Publication

A computational workflow for the expansion of heterologous biosynthetic pathways to natural product derivatives

Related publications (31)

Polarity Of Almost All Points For Systems Of Nonlinear Stochastic Heat Equations In The Critical Dimension

We study vector-valued solutions u(t, x) is an element of R-d to systems of nonlinear stochastic heat equations with multiplicative noise, ...

INST MATHEMATICAL STATISTICS-IMS2021

The effects of model complexity and size on metabolic flux distribution and control: case study in Escherichia coli

Vassily Hatzimanikatis, Georgios Fengos, Tuure Eelis Hameri

Background Significant efforts have been made in building large-scale kinetic models of cellular metabolism in the past two decades. However, most kinetic models published to date, remain focused around central carbon pathways or are built around ad hoc re ...

BMC2021

Constraint-based metabolic control analysis for rational strain engineering

Ljubisa Miskovic, Vassily Hatzimanikatis, Meriç Ataman, Tuure Eelis Hameri, Sofia Tsouka

The advancements in genome editing techniques over the past years have rekindled interest in rational metabolic engineering strategies. While Metabolic Control Analysis (MCA) is a well-established method for quantifying the effects of metabolic engineering ...

2021

A conceptual simulation workflow to guide design decisions regarding the effects of daylight on occupants' alertness

Marilyne Andersen, Victoria Eugenia Soto Magán, Clotilde Marie A Pierson

Recent developments in the lighting research field have demonstrated the importance of a proper exposure to light to mediate several of our behavioral and physiological responses. However, we spend nowadays around 90% of our time indoors with an often quit ...

IOP PUBLISHING LTD2021

Proteomics of Human Milk: Definition of a Discovery Workflow for Clinical Research Studies

Loïc Dayon

Milk is a complex biological fluid composed mainly of water, carbohydrates, lipids, proteins, and diverse bioactive factors. Human milk represents a unique tailored source of nutrients that adapts during lactation to the specific needs of the developing in ...

2021

Reaction pathways of methane abatement in Pd-Rh three-way catalyst in heavy duty applications: A combined approach based on exhaust analysis, model gas reactor and DRIFTS measurements

Oliver Kröcher, Davide Ferri, Moyu Wang

Methane abatement pathways in Pd/Rh three-way catalysts have been investigated in three scales ranging from a vehicle application size catalyst, a model gas reactor and the catalyst in powder form. A special test rig was designed for the investigation of v ...

ELSEVIER SCIENCE SA2021

Modeling, predicting and mining metabolism at atom-level resolution

Jasmin Maria Hafner

Living organisms can catalyze many thousands of biochemical reactions that they use to convert energy and matter, which provides them with the essentials for life. The sum of these chemical reactions happening in an organism is called metabo-lism. Understa ...

EPFL2020

Algorithms and flowchart for the design of synthetic biochemical networks

Homa Mohammadi Peyhani

New drugs are needed to assure effective therapies for previously untreated diseases, emerging diseases, and personalized medicine, but the process of drug development is complex, costly, and time-consuming. This is especially problematic considering that ...

EPFL2020

On design strategies for binary dielectric metasurfaces based on the Fourier modal method

Kévin Müller

Binary dielectric metasurfaces are arrays of sub-wavelength structures that act as a thin layer of artificial material. They are generally lossless and relatively simple to fabricate since only a single structuring step is required. By carefully designing ...

EPFL2020

Local Non-Rigid Structure-from-Motion from Locally Diffeomorphic Mappings

Pascal Fua, Mathieu Salzmann, Shaifali Parashar

We propose a new formulation to the non-rigid structure-from-motion problem that only requires the deforming surface to meaning that its differential structure is preserved. This is a much weaker assumption than the traditional ones of isometry or conforma ...

2020

AiiDA 1.0, a scalable computational infrastructure for automated reproducible workflows and data provenance

Sebastiaan Philippe Huber, Nicolas Frank Mounet, Nicola Marzari, Fernando Gargiulo, Andrea Cepellotti, Giovanni Pizzi, Leonid Kahle, Aliaksandr Yakutovich, Andrius Merkys, Martin Uhrin, Snehal Pramod Kumbhar, Spyros Zoupanos, Boris Kozinsky, Christoph Leopold Talirz, Elsa Passaro, Conrad Johnston, Casper Welzel Andersen, Carl Simon Adorf, Francisco Fernando Ramirez

The ever-growing availability of computing power and the sustained development of advanced computational methods have contributed much to recent scientific progress. These developments present new challenges driven by the sheer amount of calculations and d ...

2020