High-throughput generation, optimization and analysis of genome-scale metabolic models

CS Henry, M DeJongh, AA Best, PM Frybarger… - Nature …, 2010 - nature.com
Genome-scale metabolic models have proven to be valuable for predicting organism
phenotypes from genotypes. Yet efforts to develop new models are failing to keep pace with …

[HTML][HTML] KBase: the United States department of energy systems biology knowledgebase

…, JN Edirisinghe, G Fang, JP Faria, PM Frybarger… - Nature …, 2018 - nature.com
… Paul M Frybarger … Edirisinghe, José P Faria, Paul M Frybarger, Wolfgang Gerlach, Kevin P
Keegan, Folker Meyer, Robert Olson, Bruce Parrello & Samuel MD Seaver … Paul M Frybarger

The DOE systems biology knowledgebase (KBase)

…, JN Edirisinghe, G Fang, JP Faria, PM Frybarger… - BioRxiv, 2016 - biorxiv.org
The US Department of Energy Systems Biology Knowledgebase (KBase) is an open-source
software and data platform designed to meet the grand challenge of systems biology — …

Distribution of Bacterial Contamination in Partial Penetration Surrogate Ballistic Wounds

MR Frybarger, KH Muci-Küchler - ASME …, 2020 - asmedigitalcollection.asme.org
With the rise in use of IEDs during armed conflicts, there has been an increase in the number
of injuries to the extremities. Shrapnel and debris ejected during the explosion become high…

[PDF][PDF] High-throughput generation and optimization of genome-scale metabolic models

CS Henry, M DeJongh, AA Best, PM Frybarger… - mcs.anl.gov
Genome-scale metabolic models have proven to be crucial resources for translating
detailed knowledge of thousands of distinct biochemical processes into global predictions of …

Circuit party attendance, club drug use, and unsafe sex in gay men

…, S Letendre, DM Unit, DR Masys, M Frybarger… - Journal of substance …, 2001 - Elsevier
Purpose: We examined the population demographics and club drugs used in gay circuit
parties and estimated the reported unsafe sexual behavior associated with each drug, the …

[HTML][HTML] Sequence-based network completion reveals the integrality of missing reactions in metabolic networks

EW Krumholz, IGL Libourel - Journal of Biological Chemistry, 2015 - ASBMB
Genome-scale metabolic models are central in connecting genotypes to metabolic phenotypes.
However, even for well studied organisms, such as Escherichia coli, draft networks do …

MetaNetX/MNXref–reconciliation of metabolites and biochemical reactions to bring together genome-scale metabolic networks

S Moretti, O Martin, T Van Du Tran, A Bridge… - Nucleic acids …, 2016 - academic.oup.com
MetaNetX is a repository of genome-scale metabolic networks (GSMNs) and biochemical
pathways from a number of major resources imported into a common namespace of chemical …

Genomic characterization of a coxsackievirus A20 strain recovered from a child with acute flaccid paralysis in Nigeria

TOC Faleye, OM Adewumi, OT Olayinka… - Microbiology …, 2019 - Am Soc Microbiol
In light of recurrent outbreaks of circulating vaccine-derived poliovirus 2 (cVDPV2) in Nigeria,
we describe the genome sequence of a coxsackievirus A20 strain (CVA20). The …

[CITATION][C] The DOE systems biology knowledgebase (KBase). bioRxiv 096354

…, JN Edirisinghe, G Fang, JP Faria, PM Frybarger… - 2016