Recent Publications

Recent Journal Papers

Enhanced flux prediction by integrating relative expression and relative metabolite abundance into thermodynamically consistent metabolic models

V. Pandey; N. Hadadi; V. Hatzimanikatis 

PLOS Computational Biology. 2019-05-13. Vol. 15, num. 5, p. e1007036. DOI : 10.1371/journal.pcbi.1007036.

Control Theory Concepts for Modeling Uncertainty in Enzyme Kinetics of Biochemical Networks

L. Miskovic; M. Tokic; G. Savoglidis; V. Hatzimanikatis 

Industrial & Engineering Chemistry Research. 2019-05-10. DOI : 10.1021/acs.iecr.9b00818.

Investigating the deregulation of metabolic tasks via Minimum Network Enrichment Analysis (MiNEA) as applied to nonalcoholic fatty liver disease using mouse and human omics data

V. Pandey; V. Hatzimanikatis 

PLOS Computational Biology. 2019-04-19. Vol. 15, num. 4, p. e1006760. DOI : 10.1371/journal.pcbi.1006760.

Impact of iron reduction on the metabolism of Clostridium acetobutylicum

C. List; Z. Hosseini; K. Lederballe Meibom; V. Hatzimanikatis; R. Bernier‐Latmani 

Environmental Microbiology. 2019. DOI : 10.1111/1462-2920.14640.

Enzyme annotation for orphan and novel reactions using knowledge of substrate reactive sites

N. Hadadi; H. MohammadiPeyhani; L. Miskovic; M. Seijo; V. Hatzimanikatis 

Proceedings of the National Academy of Sciences. 2019.  p. 201818877. DOI : 10.1073/pnas.1818877116.

Recent Conference Papers, Poster and Talks

ETFL: A Formulation of ME-Models Accounting for Expression and Thermodynamics in Constraint-Based Models

P. G. R. Salvy 

5th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2018), Seattle, WA, USA, October 14-16th 2018.

Predicted responses of a large-scale Pseudomonas putida KT2440 kinetic metabolic model to several single-gene knockouts are consistent with experimental observations

M. Tokic; L. Miskovic; V. Hatzimanikatis 

5th Conference on Constraint-Based Reconstruction and Analysis, Seattle, USA, October 14-16, 2018.

Exploring Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors

M. Tokic; N. Hadadi; M. Ataman; D. Neves; B. E. Ebert et al. 

5th Conference on Constraint-Based Reconstruction and Analysis, Seattle, USA, October 14-16, 2018.

Modeling CLiMP-63 spatio-temporal distribution and its interplay with Post-translational modification

R. A. Denhardt-Eriksson; P. Sandoz; L. Gouzi Abrami; S. Ho; B. Kunz 

5th Conference on Constraint-Based Reconstruction and Analysis, Seattle, United States of America, October 14-16, 2018.

Systematic reduction of genome-scale models for the study of metabolic phenotypes of human cells

M. Masid Barcon; M. Ataman; V. Hatzimanikatis 

Constraint-Based Reconstruction and Analysis (COBRA) 2018, Seattle, USA, 14-16 October 2018.