Jens B Nielsen
Jens Nielsen has an MSc degree in Chemical Engineering and a PhD degree (1989) in Biochemical Engineering from the Technical University of Denmark (DTU), and after that established his independent research group and was appointed full Professor there in 1998. He was Fulbright visiting professor at MIT in 1995-1996. At DTU he founded and directed Center for Microbial Biotechnology. In 2008 he was recruited as Professor and Director to Chalmers University of Technology, Sweden, where he build a research group of more than 60 people. In 2019 he too the position as CEO of the BioInnovation Institute in Denmark. Jens Nielsen has published so far more than 700 papers that have been cited more than 68,000 times (current H-factor 119), and co-authored more than 40 books. He is inventor of more than 50 patents and has founded several biotech companies. He has received numerous Danish and international awards and is member of the Academy of Technical Sciences in Denmark, National Academy of Engineering in USA, National Academy of Science in USA, Chinese Academy of Engineering, the Royal Danish Academy of Science and Letters, the American Institute for Medical and Biological Engineering, the American Academy of Microbiology, the Royal Swedish Academy of Engineering Sciences, the Royal Swedish Academy of Sciences, and the Royal Society of Arts and Sciences in Gothenburg. He is a founding president of the International Metabolic Engineering Society.
Showing 682 publications
Fine-tuning of p-coumaric acid synthesis to increase (2S)-naringenin production in yeast
Engineering yeast for high-level production of diterpenoid sclareol
The acute effect of different NAD+ precursors included in the combined metabolic activators
Fine-tuning of p-coumaric acid synthesis to increase (2S)-naringenin production in yeast
Engineering yeast mitochondrial metabolism for 3-hydroxypropionate production
GotEnzymes: an extensive database of enzyme parameter predictions
Harnessing synthetic biology for mushroom farming
Engineering yeast to produce plant-derived anti-obesity agent
Modeling the metabolic dynamics at the genome-scale by optimized yield analysis
Metabolic engineering of human gut microbiome: Recent developments and future perspectives
Flux regulation through glycolysis and respiration is balanced by inositol pyrophosphates in yeast
Yeast synthetic biology advances biofuel production
Professor Stefan Hohmann (08.09.1956-02.07.2021)
Noninvasive detection of any-stage cancer using free glycosaminoglycans
Innovation trends in industrial biotechnology
Microbial production of chemicals driven by CRISPR-Cas systems
A Pan-Draft Metabolic Model Reflects Evolutionary Diversity across 332 Yeast Species
Learning deep representations of enzyme thermal adaptation
Genome-scale modeling of yeast metabolism: retrospectives and perspectives
Machine learning for data integration in human gut microbiome
Deep learning-based k(cat) prediction enables improved enzyme-constrained model reconstruction
Integrative functional analysis uncovers metabolic differences between Candida species
Bioactive metabolites: The double-edged sword in your food
Yeast has evolved to minimize protein resource cost for synthesizing amino acids
Controlling gene expression with deep generative design of regulatory DNA
A systems biology approach to study non-alcoholic fatty liver (NAFL) in women with obesity
Analysis of normal levels of free glycosaminoglycans in urine and plasma in adults
Microbiome and metabolome features of the cardiometabolic disease spectrum
Multiscale models quantifying yeast physiology: towards a whole-cell model
Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis
Cellular limitation of enzymatic capacity explains glutamine addiction in cancers
Microbiome-derived ethanol in nonalcoholic fatty liver disease
Metabolic reconfiguration enables synthetic reductive metabolism in yeast
Discovery of therapeutic agents targeting PKLR for NAFLD using drug repositioning
Metabolic network remodelling enhances yeast’s fitness on xylose using aerobic glycolysis
Production of β-carotene in Saccharomyces cerevisiae through altering yeast lipid metabolism
A single chromosome strain of S. cerevisiae exhibits diminished ethanol metabolism and tolerance
Metabolic Engineering of Yeast
Mathematical modeling of proteome constraints within metabolism
INetModels 2.0: An interactive visualization and database of multi-omics data
Performance of Regression Models as a Function of Experiment Noise
The Translational Status of Cancer Liquid Biopsies
Yeast optimizes metal utilization based on metabolic network and enzyme kinetics
Production of 10-methyl branched fatty acids in yeast
Systems biology based drug repositioning for development of cancer therapy
Adaptations in metabolism and protein translation give rise to the Crabtree effect in yeast
Synthetic biology advanced natural product discovery
In vitro turnover numbers do not reflect in vivo activities of yeast enzymes
Rational gRNA design based on transcription factor binding data
Combined Metabolic Activators Accelerates Recovery in Mild-to-Moderate COVID-19
Proteome Constraints in Genome-Scale Models
Expression of fungal biosynthetic gene clusters in S. cerevisiae for natural product discovery
Strategies and challenges with the microbial conversion of methanol to high-value chemicals
Engineering yeast metabolism for the discovery and production of polyamines and polyamine analogues
Discovery of Functional Alternatively Spliced PKM Transcripts in Human Cancers
