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1. Metabolic flux analysis
: methods and protocols
by Krömer, Jens O and Nielsen, Lars K and Blank, Lars M
2014, Methods in molecular biology, ISBN 1493911708, Volume 1191
"This book is dedicated to Metabolic Flux Analysis in systems that can be studied under metabolic steady-state or pseudo-steady-state conditions, also called... 
Metabolic Engineering | Metabolites | Systems biology | methods | Metabolome | Research | Metabolic Flux Analysis
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2. Full Text What is flux balance analysis?
by Orth, Jeffrey D and Thiele, Ines and Palsson, Bernhard O
Nature Biotechnology, ISSN 1087-0156, 03/2010, Volume 28, Issue 3, pp. 245 - 248
  Flux balance analysis is a mathematical approach for analyzing the flow of metabolites through a metabolic network. This primer covers the theoretical basis... 
SCALE METABOLIC RECONSTRUCTIONS | MODELS | IN-SILICO | CAPABILITIES | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | INFORMATION | ESCHERICHIA-COLI | NETWORKS | OPTIMIZATION | Systems Biology - methods | Phenotype | Metabolic Networks and Pathways | Models, Biological | Escherichia coli - metabolism | Biomass | Oxygen - metabolism | Mathematical analysis
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3. Metabolic flux analysis
: methods and protocols
by Krömer, Jens O and Nielsen, Lars K and Blank, Lars M and Springer Science+Business Media
2014, Methods in molecular biology, ISBN 1493911708, Volume 1191
Metabolic Engineering | methods | Metabolome | Metabolic Flux Analysis
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4. Plant metabolic flux analysis
: methods and protocols
by Dieuaide-Noubhani, Martine and Alonso, Ana Paula
2014, Methods in molecular biology, ISBN 9781627036887, Volume 1090
methods | metabolism | Plants | Metabolic Flux Analysis
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5. Plant metabolic flux analysis
: methods and protocols
by Dieuaide-Noubhani, Martine and Alonso, Ana Paula and Springer Science+Business Media
2014, Methods in molecular biology, ISBN 9781627036887, Volume 1090
Methodology | methods | metabolism | Plants | Research | Metabolic Flux Analysis | Plant metabolites | Plant molecular biology
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6. Full Text Two-scale 13C metabolic flux analysis for metabolic engineering
by Ando, David and Garcia Martin, Hector and Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Methods in Molecular Biology, ISSN 1064-3745, 2018, Volume 1671, pp. 333 - 352
Accelerating the Design-Build-Test-Learn (DBTL) cycle in synthetic biology is critical to achieving rapid and facile bioengineering of organisms for the... 
Flux analysis | C Metabolic flux analysis | Predictive biology | Omics data | BASIC BIOLOGICAL SCIENCES | 13C Metabolic flux analysis
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7. Full Text From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints
by Klamt, Steffen and Regensburger, Georg and Gerstl, Matthias P and Jungreuthmayer, Christian and Schuster, Stefan and Mahadevan, Radhakrishnan and Zanghellini, Jürgen and Müller, Stefan
PLoS Computational Biology, ISSN 1553-734X, 04/2017, Volume 13, Issue 4, p. e1005409
Elementary flux modes (EFMs) emerged as a formal concept to describe metabolic pathways and have become an established tool for constraint-based modeling and... 
MINIMAL CUT SETS | DEFINITION | GENOME-SCALE MODELS | ALGORITHM | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | GENE-EXPRESSION | NETWORKS | COMPUTATION | CELL | TOOL | GEOMETRY | Metabolism | Models, Biological | Metabolomics | Usage | Vector spaces | Methods | Biotechnology | Funding | Colleges & universities | Linear programming | Genomes | Mathematics | Gene expression | Applied mathematics | Linear algebra | Life sciences | Bioinformatics
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8. Full Text Comparative metabolic flux profiling of melanoma cell lines: Beyond the Warburg effect
by Scott, David A and Richardson, Adam D and Filipp, Fabian V and Knutzen, Christine A and Chiang, Gary G and Ronai, Ze'ev A and Osterman, Andrei L and Smith, Jeffrey W
Journal of Biological Chemistry, ISSN 0021-9258, 12/2011, Volume 286, Issue 49, pp. 42626 - 42634
Metabolic rewiring is an established hallmark of cancer, but the details of this rewiring at a systems level are not well characterized. Here we acquire this... 
