Author details

Full Name

John H Gennari

Affiliation

University of Washington

ORCID

Career Start Year

1994

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
38096590	VSCode-Antimony: a source editor for building, analyzing, and translating antimony models.	Bioinformatics	2023
38096590	VSCode-Antimony: a source editor for building, analyzing, and translating antimony models.	Bioinformatics	2023
37882737	An automated model annotation system (AMAS) for SBML models.	Bioinformatics	2023
37503075	An Automated Model Annotation System (AMAS) for SBML Models.	bioRxiv	2023
37882737	An automated model annotation system (AMAS) for SBML models.	Bioinformatics	2023
37503075	An Automated Model Annotation System (AMAS) for SBML Models.	bioRxiv	2023
34132740	libOmexMeta: enabling semantic annotation of models to support FAIR principles.	Bioinformatics	2021
34132740	libOmexMeta: enabling semantic annotation of models to support FAIR principles.	Bioinformatics	2021
34668356	OMEX metadata specification (version 1.2).	J Integr Bioinform	2021
34668356	OMEX metadata specification (version 1.2).	J Integr Bioinform	2021
32372434	Deep phenotyping of cardiac function in heart transplant patients using cardiovascular system models.	J Physiol	2020
32372434	Deep phenotyping of cardiac function in heart transplant patients using cardiovascular system models.	J Physiol	2020
32589606	Open modeling and exchange (OMEX) metadata specification version 1.0.	J Integr Bioinform	2020
32589606	Open modeling and exchange (OMEX) metadata specification version 1.0.	J Integr Bioinform	2020
30462164	Harmonizing semantic annotations for computational models in biology.	Brief Bioinform	2019
30462164	Harmonizing semantic annotations for computational models in biology.	Brief Bioinform	2019
30256901	SemGen: a tool for semantics-based annotation and composition of biosimulation models.	Bioinformatics	2019
31492098	Model annotation and discovery with the Physiome Model Repository.	BMC Bioinformatics	2019
31059645	SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information.	ACS Synth Biol	2019
31199770	Synthetic Biology Open Language (SBOL) Version 2.3.	J Integr Bioinform	2019
31196182	Predicting instances of pathway ontology classes for pathway integration.	J Biomed Semantics	2019
30256901	SemGen: a tool for semantics-based annotation and composition of biosimulation models.	Bioinformatics	2019
31492098	Model annotation and discovery with the Physiome Model Repository.	BMC Bioinformatics	2019
31199770	Synthetic Biology Open Language (SBOL) Version 2.3.	J Integr Bioinform	2019
31196182	Predicting instances of pathway ontology classes for pathway integration.	J Biomed Semantics	2019
31059645	SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information.	ACS Synth Biol	2019
29605823	Synthetic Biology Open Language (SBOL) Version 2.2.0.	J Integr Bioinform	2018
29605823	Synthetic Biology Open Language (SBOL) Version 2.2.0.	J Integr Bioinform	2018
28500765	Developing Bayesian networks from a dependency-layered ontology: A proof-of-concept in radiation oncology.	Med Phys	2017
28500765	Developing Bayesian networks from a dependency-layered ontology: A proof-of-concept in radiation oncology.	Med Phys	2017
28269939	Assessing patient and caregiver needs and challenges in information and symptom management: a study of primary brain tumors.	AMIA Annu Symp Proc	2017
28269939	Assessing patient and caregiver needs and challenges in information and symptom management: a study of primary brain tumors.	AMIA Annu Symp Proc	2017
27111421	Sharing Structure and Function in Biological Design with SBOL 2.0.	ACS Synth Biol	2016
28804276	Qualitative causal analyses of biosimulation models.	CEUR Workshop Proc	2016
27111421	Sharing Structure and Function in Biological Design with SBOL 2.0.	ACS Synth Biol	2016
28187407	Synthetic Biology Open Language (SBOL) Version 2.1.0.	J Integr Bioinform	2016
28187407	Synthetic Biology Open Language (SBOL) Version 2.1.0.	J Integr Bioinform	2016
28804276	Qualitative causal analyses of biosimulation models.	CEUR Workshop Proc	2016
25768885	Bayesian network models for error detection in radiotherapy plans.	Phys Med Biol	2015
25768885	Bayesian network models for error detection in radiotherapy plans.	Phys Med Biol	2015
26716837	Semantics-Based Composition of Integrated Cardiomyocyte Models Motivated by Real-World Use Cases.	PLoS One	2015
26528570	Synthetic Biology Open Language (SBOL) Version 2.0.0.	J Integr Bioinform	2015
26528570	Synthetic Biology Open Language (SBOL) Version 2.0.0.	J Integr Bioinform	2015
26716837	Semantics-Based Composition of Integrated Cardiomyocyte Models Motivated by Real-World Use Cases.	PLoS One	2015
24911500	The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology.	Nat Biotechnol	2014
25275523	A reappraisal of how to build modular, reusable models of biological systems.	PLoS Comput Biol	2014
24911500	The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology.	Nat Biotechnol	2014
25275523	A reappraisal of how to build modular, reusable models of biological systems.	PLoS Comput Biol	2014
23735231	Representing physiological processes and their participants with PhysioMaps.	J Biomed Semantics	2013
24295137	Ontology of physics for biology: representing physical dependencies as a basis for biological processes.	J Biomed Semantics	2013

