M
Markus Krummenacker
Researcher at SRI International
Publications - 27
Citations - 8530
Markus Krummenacker is an academic researcher from SRI International. The author has contributed to research in topics: EcoCyc & Metabolic network. The author has an hindex of 14, co-authored 26 publications receiving 7217 citations.
Papers
More filters
Journal ArticleDOI
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases
Ron Caspi,Richard Billington,Luciana Ferrer,Hartmut Foerster,Carol A. Fulcher,Ingrid M. Keseler,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Lukas A. Mueller,Quang Ong,Suzanne M. Paley,Pallavi Subhraveti,Daniel Weaver,Peter D. Karp +14 more
TL;DR: The BioCyc PGDBs generated by SRI are offered for adoption by any interested party for the ongoing integration of metabolic and genome-related information about an organism.
Journal ArticleDOI
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,Andrew R. Joyce,Peter D. Karp,Linda J. Broadbelt,Vassily Hatzimanikatis,Bernhard O. Palsson +8 more
TL;DR: An updated genome‐scale reconstruction of the metabolic network in Escherichia coli K‐12 MG1655 with increased scope and computational capability is presented, expected to broaden the spectrum of both basic biology and applied systems biology studies of E. coli metabolism.
Journal ArticleDOI
The MetaCyc database of metabolic pathways and enzymes.
Ron Caspi,Richard Billington,Carol A. Fulcher,Ingrid M. Keseler,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Peter E. Midford,Quang Ong,Wai Kit Ong,Suzanne M. Paley,Pallavi Subhraveti,Peter D. Karp +12 more
TL;DR: This article provides an update on the developments in MetaCyc during the past two years, including the expansion of data and addition of new features.
Posted Content
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,Richard Billington,Anamika Kothari,Wai Kit Ong,Pallavi Subhraveti,Ingrid M. Keseler,Ron Caspi +9 more
TL;DR: Pathway Tools as discussed by the authors is a bioinformatics software environment with a broad set of capabilities, such as a genome browser, sequence alignments, a genome-variant analyzer, and comparative-genomics operations.
Journal ArticleDOI
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
Ingrid M. Keseler,Amanda Mackie,Alberto Santos-Zavaleta,Richard Billington,César Bonavides-Martínez,Ron Caspi,Carol A. Fulcher,Socorro Gama-Castro,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Luis Muñiz-Rascado,Quang Ong,Suzanne M. Paley,Martín Peralta-Gil,Pallavi Subhraveti,David A. Velázquez-Ramírez,Daniel Weaver,Julio Collado-Vides,Ian T. Paulsen,Peter D. Karp +20 more
TL;DR: EcoCyc now supports running and modifying E. coli metabolic models directly on the EcoCyc website, and new SmartTable tools allow users to browse collections of related Eco Cyc content.