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List of works by Jeremy Zucker

A Histoplasma capsulatum Lipid Metabolic Map Identifies Antifungal Targets

scientific article published on 23 November 2021

A fragile metabolic network adapted for cooperation in the symbiotic bacterium Buchnera aphidicola

scientific article

A framework for human microbiome research

scientific article

ATLAS (Automatic Tool for Local Assembly Structures) - a comprehensive infrastructure for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data

scientific article published on 2 March 2017

COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms ⬇️

journal article from 'Molecular Systems Biology' published in 2021

Comparative analysis of Mycobacterium and related Actinomycetes yields insight into the evolution of Mycobacterium tuberculosis pathogenesis

scientific article

Comparative and functional genomics of Rhodococcus opacus PD630 for biofuels development

scientific article

Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis

scientific article

Comparative genomics of enterococci: variation in Enterococcus faecalis, clade structure in E. faecium, and defining characteristics of E. gallinarum and E. casseliflavus

scientific article

Computational Tools and Data Integration to Accelerate Vaccine Development: Challenges, Opportunities, and Future Directions

Preprint

Corrigendum: The BioPAX community standard for pathway data sharing

correction; published 7 December 2010

Cover Image, Volume 231, Number 11, November 2016.

scientific article published on November 2016

Do-calculus enables estimation of causal effects in partially observed biomolecular pathways

scientific article published on 14 April 2022

Erratum: Corrigendum: The BioPAX community standard for pathway data sharing

scholarly article published in Nature Biotechnology

Genome-wide characterization of light-regulated genes in Neurospora crassa.

scientific article

Genomics of Loa loa, a Wolbachia-free filarial parasite of humans

scientific article

Inferring carbon sources from gene expression profiles using metabolic flux models

scientific article

Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production

scientific article

Leveraging Structured Biological Knowledge for Counterfactual Inference: A Case Study of Viral Pathogenesis

scientific article published on 26 January 2021

Leveraging Structured Biological Knowledge for Counterfactual Inference: a Case Study of Viral Pathogenesis ⬇️

preprint published on 14 January 2021

Metabolic reconstruction for metagenomic data and its application to the human microbiome

scientific article published in 2012

Microbial Community Metabolic Modeling: A Community Data-Driven Network Reconstruction

scientific article

Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes

scientific article

Patterns and implications of gene gain and loss in the evolution of Prochlorococcus

scientific article published in December 2007

Prediction of Metabolite Concentrations, Rate Constants and Post-Translational Regulation Using Maximum Entropy-Based Simulations with Application to Central Metabolism of Neurospora crassa

Reconstruction and validation of a genome-scale metabolic model for the filamentous fungus Neurospora crassa using FARM

scientific article (publication date: 2013)

Structure, function and diversity of the healthy human microbiome

scientific article

Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models

scientific article published on 28 May 2015

TB database 2010: overview and update

scientific article

The BioPAX community standard for pathway data sharing

scientific article (publication date: September 2010)

The Mycobacterium tuberculosis regulatory network and hypoxia

scientific article

Updating and curating metabolic pathways of TB.

scientific article published on January 2013

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