World's Best Scientists 2026 revealed!
Markus Krummenacker

Markus Krummenacker

D-Index & Metrics

Computer Science

D-Index
31
Citations
18858
World Ranking
13321
National Ranking
5328

Overview

Markus Krummenacker is affiliated with SRI International in the United States. Their research contributions span several areas within biochemistry, genetics, and molecular biology, focusing particularly on microbial metabolic engineering, bioinformatics, and genomic networks.

The scientist's work includes publications in various peer-reviewed venues. Notable venues where Markus has frequently published include:

  • Frontiers in Microbiology
  • EcoSal Plus
  • Organic Process Research & Development
  • Frontiers in Bioinformatics
  • Journal of Chemical Information and Modeling

Markus Krummenacker's recent research articles include:

  • "The EcoCyc Database in 2021" (2021, Frontiers in Microbiology)
  • "Fully Automated Chemical Synthesis: Toward the Universal Synthesizer" (2020, Organic Process Research & Development)
  • "The EcoCyc Database (2023)" (2023, EcoSal Plus)
  • "Pathway Tools Management of Pathway/Genome Data for Microbial Communities" (2022, Frontiers in Bioinformatics)
  • "Pathway Tools Visualization of Organism-Scale Metabolic Networks" (2021, Metabolites)

Their research interests cover multiple interconnected topics, including:

  • Microbial Metabolic Engineering and Bioproduction
  • Bioinformatics and Genomic Networks
  • Genomics and Phylogenetic Studies
  • Chemical Synthesis and Analysis
  • Bacterial Genetics and Biotechnology
  • RNA and protein synthesis mechanisms
  • Innovative Microfluidic and Catalytic Techniques Innovation

In terms of fields of study, Markus has contributed extensively to Biochemistry, Genetics, and Molecular Biology. They have a significant focus on Molecular Biology, with additional work in Biomedical Engineering, Genetics, Computational Theory and Mathematics, and Materials Chemistry.

Markus has collaborated frequently with several coauthors. Noteworthy coauthors include:

  • Peter D. Karp
  • Suzanne Paley
  • James A. Herson
  • Anamika Kothari
  • Socorro Gama-Castro

Best Publications

  • The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

    Ron Caspi;Richard Billington;Luciana Ferrer;Hartmut Foerster

  • The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

    Unknown

  • A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information.

    Adam M Feist;Christopher S Henry;Jennifer L Reed;Markus Krummenacker

  • The MetaCyc database of metabolic pathways and enzymes - a 2019 update.

    Ron Caspi;Richard Billington;Ingrid M. Keseler;Anamika Kothari

  • The BioCyc collection of microbial genomes and metabolic pathways.

    Peter D Karp;Richard Billington;Ron Caspi;Carol A Fulcher

  • The MetaCyc database of metabolic pathways and enzymes.

    Ron Caspi;Richard Billington;Carol A. Fulcher;Ingrid M. Keseler

  • EcoCyc: fusing model organism databases with systems biology

    Ingrid M. Keseler;Amanda Mackie;Martín Peralta-Gil;Alberto Santos-Zavaleta

  • Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology

    Peter D. Karp;Suzanne M. Paley;Markus Krummenacker;Mario Latendresse

  • Computational prediction of human metabolic pathways from the complete human genome

    Pedro Romero;Pedro Romero;Jonathan Wagg;Michelle L Green;Dale Kaiser

  • EcoCyc: a comprehensive database of Escherichia coli biology

    Ingrid M. Keseler;Julio Collado-Vides;Alberto Santos-Zavaleta;Martín Peralta-Gil

  • MetaCyc: a multiorganism database of metabolic pathways and enzymes

    Ron Caspi;Hartmut Foerster;Carol A. Fulcher;Rebecca Hopkinson

  • The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.

    Ingrid M. Keseler;Amanda Mackie;Alberto Santos-Zavaleta;Richard Billington

  • The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

    Unknown

  • The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

    Unknown

  • EcoCyc: A comprehensive view of Escherichia coli biology

    Ingrid M. Keseler;César Bonavides-Martínez;Julio Collado-Vides;Socorro Gama-Castro

  • The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

    Unknown

  • Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology

    Unknown

  • Pathway Tools version 23.0 update: software for pathway/genome informatics and systems biology

    Unknown

  • Integrated pathway–genome databases and their role in drug discovery

    Peter D Karp;Markus Krummenacker;Suzanne Paley;Jonathan Wagg

  • Multidimensional annotation of the Escherichia coli K-12 genome

    Peter D. Karp;Ingrid M Keseler;Alexander Glennon Shearer;Mario Latendresse

  • Pathway Tools version 23.0: Integrated Software for Pathway/Genome Informatics and Systems Biology

    Peter D. Karp;Suzanne M. Paley;Peter E. Midford;Markus Krummenacker

  • The EcoCyc Database in 2021.

    Ingrid M. Keseler;Socorro Gama-Castro;Amanda Mackie;Richard Billington

  • The EcoCyc Database.

    Peter D. Karp;Daniel Weaver;Suzanne Paley;Carol Fulcher

  • Querying and computing with BioCyc databases

    Markus Krummenacker;Suzanne Paley;Lukas Mueller;Thomas Yan

  • Construction and completion of flux balance models from pathway databases

    Mario Latendresse;Markus Krummenacker;Miles Trupp;Peter D. Karp

  • Optimal metabolic route search based on atom mappings.

    Mario Latendresse;Markus Krummenacker;Peter D. Karp

  • Beyond the genome (BTG) is a (PGDB) pathway genome database: HumanCyc.

    Miles Trupp;Tomer Altman;Carol A Fulcher;Ron Caspi

  • Computational Metabolomics Operations at BioCyc.org.

    Peter D Karp;Richard Billington;Timothy A Holland;Anamika Kothari

Frequent Co-Authors

Peter D. Karp
Peter D. Karp SRI International
Suzanne M. Paley
Suzanne M. Paley SRI International
Ian T. Paulsen
Ian T. Paulsen Macquarie University
Pedro Romero
Pedro Romero University of Lausanne
Lukas A. Mueller
Lukas A. Mueller Boyce Thompson Institute
Julio Collado-Vides
Julio Collado-Vides National Autonomous University of Mexico
Natalia Ivanova
Natalia Ivanova Lawrence Berkeley National Laboratory
Nikos C. Kyrpides
Nikos C. Kyrpides Joint Genome Institute
Dale Kaiser
Dale Kaiser Stanford University
Bernhard O. Palsson
Bernhard O. Palsson University of California, San Diego

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