Jens Nielsen

Research interests

Publications

• Microbiome and metabolome features of the cardiometabolic disease spectrum

  Nature Medicine · 2022 · https://doi.org/10.1038/s41591-022-01688-4

• Microbiome-derived ethanol in nonalcoholic fatty liver disease

  Nature Medicine · 2022 · https://doi.org/10.1038/s41591-022-02016-6

• Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices

  Nature Methods · 2021 · https://doi.org/10.1038/s41592-021-01197-1

• Fatty acid synthesis is required for breast cancer brain metastasis

  Nature Cancer · 2021 · https://doi.org/10.1038/s43018-021-00183-y

• MEMOTE for standardized genome-scale metabolic model testing

  Nature Biotechnology · 2020 · https://doi.org/10.1038/s41587-020-0446-y

• Compositional and functional differences of the mucosal microbiota along the intestine of healthy individuals

  Scientific Reports · 2020 · https://doi.org/10.1038/s41598-020-71939-2

• Statin therapy is associated with lower prevalence of gut microbiota dysbiosis

  Nature · 2020 · https://doi.org/10.1038/s41586-020-2269-x

• The human secretome

  Science Signaling · 2019 · https://doi.org/10.1126/scisignal.aaz0274

• Recon3D enables a three-dimensional view of gene variation in human metabolism

  Nature Biotechnology · 2018 · 10.1038/nbt.4072

• An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans

  Cell Metabolism · 2018 · https://doi.org/10.1016/j.cmet.2018.01.005

• Guidelines and recommendations on yeast cell death nomenclature

  Microbial Cell · 2017 · https://doi.org/10.15698/mic2018.01.607

• Voluntary Running Suppresses Tumor Growth through Epinephrine- and IL-6-Dependent NK Cell Mobilization and Redistribution

  Cell Metabolism · 2016 · 10.1016/j.cmet.2016.01.011

• Engineering Cellular Metabolism

  Cell · 2016 · https://doi.org/10.1016/j.cell.2016.02.004

• Integrated Network Analysis Reveals an Association between Plasma Mannose Levels and Insulin Resistance

  Cell Metabolism · 2016 · https://doi.org/10.1016/j.cmet.2016.05.026

• Roux-en-Y Gastric Bypass and Vertical Banded Gastroplasty Induce Long-Term Changes on the Human Gut Microbiome Contributing to Fat Mass Regulation

  Cell Metabolism · 2015 · 10.1016/j.cmet.2015.07.009

• Tissue-based map of the human proteome

  Science · 2015 · https://doi.org/10.1126/science.1260419

• A community-driven global reconstruction of human metabolism

  Nature Biotechnology · 2013 · 10.1038/nbt.2488

• Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods

  Nucleic Acids Research · 2013 · 10.1093/nar/gkt111

• Gut metagenome in European women with normal, impaired and diabetic glucose control

  Nature · 2013 · https://doi.org/10.1038/nature12198

• Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

  Molecular & Cellular Proteomics · 2013 · https://doi.org/10.1074/mcp.m113.035600

• Symptomatic atherosclerosis is associated with an altered gut metagenome

  Nature Communications · 2012 · https://doi.org/10.1038/ncomms2266

• Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88

  Genome Research · 2011 · https://doi.org/10.1101/gr.112169.110

• Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88

  Gut · 2011 · https://doi.org/10.1136/gutjnl-2011-301104

• OptFlux: an open-source software platform for in silico metabolic engineering

  BMC Systems Biology · 2010 · https://doi.org/10.1186/1752-0509-4-45

• Natural computation meta-heuristics for the in silico optimization of microbial strains

  BMC Bioinformatics · 2008 · https://doi.org/10.1186/1471-2105-9-499

• Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88

  Nature Biotechnology · 2007 · 10.1038/nbt1282

• Evolutionary programming as a platform for in silico metabolic engineering

  BMC Bioinformatics · 2005 · https://doi.org/10.1186/1471-2105-6-308

• Genome-Scale Reconstruction of the Saccharomyces cerevisiae Metabolic Network

  Genome Research · 2003 · 10.1101/gr.234503

• Fuel ethanol production from lignocellulose: a challenge for metabolic engineering and process integration

  Applied Microbiology and Biotechnology · 2001 · 10.1007/s002530100624

• Metabolic Engineering: Principles and Methodologies

  Thammasat University Digital Collections · 1998

Current projects

No projects listed.