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List of works by Christoph Kaleta

A Genome-Scale Database and Reconstruction of Caenorhabditis elegans Metabolism

scientific article published on 19 May 2016

A parallel algorithm to compute chemical organizations in biological networks

scientific article published on 25 May 2010

Against the stream: relevance of gluconeogenesis from fatty acids for natives of the arctic regions

scientific article

Analyzing molecular reaction networks: from pathways to chemical organizations.

scientific article published on October 2006

BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities

scientific article

Branched-chain amino acid catabolism is a conserved regulator of physiological ageing

scientific article

Can sugars be produced from fatty acids? A test case for pathway analysis tools

article

Can sugars be produced from fatty acids? A test case for pathway analysis tools.

scientific article

Can the whole be less than the sum of its parts? Pathway analysis in genome-scale metabolic networks using elementary flux patterns

scientific article published on 18 June 2009

CeMbio - The Caenorhabditis elegans Microbiome Resource

scientific article published on 15 July 2020

Combining metabolic pathway analysis with Evolutionary Game Theory: explaining the occurrence of low-yield pathways by an analytic optimization approach

scientific article published on 19 May 2011

Computational Investigation of Environment-Noise Interaction in Single-Cell Organisms: The Merit of Expression Stochasticity Depends on the Quality of Environmental Fluctuations.

scientific article published on 10 January 2018

Computing autocatalytic sets to unravel inconsistencies in metabolic network reconstructions

scientific article published on 5 October 2014

Computing chemical organizations in biological networks

scientific article

Computing the shortest elementary flux modes in genome-scale metabolic networks

scientific article published on 30 September 2009

Corrigendum: Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells

scientific article

DNA methylation profile of a hepatosplenic gamma/delta T-cell lymphoma patient associated with response to interferon-α therapy

scientific article published on 20 August 2020

Deciphering the regulation of metabolism with dynamic optimization: an overview of recent advances

scientific article published on 28 July 2017

Defining Division of Labor in Microbial Communities

scientific article published on 28 June 2019

Defining the nutritional input for genome-scale metabolic models: A roadmap

scientific article published on 14 August 2020

Detecting and investigating substrate cycles in a genome-scale human metabolic network

scientific article published on 17 August 2012

Detecting structural invariants in biological reaction networks

scientific article published on January 2012

Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells

scientific article

Dynamic optimization identifies optimal programmes for pathway regulation in prokaryotes.

scientific article published in January 2013

Dynamic optimization reveals alveolar epithelial cells as key mediators of host defense in invasive aspergillosis

scientific article published on 13 December 2021

Elucidating the Influence of Chromosomal Architecture on Transcriptional Regulation in Prokaryotes - Observing Strong Local Effects of Nucleoid Structure on Gene Regulation

scientific article published on 01 September 2020

Epithelial RNase H2 Maintains Genome Integrity and Prevents Intestinal Tumorigenesis in Mice

scientific article published on 28 September 2018

Fitness and stability of obligate cross-feeding interactions that emerge upon gene loss in bacteria

scientific article

Footprints of optimal protein assembly strategies in the operonic structure of prokaryotes.

scientific article

Gut dysbiosis with Bacilli dominance and accumulation of fermentation products precedes late-onset sepsis in preterm infants

scientific article published on 01 July 2019

Hands-on metabolism analysis of complex biochemical networks using elementary flux modes

scientific article published in January 2011

Host-Microbe-Drug-Nutrient Screen Identifies Bacterial Effectors of Metformin Therapy

scientific article published on 29 August 2019

Impact of Chromosomal Architecture on the Function and Evolution of Bacterial Genomes

scientific article published on 27 August 2018

In silico approaches and the role of ontologies in aging research

scientific article

In silico evidence for gluconeogenesis from fatty acids in humans

scientific article published in July 2011

In vitro interaction network of a synthetic gut bacterial community

scientific article published on 02 December 2021

Inhibition of alanine aminotransferase in silico and in vivo promotes mitochondrial metabolism to impair malignant growth

scientific article

Integrated network reconstruction, visualization and analysis using YANAsquare.

