World's Best Scientists 2026 revealed!

D-Index & Metrics

Computer Science

D-Index
47
Citations
19483
World Ranking
6296
National Ranking
2815

Overview

Michael Hucka is affiliated with the California Institute of Technology in the United States. Their research primarily spans the fields of Biochemistry, Genetics and Molecular Biology, and Decision Sciences, with notable subfields including Molecular Biology, Information Systems and Management, Information Systems, and Management Science and Operations Research.

Their work addresses a range of topics including Gene Regulatory Network Analysis, Bioinformatics and Genomic Networks, Microbial Metabolic Engineering and Bioproduction, Scientific Computing and Data Management, Research Data Management Practices, Data Quality and Management, and Biomedical Text Mining and Ontologies.

Among the recent papers authored or co-authored by Michael Hucka are:

  • <scp>SBML</scp> Level 3: an extensible format for the exchange and reuse of biological models (2020), Molecular Systems Biology
  • The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE) (2020), Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics
  • Specifications of standards in systems and synthetic biology: status and developments in 2020 (2020), Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics
  • Nine best practices for research software registries and repositories (2022), PeerJ Computer Science
  • Systems biology markup language (SBML) level 3 package: multistate, multicomponent and multicompartment species, version 1, release 2 (2020), Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics

Frequent co-authors collaborating with Michael Hucka include:

  • Sarah Keating
  • Matthias König
  • Chris J. Myers
  • Dagmar Waltemath
  • Lucian P. Smith

Michael Hucka's publications are commonly found in the following venues:

  • Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics
  • arXiv (Cornell University)
  • Molecular Systems Biology
  • PeerJ Computer Science
  • VU Research Portal

Best Publications

  • The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.

    M. Hucka;A. Finney;H. M. Sauro;H. Bolouri;H. Bolouri

  • Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0

    Laurent Heirendt;Sylvain Arreckx;Thomas Pfau;Sebastián N. Mendoza

  • A community-driven global reconstruction of human metabolism

    Ines Thiele;Neil Swainston;Ronan M T Fleming;Andreas Hoppe

  • The Systems Biology Graphical Notation

    Nicolas Le Novere;Michael Hucka;Huaiyu Mi;Stuart Moodie

  • BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems

    Nicolas Le Novère;Benjamin J. Bornstein;Alexander Broicher;Mélanie Courtot

  • The BioPAX community standard for pathway data sharing

    Emek Demir;Emek Demir;Michael P. Cary;Suzanne Paley;Ken Fukuda

  • Minimum information requested in the annotation of biochemical models (MIRIAM)

    Nicolas Le Novère;Andrew Finney;Michael Hucka;Upinder S. Bhalla

  • A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology

    Markus Herrgard;Neil Swainston;Paul Dobson;Warwick B. Dunn

  • Biomodels database: an enhanced curated and annotated resource for published quantitative kinetic models

    Chen Li;Marco Donizelli;Nicolas Rodriguez;Harish Dharuri

  • LibSBML: an API library for SBML.

    Benjamin J. Bornstein;Sarah M. Keating;Akiya Jouraku;Michael Hucka

  • Rules for Modeling Signal-Transduction Systems

    William S. Hlavacek;James R. Faeder;Michael L. Blinov;Richard G. Posner

  • BioModels—15 years of sharing computational models in life science

    Rahuman S Malik-Sheriff;Mihai Glont;Tung V N Nguyen;Krishna Tiwari;Krishna Tiwari

  • Next Generation Simulation Tools: The Systems Biology Workbench and BioSPICE Integration

    Herbert M. Sauro;Michael Hucka;Andrew Finney;Cameron Wellock

  • Controlled vocabularies and semantics in systems biology

    Mélanie Courtot;Nick Juty;Christian Knüpfer;Dagmar Waltemath

  • BioModels: ten-year anniversary

    Vijayalakshmi Chelliah;Nick S. Juty;Ishan Ajmera;Raza Ali

  • Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project

    M. Hucka;A. Finney;B.J. Bornstein;S.M. Keating

  • Reproducible computational biology experiments with SED-ML--the Simulation Experiment Description Markup Language.

    Dagmar Waltemath;Richard R. Adams;Frank T. Bergmann;Michael Hucka

  • SBML Level 3: an extensible format for the exchange and reuse of biological models

    Sarah M. Keating;Sarah M. Keating;Dagmar Waltemath;Matthias König;Fengkai Zhang

  • Systems biology markup language: Level 2 and beyond

    A. Finney;M. Hucka

  • The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core.

    Michael Hucka;Frank T. Bergmann;Claudine Chaouiya;Andreas Dräger

  • Towards NeuroML: Model Description Methods for Collaborative Modelling in Neuroscience

    Nigel H. Goddard;Michael Hucka;Fred Howell;Hugo Cornelis

Frequent Co-Authors

Nicolas Le Novère
Nicolas Le Novère Babraham Institute
Falk Schreiber
Falk Schreiber University of Konstanz
Herbert M. Sauro
Herbert M. Sauro University of Washington
Chris J. Myers
Chris J. Myers University of Colorado Boulder
Jacky L. Snoep
Jacky L. Snoep Stellenbosch University
Pedro Mendes
Pedro Mendes University of Connecticut
Hiroaki Kitano
Hiroaki Kitano Okinawa Institute of Science and Technology
John C. Doyle
John C. Doyle California Institute of Technology
Gary D. Bader
Gary D. Bader University of Toronto
Bernhard O. Palsson
Bernhard O. Palsson University of California, San Diego

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