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Author Details

Jeremy Zucker
Pacific Northwest National Laboratory
2003
32
21
PMIDPaper TitleJournal TitlePublished Year
36603501Perspectives for self-driving labs in synthetic biology.Curr Opin Biotechnol2023
36991437Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species.Biotechnol Biofuels Bioprod2023
36065328Itaconic acid production is regulated by LaeA in <i>Aspergillus pseudoterreus</i>.Metab Eng Commun2022
34809453A Histoplasma capsulatum Lipid Metabolic Map Identifies Antifungal Targets.mBio2021
33883010Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass.Biotechnol Biofuels2021
33898398Integration of Proteomics and Metabolomics Into the Design, Build, Test, Learn Cycle to Improve 3-Hydroxypropionic Acid Production in <i>Aspergillus pseudoterreus</i>.Front Bioeng Biotechnol2021
33585414Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in <i>Rhodosporidium toruloides</i>.Front Bioeng Biotechnol2021
34636549Bayesian Inference for Integrating <i>Yarrowia lipolytica</i> Multiomics Datasets with Metabolic Modeling.ACS Synth Biol2021
34664389COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.Mol Syst Biol2021
33425868High-Throughput Large-Scale Targeted Proteomics Assays for Quantifying Pathway Proteins in <i>Pseudomonas putida</i> KT2440.Front Bioeng Biotechnol2020
31186334Metaphenomic Responses of a Native Prairie Soil Microbiome to Moisture Perturbations.mSystems2019
30553726Circadian Proteomic Analysis Uncovers Mechanisms of Post-Transcriptional Regulation in Metabolic Pathways.Cell Syst2018
33824861Prediction of Metabolite Concentrations, Rate Constants and Post-Translational Regulation Using Maximum Entropy-Based Simulations with Application to Central Metabolism of <i>Neurospora crassa</i>.Processes (Basel)2018
27186840Microbial Community Metabolic Modeling: A Community Data-Driven Network Reconstruction.J Cell Physiol2016
27822530Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes.mSystems2016
26020786Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models.PLoS Comput Biol2015
25053707Genome-wide characterization of light-regulated genes in Neurospora crassa.G3 (Bethesda)2014
23375378Updating and curating metabolic pathways of TB.Tuberculosis (Edinb)2013
23823726The Mycobacterium tuberculosis regulatory network and hypoxia.Nature2013
23935467Reconstruction and validation of a genome-scale metabolic model for the filamentous fungus Neurospora crassa using FARM.PLoS Comput Biol2013
23525074Genomics of Loa loa, a Wolbachia-free filarial parasite of humans.Nat Genet2013
22354958Comparative genomics of enterococci: variation in Enterococcus faecalis, clade structure in E. faecium, and defining characteristics of E. gallinarum and E. casseliflavus.mBio2012
22719234Metabolic reconstruction for metagenomic data and its application to the human microbiome.PLoS Comput Biol2012
22452820Comparative analysis of Mycobacterium and related Actinomycetes yields insight into the evolution of Mycobacterium tuberculosis pathogenesis.BMC Genomics2012
22606312Inferring carbon sources from gene expression profiles using metabolic flux models.PLoS One2012
21931557Comparative and functional genomics of Rhodococcus opacus PD630 for biofuels development.PLoS Genet2011
22046142Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis.PLoS Genet2011
20488753TB database 2010: overview and update.Tuberculosis (Edinb)2010
19232131A fragile metabolic network adapted for cooperation in the symbiotic bacterium Buchnera aphidicola.BMC Syst Biol2009
19714220Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production.PLoS Comput Biol2009
18159947Patterns and implications of gene gain and loss in the evolution of Prochlorococcus.PLoS Genet2007
14583118From annotated genomes to metabolic flux models and kinetic parameter fitting.OMICS2003
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Collaborators

Young-Mo Kim
Hanyang University
Co-authored papers 7
Kristin E Burnum-Johnson
Pacific Northwest National Laboratory
Co-authored papers 6
Yuqian Gao
Co-authored papers 5
Bobbie-Jo M Webb-Robertson
Pacific Northwest National Laboratory
Co-authored papers 4
Bruce W Birren
Broad Institute of MIT and Harvard
Co-authored papers 4
Christopher A Desjardins
Broad Institute
Co-authored papers 4
Erika M Zink
Pacific Northwest National Laboratory
Co-authored papers 3
Brian J Haas
Broad Institute of MIT and Harvard
Co-authored papers 3
Jay C Dunlap
Geisel School of Medicine at Dartmouth
Co-authored papers 3
George M Church
Harvard Medical School
Co-authored papers 2
Deepti Tanjore
Lawrence Berkeley National Laboratory
Co-authored papers 2
Michael Koehrsen
The Broad Institute
Co-authored papers 2
Nathan J Hillson
Lawrence Berkeley National Laboratory
Co-authored papers 2
Jennifer R Wortman
Broad Institute of MIT and Harvard
Co-authored papers 2
Ernesto S Nakayasu
Co-authored papers 2
Chinnappa D Kodira
GE Global Research Center
Co-authored papers 2
Blake A Simmons
Joint BioEnergy Institute, USA Lawrence Berkeley National Laboratory
Co-authored papers 2
Gregg T Beckham
Center for Bioenergy Innovation, Oak Ridge National Laboratory
Co-authored papers 2
Paul A Godfrey
Institute of Technology, Broad Institute of Harvard and Massachusetts
Co-authored papers 2
Jonathan M Dreyfuss
Joslin Diabetes Center, Harvard Medical School
Co-authored papers 2
Jennifer J Loros
Geisel School of Medicine at Dartmouth
Co-authored papers 1
Aurelien Dugourd
Institute of Experimental Medicine and Systems Biology, RWTH Aachen University
Co-authored papers 1
Lisa M Bramer
Co-authored papers 1
Johannes B Goll
.The Emmes Corporation
Co-authored papers 1
Lee Ann McCue
Pacific Northwest National Laboratory
Co-authored papers 1
Deb Agarwal
Lawrence Berkeley National Laboratory
Co-authored papers 1
Catherine A Ball
Co-authored papers 1
Reinhard Schneider
Co-authored papers 1
Thomas L Fillmore
Pacific Northwest National Laboratory
Co-authored papers 1
Jess Sustarich
Joint BioEnergy Institute
Co-authored papers 1
Release 1.2