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Biology and Biochemistry

D-Index
70
Citations
34419
World Ranking
6845
National Ranking
32

Overview

Ines Thiele is affiliated with the National University of Ireland, Galway, in Ireland. Their research primarily spans the fields of biochemistry, genetics, and molecular biology, with extensive work in medicine. The main subfields include molecular biology, physiology, biological psychiatry, clinical biochemistry, and neurology.

The scope of their research covers a variety of topics related to gut microbiota and health, microbial metabolic engineering and bioproduction, metabolomics and mass spectrometry studies, diet and metabolism studies, bioinformatics and genomic networks, tryptophan and brain disorders, and metabolism and genetic disorders.

Frequent collaborators in their scholarly work include Almut Heinken, Johannes Hertel, Ronan M. T. Fleming, Rima Kaddurah-Daouk, and Filippo Martinelli Boneschi.

Thiele has contributed to numerous research articles published in several scientific venues. The most frequent outlets for their work include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Gut Microbes
  • Zenodo (CERN European Organization for Nuclear Research)
  • Bioinformatics
  • Scientific Reports

Among recent published papers are the following:

  • The gut microbial metabolite formate exacerbates colorectal cancer progression, 2022, Nature Metabolism
  • Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine, 2023, Nature Biotechnology
  • Parkinson's disease-associated alterations of the gut microbiome predict disease-relevant changes in metabolic functions, 2020, BMC Biology
  • Personalized whole-body models integrate metabolism, physiology, and the gut microbiome, 2020, Molecular Systems Biology
  • The contribution of gut bacterial metabolites in the human immune signaling pathway of non-communicable diseases, 2021, Gut Microbes

Best Publications

  • What is flux balance analysis

    Jeffrey D Orth;Ines Thiele;Bernhard Ø Palsson

  • Gut microbiota functions: metabolism of nutrients and other food components

    Ian Rowland;Glenn Gibson;Almut Katrin Heinken;Karen Scott

  • The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes

    Ross Overbeek;Tadhg P. Begley;Ralph M. Butler;Jomuna Choudhuri

  • A protocol for generating a high-quality genome-scale metabolic reconstruction.

    Ines Thiele;Ines Thiele;Bernhard Ø Palsson

  • Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

    Jan Schellenberger;Richard Que;Ronan M T Fleming;Ines Thiele

  • Global reconstruction of the human metabolic network based on genomic and bibliomic data

    Natalie C. Duarte;Scott A. Becker;Neema Jamshidi;Ines Thiele

  • Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0

    Laurent Heirendt;Sylvain Arreckx;Thomas Pfau;Sebastián N. Mendoza

  • A community-driven global reconstruction of human metabolism

    Ines Thiele;Neil Swainston;Ronan M T Fleming;Andreas Hoppe

  • Reconstruction of biochemical networks in microorganisms

    Adam M. Feist;Markus J. Herrgård;Ines Thiele;Jennie L. Reed

  • Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota

    Stefania Magnusdottir;Almut Katrin Heinken;Laura Kutt;Dmitry Ravcheev

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

    Elizabeth Brunk;Elizabeth Brunk;Swagatika Sahoo;Daniel C. Zielinski;Ali Altunkaya;Ali Altunkaya

  • Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes.

    Stefanía Magnúsdóttir;Dmitry Ravcheev;Valérie de Crécy-Lagard;Ines Thiele

  • Metabolomics enables precision medicine: "A White Paper, Community Perspective"

    Richard D. Beger;Warwick Dunn;Michael A. Schmidt;Steven S. Gross

  • Towards multidimensional genome annotation

    Jennifer L. Reed;Iman Famili;Ines Thiele;Bernhard O. Palsson

  • The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease.

    Alberto Noronha;Jennifer Modamio;Yohan Jarosz;Elisabeth Guerard

  • Computationally efficient flux variability analysis

    Steinn Gudmundsson;Ines Thiele

  • Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis

    Juan Nogales;Steinn Gudmundsson;Eric M. Knight;Bernhard O. Palsson

  • Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease.

    Almut Katrin Heinken;Dmitry Ravcheev;Federico Baldini;Laurent Heirendt

  • A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory.

    Juan Nogales;Bernhard Ø Palsson;Ines Thiele

  • Expanded Metabolic Reconstruction of Helicobacter pylori (iIT341 GSM/GPR): an In Silico Genome-Scale Characterization of Single- and Double-Deletion Mutants

    Ines Thiele;Thuy D. Vo;Nathan D. Price;Bernhard Ø. Palsson

Frequent Co-Authors

Ronan M. T. Fleming
Ronan M. T. Fleming Leiden University
Bernhard O. Palsson
Bernhard O. Palsson University of California, San Diego
Michael A. Saunders
Michael A. Saunders Stanford University
Nathan D. Price
Nathan D. Price University of Illinois at Urbana-Champaign
Rejko Krüger
Rejko Krüger University of Luxembourg
Nathan E. Lewis
Nathan E. Lewis University of California, San Diego
Adam M. Feist
Adam M. Feist University of California, San Diego
Paul Wilmes
Paul Wilmes University of Luxembourg
Jens Nielsen
Jens Nielsen Chalmers University of Technology
Reinhard Schneider
Reinhard Schneider University of Luxembourg

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