TARGET | BIOCHEMISTRY & MOLECULAR BIOLOGY | ADAPTATION | KINASE | GROWTH | SENESCENCE | HYPOXIA | CANCER | EXPRESSION | GLUTAMINE-METABOLISM | Melanoma - metabolism | Gas Chromatography-Mass Spectrometry - methods | Humans | Lactic Acid - metabolism | Glutamine - metabolism | Fermentation | Ketoglutaric Acids - chemistry | Citric Acid Cycle | Skin Neoplasms - metabolism | Melanocytes - cytology | Models, Biological | Glucose - chemistry | Cell Line, Tumor | Glucose - metabolism | Glycolysis | Hypoxia | Metabolic Tracers | Glucose Metabolism | Melanoma | Fatty Acid Metabolism | Glutamine Metabolism | Metabolism
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9. Full Text Somewhat in control — the role of transcription in regulating microbial metabolic fluxes
by Kochanowski, Karl and Sauer, Uwe and Chubukov, Victor
Current Opinion in Biotechnology, ISSN 0958-1669, 2013, Volume 24, Issue 6, pp. 987 - 993
Graphical abstract 
Internal Medicine | YEAST | PROTEIN-DNA INTERACTIONS | BACILLUS-SUBTILIS | CENTRAL CARBON | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | ESCHERICHIA-COLI | GROWTH | BIOCHEMICAL RESEARCH METHODS | GENE-EXPRESSION | GLYCOLYTIC-ENZYMES | SACCHAROMYCES-CEREVISIAE | QUANTITATIVE-ANALYSIS | Metabolic Engineering | Bacteria - metabolism | Feedback, Physiological | Gene Expression Regulation, Bacterial - genetics | Metabolic Networks and Pathways - genetics | Bacteria - enzymology | Transcriptome - genetics | Bacteria - genetics | Genetic transcription
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10. Full Text Transcriptional regulation is insufficient to explain substrate‐induced flux changes in Bacillus subtilis
by Chubukov, Victor and Uhr, Markus and Le Chat, Ludovic and Kleijn, Roelco J and Jules, Matthieu and Link, Hannes and Aymerich, Stephane and Stelling, Jörg and Sauer, Uwe
Molecular Systems Biology, ISSN 1744-4292, 2013, Volume 9, Issue 1, pp. 709 - n/a
One of the key ways in which microbes are thought to regulate their metabolism is by modulating the availability of enzymes through transcriptional regulation.... 
central carbon metabolism | metabolic flux | transcriptional regulation | Central carbon metabolism | PATHWAYS | HIGH-THROUGHPUT | BIOCHEMISTRY & MOLECULAR BIOLOGY | GENE-EXPRESSION REGULATION | ESCHERICHIA-COLI | CARBON FLUXES | SACCHAROMYCES-CEREVISIAE | QUANTITATIVE-ANALYSIS | CATABOLITE REPRESSION | GLYCOLYTIC-ENZYMES | METABOLIC-FLUX | Metabolic Networks and Pathways | RNA, Messenger - genetics | Carbon Isotopes | Transcription, Genetic | Bacillus subtilis - enzymology | Kinetics | Gene Expression Regulation, Bacterial | RNA, Messenger - metabolism | Bacillus subtilis - genetics | Tricarboxylic acid cycle | Enzymes | Metabolomics | Fluctuations | Transcription | Gene regulation | Switches | Biosynthesis | Fluxes | Metabolism | Gene expression | Experiments | Carbon | Substrates | Environmental conditions | Confidence intervals | Metabolic flux | Control | Allosteric properties | Metabolites | Rewiring | Labeling | Life Sciences
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11. Full Text Quantitative flux coupling analysis
by Tefagh, Mojtaba and Boyd, Stephen P
Journal of Mathematical Biology, ISSN 0303-6812, 4/2019, Volume 78, Issue 5, pp. 1459 - 1484
Flux coupling analysis (FCA) aims to describe the functional dependencies among reactions in a metabolic network. Currently studied coupling relations are... 