Combinatorial, additive and dose-dependent drug–microbiome associations
Draft genome sequences of five fungal strains isolated from Kefir
Genome-scale insights into the metabolic versatility of Limosilactobacillus reuteri
De novo biosynthesis of bioactive isoflavonoids by engineered yeast cell factories
Yeast based biorefineries for oleochemical production
Bayesian genome scale modelling identifies thermal determinants of yeast metabolism
Addressing the heterogeneity in liver diseases using biological networks
Stratification of patients with clear cell renal cell carcinoma to facilitate drug repositioning
Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community
Machine learning-based investigation of the cancer protein secretory pathway
The yeastGemMap: A process diagram to assist yeast systems-metabolic studies
Transcriptomic response of Saccharomyces cerevisiae to octanoic acid production
Proteome constraints reveal targets for improving microbial fitness in nutrient-rich environments
Fatty acid synthesis is required for breast cancer brain metastasis
Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection
A systems biology approach for studying neurodegenerative diseases
Current Status of COVID-19 Therapies and Drug Repositioning Applications
Current state of aromatics production using yeast: achievements and challenges
Rewiring carbon flux in Escherichia coli using a bifunctional molecular switch
Evolution from adherent to suspension: systems biology of HEK293 cell line development
DSAVE: Detection of misclassified cells in single-cell RNA-Seq data
Building blocks are synthesized on demand during the yeast cell cycle
Third-generation biorefineries as the means to produce fuels and chemicals from CO2
Pan-cancer analysis of the metabolic reaction network
Stress-induced expression is enriched for evolutionarily young genes in diverse budding yeasts
Statin therapy is associated with lower prevalence of gut microbiota dysbiosis
MEMOTE for standardized genome-scale metabolic model testing
The role of peroxisomes in xylose alcoholic fermentation in the engineered Saccharomyces cerevisiae
Improvement in the Current Therapies for Hepatocellular Carcinoma Using a Systems Medicine Approach
Editorial: yeast synthetic biology
Classification of clear cell renal cell carcinoma based on PKM alternative splicing
Metabolic Engineering of Saccharomyces cerevisiae for Rosmarinic Acid Production
Engineering yeast phospholipid metabolism for de novo oleoylethanolamide production
Applications of Genome-Wide Screening and Systems Biology Approaches in Drug Repositioning
Advances in Metabolic Engineering of Saccharomyces cerevisiae for Cocoa Butter Equivalent Production
Nitrogen limitation reveals large reserves in metabolic and translational capacities of yeast
Comprehensive understanding of Saccharomyces cerevisiae phenotypes with whole-cell model WM_S288C
Sources of variation in cell-type RNA-Seq profiles
Yeast systems biology in understanding principles of physiology underlying complex human diseases
Pathway engineering in yeast for synthesizing the complex polyketide bikaverin
Bioprospecting Through Cloning of Whole Natural Product Biosynthetic Gene Clusters
Yeast Systems Biology: Model Organism and Cell Factory
Adaptive laboratory evolution of tolerance to dicarboxylic acids in Saccharomyces cerevisiae
Saccharomyces cerevisiae displays a stable transcription start site landscape in multiple conditions
Big data in yeast systems biology
Modelling approaches for studying the microbiome
Assembly and analysis of the genome sequence of the yeast Brettanomyces naardenensis CBS 7540
Expanding the Dynamic Range of a Transcription Factor-Based Biosensor in Saccharomyces cerevisiae
Proteome analysis of xylose metabolism in Rhodotorula toruloides during lipid production
Metagenomic analysis of bile salt biotransformation in the human gut microbiome
Energy metabolism controls phenotypes by protein efficiency and allocation
Tackling Cancer with Yeast-Based Technologies
Complex I is bypassed during high intensity exercise
Dysregulated autophagy in muscle precursor cells from humans with type 2 diabetes
Machine Learning Applied to Predicting Microorganism Growth Temperatures and Enzyme Catalytic Optima
Recent trends in metabolic engineering of microbial chemical factories
Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model
Antibiotic Lethality Is Impacted by Nutrient Availabilities: New Insights from Machine Learning
Systems biology perspective for studying the gut microbiota in human physiology and liver diseases
Rewiring carbon metabolism in yeast for high level production of aromatic chemicals
METABOLISM: A stress-coping strategy for yeast cells
Model-Assisted Fine-Tuning of Central Carbon Metabolism in Yeast through dCas9-Based Regulation
A bioinformatic pipeline to analyze ChIP-exo datasets
Cell factory engineering for improved production of natural products
The pan-genome of Saccharomyces cerevisiae
Genome-scale model of Rhodotorula toruloides metabolism
Metagenomic analysis of microbe-mediated vitamin metabolism in the human gut microbiome
Metabolic engineering of Saccharomyces cerevisiae for overproduction of triacylglycerols
Metabolite secretion in microorganisms: the theory of metabolic overflow put to the test
Heterologous transporter expression for improved fatty alcohol secretion in yeast
Impact of forced fatty acid synthesis on metabolism and physiology of Saccharomyces cerevisiae
Regulation of yeast-to-hyphae transition in Yarrowia lipolytica
Dynamic engineering of 1-alkenes biosynthesis and secretion in yeast.