1 - 50 of 140

Csongor Nyulas

Stanford University

Career Start Year 2008

Number of shared co-authors 4

Janna Hastings

Institute for Implementation Science in Health Care, University of Zurich

Career Start Year 2008

Number of shared co-authors 5

Mathias Brochhausen

College of Medicine, University of Arkansas for Medical Sciences

Career Start Year 2006

Number of shared co-authors 4

Philip R O Payne

Institute for Informatics, Washington University School of Medicine in St. Louis

Career Start Year 2003

Number of shared co-authors 6

Vipul Kashyap

ICAR-National Dairy Research Institute

Career Start Year 2003

Number of shared co-authors 1

Cui Tao

The University of Texas Health Science Center at Houston

Career Start Year 2002

Number of shared co-authors 3

Gil Alterovitz

Brigham and Women's Hospital

Career Start Year 2002

Number of shared co-authors 2

M??lanie Courtot

Ontario Institute for Cancer Research

Career Start Year 2001

Number of shared co-authors 8

Indra Neil Sarkar

Center for Biomedical Informatics, Brown University

Career Start Year 2001

Number of shared co-authors 4

Michael Hogarth

university of california san diego

Career Start Year 2000

Number of shared co-authors 3

Marco Roos

Leiden University Medical Center

Career Start Year 1999

Number of shared co-authors 1

Robert Stevens

The University of Manchester

Career Start Year 1998

Number of shared co-authors 3

Katherine Wolstencroft

Leiden Institute of Advanced Computer Science, Leiden University

Career Start Year 1997

Number of shared co-authors 7

Melissa A Haendel

American Medical Informatics Association, Oregon Health and Science University, Oregon State University, University of Colorado Anschutz Medical Campus, University of North Carolina at Chapel Hill, University of Wisconsin-Madison

Career Start Year 1996

Number of shared co-authors 16

Mor Peleg

University of Haifa

Career Start Year 1995

Number of shared co-authors 7

Eneida A Mendonca

Cincinnati Children's Hospital Medical Center and University of Cincinnati

Career Start Year 1994

Number of shared co-authors 3

Mark D Wilkinson

Universidad Politecnica de Madrid (UPM)

Career Start Year 1993

Number of shared co-authors 4

Carole Goble

University of Manchester

Career Start Year 1993

Number of shared co-authors 7

Martin Boeker

Institute of AI and Informatics in Medicine, Technical University of Munich

Career Start Year 1992

Number of shared co-authors 1

Erik M van Mulligen

Erasmus University Medical Center

Career Start Year 1991

Number of shared co-authors 2

Stephen B Johnson

New York University Grossman School of Medicine

Career Start Year 1991

Number of shared co-authors 7

Alexa T McCray

Columbia University in the City of New York.

Career Start Year 1990

Number of shared co-authors 1

George Hripcsak

Columbia University

Career Start Year 1988

Number of shared co-authors 10

Prakash M Nadkarni

College of Nursing, University of Iowa Hospitals and Clinics

Career Start Year 1988

Number of shared co-authors 1

James J Cimino

Informatics Institute, University of Alabama

Career Start Year 1986

Number of shared co-authors 13

Peter Szolovits

Massachusetts Institute of Technology

Career Start Year 1986

Number of shared co-authors 4

Christopher G Chute

Brown University, Brown University Warren Alpert Medical School, Dartmouth-Hitchcock Medical Center, Harvard School of Public Health, Johns Hopkins Medicine, Mayo Clinic Minnesota

Career Start Year 1985

Number of shared co-authors 15

Stanley M Huff

University of Utah School of Medicine

Career Start Year 1984

Number of shared co-authors 6

Perry L Miller

Clinical Epidemiology Research Center (CERC), VA Connecticut Healthcare System

Career Start Year 1983

Number of shared co-authors 4

Mark S Tuttle

Apelon Inc.