Personne
Noushin Hadadi
Cette personne n’est plus à l’EPFL
Publications associées (30)
NICEdrug.ch, a workflow for rational drug design and systems-level analysis of drug metabolism
Vassily Hatzimanikatis, Jasmin Maria Hafner, Homa Mohammadi Peyhani, Noushin Hadadi, Anush Chiappino-Pepe
The discovery of a drug requires over a decade of intensive research and financial investments – and still has a high risk of failure. To reduce this burden, we developed the NICEdrug.ch resource, which incorporates 250,000 bioactive molecules, and studied ...
2021Mechanistic insights into bacterial metabolic reprogramming from omics-integrated genome-scale models
Noushin Hadadi, Vikash Kumar Pandey, Anush Chiappino-Pepe, Merten Morales, Florence Mehl
Understanding the adaptive responses of individual bacterial strains is crucial for microbiome engineering approaches that introduce new functionalities into complex microbiomes, such as xenobiotic compound metabolism for soil bioremediation. Adaptation re ...
NATURE PUBLISHING GROUP2020Enzyme annotation for orphan and novel reactions using knowledge of substrate reactive sites
Vassily Hatzimanikatis, Ljubisa Miskovic, Noushin Hadadi, Marianne Seijo
Thousands of biochemical reactions with characterized activities are “orphan,” meaning they cannot be assigned to a specific enzyme, leaving gaps in metabolic pathways. Novel reactions predicted by pathway-generation tools also lack associated sequences, l ...
PNAS2019Enhanced flux prediction by integrating relative expression and relative metabolite abundance into thermodynamically consistent metabolic models
Vassily Hatzimanikatis, Noushin Hadadi, Vikash Kumar Pandey
The ever-increasing availability of transcriptomic and metabolomic data can be used to deeply analyze and make ever-expanding predictions about biological processes, as changes in the reaction fluxes through genome-wide pathways can now be tracked. Current ...
2019In silico tracing of the fate of single carbon atoms in different physiological states of E. coli
Jasmin Maria Hafner, Noushin Hadadi, Beatriz Lopes Pinto Basto Carreira
Many applications of systems biology such as the simulation of isotope labeling experiments and pathway inference in metabolic engineering rely on atom-level representation of metabolism. Because of its challenging complexity and the difficulty of obtainin ...
2018Discovery and Evaluation of Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors
Vassily Hatzimanikatis, Ljubisa Miskovic, Meriç Ataman, Noushin Hadadi, Milenko Tokic
The limited supply of fossil fuels and the establishment of new environmental policies shifted research in industry and academia towards sustainable production of the 2nd generation of biofuels, with Methyl Ethyl Ketone (MEK) being one promising fuel candi ...
2018Exploring Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors
Vassily Hatzimanikatis, Ljubisa Miskovic, Meriç Ataman, Noushin Hadadi, Milenko Tokic
Limited reserves of oil and natural gas and the establishment of new environmental policies sparked off intensive research towards sustainable production of the 2nd generation of biofuels, with Methyl Ethyl Ketone (MEK) being one promising fuel candidate. ...
2018Design of novel enzyme-catalyzed reactions linked to protein sequences for finding enzyme engineering targets
Vassily Hatzimanikatis, Jasmin Maria Hafner, Homa Mohammadi Peyhani, Noushin Hadadi
A key challenge in metabolic engineering is to find and to improve biosynthetic pathways that lead to the cellular production of a given industrial, pharmaceutical or specialty chemical compound. In many cases, the enzymatic reactions required for bio-prod ...
2017Exploring chemodiversity in metabolism towards the selective integration of chemistry into biology
Vassily Hatzimanikatis, Jasmin Maria Hafner, Noushin Hadadi
The availability of different levels of omics data helps us to observe cells with higher resolution and from different perspectives. Consequently, the computational exploration of metabolism gained more importance in the last decade to make sense of newly ...
2017Evaluating the similarity of biochemical reactions and its uses for mapping novel reactions to protein sequences
Vassily Hatzimanikatis, Homa Mohammadi Peyhani, Noushin Hadadi
A key challenge in metabolic engineering is to design novel or to improve existing biosynthetic pathways that lead to the cellular production of a given industrial or pharmaceutical compound. In many cases, the required enzymatic reactions for the biosynth ...
2017