Multiplexed CRISPR/Cas9 Genome Editing and Gene Regulation Using Csy4 in Saccharomyces cerevisiae
Coupling cell division to metabolic pathways through transcription
Metabolic engineering of Saccharomyces cerevisiae for production of fatty acid–derived hydrocarbons
Screening of 2A peptides for polycistronic gene expression in yeast
Reprogramming Yeast Metabolism from Alcoholic Fermentation to Lipogenesis
Drug Repositioning for Effective Prostate Cancer Treatment
Systems biology in hepatology: Approaches and applications
Evolution of the Metabolic Engineering Community
Redirection of lipid flux toward phospholipids in yeast increases fatty acid turnover and secretion
Targeting CDK2 overcomes melanoma resistance against BRAF and Hsp90 inhibitors
Changes in lipid metabolism convey acid tolerance in Saccharomyces cerevisiae
Barriers and opportunities in bio-based production of hydrocarbons
Global rewiring of cellular metabolism renders Saccharomyces cerevisiae Crabtree negative
Metabolite Depletion Affects Flux Profiling of Cell Lines
Advancing biotechnology with CRISPR/Cas9: recent applications and patent landscape
High-throughput microfluidics for the screening of yeast libraries
TCSBN: A database of tissue and cancer specific biological networks
Expression of cocoa genes in Saccharomyces cerevisiae improves cocoa butter production
Balanced trafficking between the ER and the Golgi apparatus increases protein secretion in yeast
Investigation of putative regulatory acetylation sites in Fas2p of Saccharomyces cerevisiae
In vitro co-cultures of human gut bacterial species as predicted from co-occurrence network analysis
Guidelines and recommendations on yeast cell death nomenclature
Challenges in modeling the human gut microbiome
Editorial: Where is scientific publishing heading?
Moderate Expression of SEC16 Increases Protein Secretion by Saccharomyces cerevisiae
Type 2 diabetes and obesity induce similar transcriptional reprogramming in human myocytes
Exploiting off-targeting in guide-RNAs for CRISPR systems for simultaneous editing of multiple genes
Anticancer drug discovery through genome-scale metabolic modeling
Metabolic engineering of yeast for fermentative production of flavonoids
Genome scale metabolic modeling of cancer
New challenges to study heterogeneity in cancer redox metabolism
Metabolic engineering frontiers emerging with advanced tools and methodologies
The yeast osmostress response is carbon source dependent
The Impact of Systems Biology on Bioprocessing
Engineering Robustness of Microbial Cell Factories
Predicting growth of the healthy infant using a genome scale metabolic model.
Expanding the product portfolio of fungal type I fatty acid synthases
Systematic inference of functional phosphorylation events in yeast metabolism
Systems Biology of Metabolism: A Driver for Developing Personalized and Precision Medicine
Enabling the synthesis of medium chain alkanes and 1-alkenes in yeast
Physiological characterization of secondary metabolite producing Penicillium cell factories
Engineering central metabolism – a grand challenge for plant biologists
Transcriptional reprogramming in yeast using dCas9 and combinatorial gRNA strategies
Biobased production of alkanes and alkenes through metabolic engineering of microorganisms
Efficient protein production by yeast requires global tuning of metabolism
Comparison of the metabolic response to over-production of p-coumaric acid in two yeast strains
Affibody Scaffolds Improve Sesquiterpene Production in Saccharomyces cerevisiae.
