics	2013
23895341	Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology.	BMC Genomics	2013
23161678	Gene Ontology annotations and resources.	Nucleic Acids Res	2013
22140109	The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools.	Nucleic Acids Res	2012
23221298	Building an efficient curation workflow for the Arabidopsis literature corpus.	Database (Oxford)	2012
23160413	Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR.	Database (Oxford)	2012
23160414	Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts.	Database (Oxford)	2012
22859749	Assessment of community-submitted ontology annotations from a novel database-journal partnership.	Database (Oxford)	2012
22434828	Biocurators and biocuration: surveying the 21st century challenges.	Database (Oxford)	2012
20152934	Cross-product extensions of the Gene Ontology.	J Biomed Inform	2011
21419760	The representation of heart development in the gene ontology.	Dev Biol	2011
19921742	Representing ontogeny through ontology: a developmental biologist's guide to the gene ontology.	Mol Reprod Dev	2010
20221640	A MOD(ern) perspective on literature curation.	Mol Genet Genomics	2010
19289849	Cyclophilin 40 is required for microRNA activity in Arabidopsis.	Proc Natl Acad Sci U S A	2009
19935838	Recurated protein interaction datasets.	Nat Methods	2009
17986450	The Arabidopsis Information Resource (TAIR): gene structure and function annotation.	Nucleic Acids Res	2008
18287709	Methods for gene ontology annotation.	Methods Mol Biol	2007
18428773	PubSearch and PubFetch: a simple management system for semiautomated retrieval and annotation of biological information from the literature.	Curr Protoc Bioinformatics	2006
15980466	PatMatch: a program for finding patterns in peptide and nucleotide sequences.	Nucleic Acids Res	2005
14681407	The Gene Ontology (GO) database and informatics resource.	Nucleic Acids Res	2004
15173566	Functional annotation of the Arabidopsis genome using controlled vocabularies.	Plant Physiol	2004
12519987	The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community.	Nucleic Acids Res	2003
12620976	HASTY, the Arabidopsis ortholog of exportin 5/MSN5, regulates phase change and morphogenesis.	Development	2003
12611890	Spatial clustering of isozyme-specific residues reveals unlikely determinants of isozyme specificity in fructose-1,6-bisphosphate aldolase.	J Biol Chem	2003
12444417	TAIR: a resource for integrated Arabidopsis data.	Funct Integr Genomics	2002
11264535	Regulation of vegetative phase change in Arabidopsis thaliana by cyclophilin 40.	Science	2001
10327593	Identification of conserved promoter elements for aldB and isozyme specific residues in aldolase B.	Comp Biochem Physiol B Biochem Mol Biol	1999
9219352	Identification of neuronal isozyme specific residues by comparison of goldfish aldolase C to other aldolases.	Comp Biochem Physiol A Physiol	1997

1 - 43 of 43

Alex Warwick Vesztrocy

University of Lausanne

Career Start Year 2017

Number of shared co-authors 6

Maria Keays

Wellcome Sanger Institute

Career Start Year 2011

Number of shared co-authors 13

Artem S Kasianov

Institute for Information Transmission Problems of the Russian Academy of Sciences

Career Start Year 2011

Number of shared co-authors 4

Aravind Venkatesan

European Bioinformatics Institute (EMBL-EBI)

Career Start Year 2010

Number of shared co-authors 3

David Anderson de Lima Morais

Universite de Sherbrooke

Career Start Year 2010

Number of shared co-authors 4

Steven Maere

Ghent University

Career Start Year 2005

Number of shared co-authors 2

Anne Niknejad

University of Lausanne

Career Start Year 2004

Number of shared co-authors 26

Steven Vercruysse

Norwegian University of Science and Technology (NTNU)

Career Start Year 2004

Number of shared co-authors 11

Fran??oise Thibaud-Nissen

National Center for Biotechnology Information, National Institutes of Health

Career Start Year 2003

Number of shared co-authors 14

Don Gilbert

Indiana University

Career Start Year 2002

Number of shared co-authors 6

Aalt D J van Dijk

Wageningen University and Research

Career Start Year 2001

Number of shared co-authors 14

Carolyn J Lawrence

Iowa State University

Career Start Year 2000

Number of shared co-authors 30

Kevin A T Silverstein

Minnesota Supercomputing Institute, University of Minnesota

Career Start Year 2000

Number of shared co-authors 14

Ana Conesa

Institute for Integrative Systems Biology, Spanish National Research Council (CSIC)

Career Start Year 2000

Number of shared co-authors 9

Lars Juhl Jensen

Novo Nordisk Foundation Center for Protein Research, University of Copenhagen

Career Start Year 1998

Number of shared co-authors 15

Thomas Girke

Institute for Integrative Genome Biology, University of California Riverside

Career Start Year 1998

Number of shared co-authors 1

Cecilia N Arighi

University of Delaware

Career Start Year 1998

Number of shared co-authors 82

Todd C Mockler

Danforth Foundation

Career Start Year 1997

Number of shared co-authors 8

Helen Parkinson

European Bioinformatics Institute

Career Start Year 1997

Number of shared co-authors 49

Hidemasa Bono

Hiroshima University

Career Start Year 1997

Number of shared co-authors 17

Richard Bruskiewich

Delphinai Corporation

Career Start Year 1996

Number of shared co-authors 18

Dirk Walther

Max Planck Institute of Molecular Plant Physiology

Career Start Year 1995

Number of shared co-authors 2

Todd J Vision

University of North Carolina

Career Start Year 1995

Number of shared co-authors 9

Terry Gaasterland

Scripps Institution of Oceanography, University of California San Diego

Career Start Year 1994

Number of shared co-authors 9

Dennis Shasha

Courant Institute of Mathematical Sciences, New York University

Career Start Year 1994

Number of shared co-authors 13

Bianca Habermann

Aix Marseille University, CNRS, Turing Center for Living Systems

Career Start Year 1993

Number of shared co-authors 3

Kevin L Childs

Center for Genomics-Enabled Plant Science, Michigan State University

Career Start Year 1991

Number of shared co-authors 5

Lincoln Stein

Ontario Institute for Cancer Research, University Avenue

Career Start Year 1986

Number of shared co-authors 51

Martin Kuiper

Norwegian University of Science and Technology

Career Start Year 1983

Number of shared co-authors 23

Brian J Haas

Broad Institute of MIT and Harvard

Career Start Year 1981

Number of shared co-authors 7

row(s) 1 - 30 of 30

Eva Huala

Carnegie Institution for Science

Co-authored papers 17

David P Hill

Co-authored papers 11

Donghui Li

Qilu University of Technology (Shandong Academy of Sciences)

Co-authored papers 11

Leonore Reiser

Carnegie Institution for Science

Co-authored papers 10

Christopher J Mungall

International Society for Biocuration, Lawrence Berkeley National Laboratory, University of Edinburgh, University of Edinburgh School of Biological Sciences

Co-authored papers 10

Seung Y Rhee

Carnegie Institution for Science

Co-authored papers 6

Rebecca E Foulger

Queen Mary University of London

Co-authored papers 6

Harold J Drabkin

Massachusetts Institute of Technology

Co-authored papers 6

J Michael Cherry

Stanford University