92C42 | Flux coupling analysis | Mathematical and Computational Biology | Systems biology | FCA | QFCA | Metabolic network analysis | Mathematics | 49N15 | Applications of Mathematics | 90C05 | Flux coupling equation | BASIC CONCEPTS | METABOLIC NETWORKS | BIOLOGY | MATHEMATICAL & COMPUTATIONAL BIOLOGY | Usage | Models | Mathematical models | Algorithms | Metabolism | Fluctuations | Metabolites | Mathematical analysis | Metabolic networks | Dependence | Flux | Genomes | Coupling
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12. Full Text Advances in flux balance analysis
by Kauffman, Kenneth J and Prakash, Purusharth and Edwards, Jeremy S
Current Opinion in Biotechnology, ISSN 0958-1669, 2003, Volume 14, Issue 5, pp. 491 - 496
Biology is going through a paradigm shift from reductionist to holistic, systems-based approaches. The complete genome sequence for a number of organisms is... 
BIOMASS COMPOSITION | UNDERDETERMINED METABOLIC NETWORKS | INVIVO MEASUREMENT | CAPABILITIES | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | ESCHERICHIA-COLI | BIOCHEMICAL RESEARCH METHODS | GENE-EXPRESSION | CONSTRAINTS | OPTIMAL SELECTION | OPTIMAL-GROWTH | STOICHIOMETRIC MODEL | Models, Theoretical | Thermodynamics | Data Interpretation, Statistical | Genome, Bacterial | Escherichia coli - genetics | Computer Simulation | Computational Biology | Escherichia coli - metabolism | metabolic flux
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13. Full Text Computationally efficient flux variability analysis
by Gudmundsson, Steinn and Thiele, Ines
BMC Bioinformatics, ISSN 1471-2105, 09/2010, Volume 11, Issue 1, pp. 489 - 489
Background: Flux variability analysis is often used to determine robustness of metabolic models in various simulation conditions. However, its use has been... 
METABOLIC NETWORK | MODELS | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | RECONSTRUCTION | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | OPTIMIZATION | Metabolic Networks and Pathways | Systems Biology - methods | Computer Simulation | Metabolic regulation | Models | Research | Computational biology | Studies | Computer science | Problems | Metabolites | C plus plus | Biology | Experiments
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14. Full Text Autophagic flux control in neurodegeneration: Progress and precision targeting—Where do we stand?
by Lumkwana, Dumisile and du Toit, Andre and Kinnear, Craig and Loos, Ben
Progress in Neurobiology, ISSN 0301-0082, 06/2017, Volume 153, pp. 64 - 85
Neurodegenerative diseases are characterised by the presence of cytoplasmic and nuclear protein aggregates that result in toxicity and neuronal cell death.... 
Autophagosomes | Alzheimer’s disease | Neurodegeneration | Autophagy defects | Autophagic flux | Autophagolysosomes | Autophagic flux modulation | Lysosomes | Parkison’s disease | Huntington’s disease | Autophagy | Autophagic flux assessment | Parkison's disease | Huntington's disease | Alzheimer's disease | NERVOUS-SYSTEM | ALZHEIMERS-DISEASE | ALPHA-SYNUCLEIN | STARVATION-INDUCED AUTOPHAGY | NEUROSCIENCES | CELL-DEATH | MOUSE MODEL | IN-VIVO | MITOCHONDRIAL DYSFUNCTION | HUNTINGTONS-DISEASE | POLYGLUTAMINE EXPANSIONS | Neurons - pathology | Metabolic Flux Analysis - methods | Neurodegenerative Diseases - pathology | Humans | Treatment Outcome | Evidence-Based Medicine | Neurodegenerative Diseases - drug therapy | Autophagy - drug effects | Apoptosis Regulatory Proteins - metabolism | Animals | Neurodegenerative Diseases - physiopathology | Apoptosis Regulatory Proteins - antagonists & inhibitors | Neurons - metabolism | Models, Neurological | Neurons - drug effects | Neuroprotective Agents - administration & dosage | Molecular Targeted Therapy - methods | Antitubercular agents | Proteins | Nervous system diseases | Magneto-electric machines | Neurons | Cell death | Physiological aspects | Development and progression | Machinery | Index Medicus
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