scientific article

Integrative inference of gene-regulatory networks in Escherichia coli using information theoretic concepts and sequence analysis ⬇️

scientific article

Less is more: selective advantages can explain the prevalent loss of biosynthetic genes in bacteria

scientific article published on 9 July 2014

Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19

scientific article published on 26 November 2020

Mathematical models for explaining the Warburg effect: a review focussed on ATP and biomass production

scientific article

Metabolic Functions of Gut Microbes Associate With Efficacy of Tumor Necrosis Factor Antagonists in Patients With Inflammatory Bowel Diseases

scientific article published on 18 July 2019

Metabolic costs of amino acid and protein production in Escherichia coli

scientific article published on 15 July 2013

Metabolic network architecture and carbon source determine metabolite production costs.

scientific article published on 30 March 2016

Metastasis of pancreatic cancer: An uninflamed liver micromilieu controls cell growth and cancer stem cell properties by oxidative phosphorylation in pancreatic ductal epithelial cells

scientific article published on 28 March 2019

Microbiomarkers in inflammatory bowel diseases: caveats come with caviar

scientific article published on 21 July 2017

Model-based genome-wide determination of RNA chain elongation rates in Escherichia coli

scientific article published on 8 December 2017

Modeling Meets Metabolomics-The WormJam Consensus Model as Basis for Metabolic Studies in the Model Organism ⬇️

article

Modelling the host-pathogen interactions of macrophages and Candida albicans using Game Theory and dynamic optimization.

scientific article published on July 2017

More than just a metabolic regulator--elucidation and validation of new targets of PdhR in Escherichia coli

scientific article

Natural C. elegans Microbiota Protects against Infection via Production of a Cyclic Lipopeptide of the Viscosin Group

scientific article published on 28 February 2019

Optimal programs of pathway control: dissecting the influence of pathway topology and feedback inhibition on pathway regulation.

scientific article published on 16 May 2015

Optimal regulatory programs for the control of metabolic pathways: The case of feedback inhibition

Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs.

scientific article published on 19 July 2011

Optimality in the zonation of ammonia detoxification in rodent liver.

scientific article published on 5 October 2015

Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism

scientific article

Pervasive Selection for Cooperative Cross-Feeding in Bacterial Communities.

scientific article

Phenotype prediction in regulated metabolic networks

scientific article

Plasticity and epistasis strongly affect bacterial fitness after losing multiple metabolic genes

scientific article published on 27 April 2015

Precision Nutrition in Chronic Inflammation

scientific article published on 23 November 2020

Predicting novel pathways in genome-scale metabolic networks

scientific article published on October 2010

Publisher Correction: Transcriptomic alterations during ageing reflect the shift from cancer to degenerative diseases in the elderly.

scientific article published on 31 May 2019

Response to comment on 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'

article

Special issue: Integration of OMICs datasets into Metabolic Pathway Analysis

Sugar-Induced Obesity and Insulin Resistance Are Uncoupled from Shortened Survival in Drosophila

scientific article published on 19 March 2020

The Inducible Response of the Nematode Caenorhabditis elegans to Members of Its Natural Microbiota Across Development and Adult Life

scientific article published on 07 August 2019

The functional repertoire contained within the native microbiota of the model nematode Caenorhabditis elegans

scientific article published on 04 September 2019

Theoretical study of lipid biosynthesis in wild-type Escherichia coli and in a protoplast-type L-form using elementary flux mode analysis

scientific article published on 20 January 2010

Transcriptomic alterations during ageing reflect the shift from cancer to degenerative diseases in the elderly

scientific article published on 30 January 2018

Uncoupling of mucosal gene regulation, mRNA splicing and adherent microbiota signatures in inflammatory bowel disease.

scientific article

Using chemical organization theory for model checking

scientific article

Voluntary Wheel Running in Old C57BL/6 Mice Reduces Age-Related Inflammation in the Colon but Not in the Brain

scientific article published on 06 February 2022

WormJam: A consensus C. elegans Metabolic Reconstruction and Metabolomics Community and Workshop Series

scientific article published on 6 September 2017

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