matlab scripts matlab2013a Search Results


matlab2017a  (MathWorks Inc)
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customized script matlab2017b  (MathWorks Inc)
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scripts matlab 2013a  (MathWorks Inc)
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Scripts Matlab 2013a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab2019b  (MathWorks Inc)
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matlab scripts matlab2013a  (MathWorks Inc)
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Matlab Scripts Matlab2013a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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2013a  (MathWorks Inc)
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2013a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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custom matlab script matlab2018b  (MathWorks Inc)
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matlab script matlab2015a  (MathWorks Inc)
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matlab 2013a  (MathWorks Inc)
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Matlab 2013a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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code for sumoflux  (MathWorks Inc)
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MathWorks Inc code for sumoflux
From left to right: a schematic representation of the flux ratio; density plot representing <t>SUMOFLUX</t> estimates versus the true flux ratios for in silico data; comparison of the SUMOFLUX and analytic formula estimates for the experimental data; density plot representing analytic formula estimates versus the true flux ratios for in silico data. Vertical error bars in the third panel represent [10–90%] SUMOFLUX prediction quantiles, horizontal error bars represent standard deviation provided with the analytic formula estimate. (a) Glycolysis versus PPP. (b) Pyruvate fraction from the E-D pathway. (c) PEP fraction from gluconeogenesis. (d) Pyruvate fraction from the malic enzyme flux. (e) Oxaloacetate fraction from anaplerosis from PEP. Ratios (a)-(c) were estimated from [1- 13 C] glucose experiment, ratios (d) and (e) were estimated from 20% [U- 13 C] and 80% naturally labeled glucose experiment. 6PG– 6-phosho-D-gluconate; αKG– α-ketoglutarate; AcCoA—acetyl-CoA; E-D—Entner-Doudoroff pathway; F6P –fructose-6-phosphate; Fum—fumarate; G6P –glucose-6-phosphate; Gox—glyoxylate; ICT—isocitrate; KDPG—2-Keto-3-deoxy-6-phosphogluconate; MAE—mean absolute error; Mal—malate; PCC—Pearson correlation coefficient; PEP—phosphoenolpyruvate; PGA—phosphoglycerate; PPP—pentose phosphate pathway.
Code For Sumoflux, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab2019a  (MathWorks Inc)
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MathWorks Inc matlab2019a
From left to right: a schematic representation of the flux ratio; density plot representing <t>SUMOFLUX</t> estimates versus the true flux ratios for in silico data; comparison of the SUMOFLUX and analytic formula estimates for the experimental data; density plot representing analytic formula estimates versus the true flux ratios for in silico data. Vertical error bars in the third panel represent [10–90%] SUMOFLUX prediction quantiles, horizontal error bars represent standard deviation provided with the analytic formula estimate. (a) Glycolysis versus PPP. (b) Pyruvate fraction from the E-D pathway. (c) PEP fraction from gluconeogenesis. (d) Pyruvate fraction from the malic enzyme flux. (e) Oxaloacetate fraction from anaplerosis from PEP. Ratios (a)-(c) were estimated from [1- 13 C] glucose experiment, ratios (d) and (e) were estimated from 20% [U- 13 C] and 80% naturally labeled glucose experiment. 6PG– 6-phosho-D-gluconate; αKG– α-ketoglutarate; AcCoA—acetyl-CoA; E-D—Entner-Doudoroff pathway; F6P –fructose-6-phosphate; Fum—fumarate; G6P –glucose-6-phosphate; Gox—glyoxylate; ICT—isocitrate; KDPG—2-Keto-3-deoxy-6-phosphogluconate; MAE—mean absolute error; Mal—malate; PCC—Pearson correlation coefficient; PEP—phosphoenolpyruvate; PGA—phosphoglycerate; PPP—pentose phosphate pathway.
Matlab2019a, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


From left to right: a schematic representation of the flux ratio; density plot representing SUMOFLUX estimates versus the true flux ratios for in silico data; comparison of the SUMOFLUX and analytic formula estimates for the experimental data; density plot representing analytic formula estimates versus the true flux ratios for in silico data. Vertical error bars in the third panel represent [10–90%] SUMOFLUX prediction quantiles, horizontal error bars represent standard deviation provided with the analytic formula estimate. (a) Glycolysis versus PPP. (b) Pyruvate fraction from the E-D pathway. (c) PEP fraction from gluconeogenesis. (d) Pyruvate fraction from the malic enzyme flux. (e) Oxaloacetate fraction from anaplerosis from PEP. Ratios (a)-(c) were estimated from [1- 13 C] glucose experiment, ratios (d) and (e) were estimated from 20% [U- 13 C] and 80% naturally labeled glucose experiment. 6PG– 6-phosho-D-gluconate; αKG– α-ketoglutarate; AcCoA—acetyl-CoA; E-D—Entner-Doudoroff pathway; F6P –fructose-6-phosphate; Fum—fumarate; G6P –glucose-6-phosphate; Gox—glyoxylate; ICT—isocitrate; KDPG—2-Keto-3-deoxy-6-phosphogluconate; MAE—mean absolute error; Mal—malate; PCC—Pearson correlation coefficient; PEP—phosphoenolpyruvate; PGA—phosphoglycerate; PPP—pentose phosphate pathway.