A molecular genetic toolbox for Yarrowia lipolytica
Network analyses identify liver-specific targets for treating liver diseases
Selection of complementary foods based on optimal nutritional values
Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica
METABOLISM: Built on stable catalysts
Metabolic Models of Protein Allocation Call for the Kinetome
Genome-scale metabolic models applied to human health and disease
Improving the economics of NASH/NAFLD treatment through the use of systems biology
Exploring the potential of Saccharomyces cerevisiae for biopharmaceutical protein production
Establishing very long-chain fatty alcohol and wax ester biosynthesis in Saccharomyces cerevisiae
Regulation of amino-acid metabolism controls flux to lipid accumulation in yarrowia lipolytica
Editorial: The Impact of Systems Medicine on Human Health and Disease
In search for symmetries in the metabolism of cancer
Integrative analysis of human omics data using biomolecular networks
Thermotolerant yeasts selected by adaptive evolution express heat stress response at 30 degrees C
Engineering yeast metabolism for production of fuels and chemicals
Functional expression and evaluation of heterologous phosphoketolases in Saccharomyces cerevisiae
Metabolic Trade-offs in Yeast are Caused by F1F0-ATP synthase
Transcriptomics resources of human tissues and organs
Industrial systems biology and its impact on synthetic biology of yeast cell factories
Adaptive Evolution of Phosphorus Metabolism in Prochlorococcus.
Prognostic Value of Plasma and Urine glycosaminoglycan scores in clear cell renal cell carcinoma
Engineering of synthetic, stress-responsive yeast promoters
Flux control through protein phosphorylation in yeast
Adaptation to different types of stress converge on mitochondrial metabolism
Systematic analysis of overall survival and interactions between tumor mutations and drug treatment
Engineering Cellular Metabolism
Production of fatty acid-derived oleochemicals and biofuels by synthetic yeast cell factories
Engineering yeast for high-level production of stilbenoid antioxidants
Human gut microbiota and healthy aging: Recent developments and future prospective
Heme metabolism in stress regulation and protein production: From Cinderella to a key player.
sTrehalose-6-phosphate synthase and stabilization of yeast glycolysis
Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis
Biobased organic acids production by metabolically engineered microorganisms
The gut microbiota modulates host amino acid and glutathione metabolism in mice
Impact of synthetic biology and metabolic engineering on industrial production of fine chemicals
Genetic and nutrient modulation of acetyl-CoA levels in Synechocystis for n-butanol production
New insight into the gut microbiome through metagenomics
Logical transformation of genome-scale metabolic models for gene level applications and analysis
Cancer Metabolism: A Modeling Perspective
Applications of computational modeling in metabolic engineering of yeast
Unlocking the potential of fungi: the QuantFung project
Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome
HCSD: The human cancer secretome database
De novo production of resveratrol from glucose or ethanol by engineered Saccharomyces cerevisiae
From next-generation sequencing to systematic modeling of the gut microbiome
Tissue-based map of the human proteome
Networking in metabolism and human disease
Molecular Mechanism of Flocculation Self-Recognition in Yeast and Its Role in Mating and Survival
Microbial acetyl-CoA metabolism and metabolic engineering
Modular pathway rewiring of Saccharomyces cerevisiae enables high-level production of L-ornithine
RNA-seq analysis of Pichia anomala reveals important mechanisms required for survival at low pH
Do genome-scale models need exact solvers or clearer standards?
New paradigms for metabolic modeling of human cells
Enabling Technologies to Advance Microbial Isoprenoid Production
Stratification of Hepatocellular Carcinoma Patients Based on Acetate Utilization
Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling
Modifying yeast tolerance to inhibitory conditions of ethanol production processes
Yeast cell factories on the horizon: Metabolic engineering in yeast gets increasingly more versatile
How to set up collaborations between academia and industrial biotech companies
Metabolic engineering strategies for microbial synthesis of oleochemicals
Micro-droplet based directed evolution outperforms conventional laboratory evolution
Human metabolic atlas: an online resource for human metabolism
Finding directionality and gene-disease predictions in disease associations
Genome scale models of yeast: towards standardized evaluation and consistent omic integration
Production of natural products through metabolic engineering of Saccharomyces cerevisiae
Long-chain Alkane Production by the Yeast Saccharomyces cerevisiae
Glucose repression in Saccharomyces cerevisiae
Minimum Information about a Biosynthetic Gene cluster
Flux balance analysis predicts essential genes in clear cell renal cell carcinoma metabolism
FEMS yeast research: the yeast community journal