Journal: PLoS Computational Biology

Article Title: SUMOFLUX: A Generalized Method for Targeted 13 C Metabolic Flux Ratio Analysis

doi: 10.1371/journal.pcbi.1005109

Figure Lengend Snippet: From left to right: a schematic representation of the flux ratio; density plot representing SUMOFLUX estimates versus the true flux ratios for in silico data; comparison of the SUMOFLUX and analytic formula estimates for the experimental data; density plot representing analytic formula estimates versus the true flux ratios for in silico data. Vertical error bars in the third panel represent [10–90%] SUMOFLUX prediction quantiles, horizontal error bars represent standard deviation provided with the analytic formula estimate. (a) Glycolysis versus PPP. (b) Pyruvate fraction from the E-D pathway. (c) PEP fraction from gluconeogenesis. (d) Pyruvate fraction from the malic enzyme flux. (e) Oxaloacetate fraction from anaplerosis from PEP. Ratios (a)-(c) were estimated from [1- 13 C] glucose experiment, ratios (d) and (e) were estimated from 20% [U- 13 C] and 80% naturally labeled glucose experiment. 6PG– 6-phosho-D-gluconate; αKG– α-ketoglutarate; AcCoA—acetyl-CoA; E-D—Entner-Doudoroff pathway; F6P –fructose-6-phosphate; Fum—fumarate; G6P –glucose-6-phosphate; Gox—glyoxylate; ICT—isocitrate; KDPG—2-Keto-3-deoxy-6-phosphogluconate; MAE—mean absolute error; Mal—malate; PCC—Pearson correlation coefficient; PEP—phosphoenolpyruvate; PGA—phosphoglycerate; PPP—pentose phosphate pathway.

Article Snippet: MATLAB code for SUMOFLUX and example scripts are available at http://www.imsb.ethz.ch/research/zamboni/resources.html All scripts are compatible with MATLAB 2013a (MathWorks Inc).

Techniques: In Silico, Comparison, Standard Deviation, Labeling

(a) A schematic representation of the glyoxylate shunt, TCA cycle and anaplerosis from PEP flux fractions. (b) Density plot representing SUMOFLUX estimates for the flux fraction from glyoxylate shunt versus the true flux ratios for in silico data. (c) Density plot representing SUMOFLUX estimates for the flux fraction from the TCA cycle versus the true flux ratios for in silico data. Both ratios were resolved for experiment with 20% [U- 13 C] and 80% naturally labeled glucose. (d) Predictions for the three flux fractions for the experimental data. αKG– α-ketoglutarate; AcCoA—acetyl-CoA; Fum—fumarate; Gox—glyoxylate; ICT—isocitrate; MAE—mean absolute error; Mal—malate; PEP—phosphoenolpyruvate; TCA—tricarboxylic acid cycle.

Journal: PLoS Computational Biology

Article Title: SUMOFLUX: A Generalized Method for Targeted 13 C Metabolic Flux Ratio Analysis

doi: 10.1371/journal.pcbi.1005109

Figure Lengend Snippet: (a) A schematic representation of the glyoxylate shunt, TCA cycle and anaplerosis from PEP flux fractions. (b) Density plot representing SUMOFLUX estimates for the flux fraction from glyoxylate shunt versus the true flux ratios for in silico data. (c) Density plot representing SUMOFLUX estimates for the flux fraction from the TCA cycle versus the true flux ratios for in silico data. Both ratios were resolved for experiment with 20% [U- 13 C] and 80% naturally labeled glucose. (d) Predictions for the three flux fractions for the experimental data. αKG– α-ketoglutarate; AcCoA—acetyl-CoA; Fum—fumarate; Gox—glyoxylate; ICT—isocitrate; MAE—mean absolute error; Mal—malate; PEP—phosphoenolpyruvate; TCA—tricarboxylic acid cycle.

Article Snippet: MATLAB code for SUMOFLUX and example scripts are available at http://www.imsb.ethz.ch/research/zamboni/resources.html All scripts are compatible with MATLAB 2013a (MathWorks Inc).

Techniques: In Silico, Labeling