Publications by Julien Racle | EPFL Graph Search

Related publications (8)

Mathematical models and computational methods for the analysis of genome-scale protein synthesis

Proteins are a ubiquitous and indispensable element for every living organism, from simple bacteria to mammals. Already in the simplest organisms, there exist some thousands of different protein species that take up a great variety of structures, and thus ...

EPFL2014

A Genome-Scale Integration and Analysis of Lactococcus lactis Translation Data

Vassily Hatzimanikatis, Julien Racle

Protein synthesis is a template polymerization process composed by three main steps: initiation, elongation, and termination. During translation, ribosomes are engaged into polysomes whose size is used for the quantitative characterization of translatome. ...

Public Library of Science2013

Analysis of Translation Elongation Dynamics in the Context of an Escherichia coli Cell

Vassily Hatzimanikatis, Julien Racle, Joana Raquel Pinto Vieira

Understanding the mechanisms behind translation and its rate-limiting steps is crucial for both the development of drug targets and improvement of heterologous protein production with many biotechnological applications, such as in pharmaceutical and biofue ...

Elsevier2016

Machine learning predictions of MHC-II specificities reveal alternative binding mode of class II epitopes

Amédé Noredine Larabi, George Coukos, Florence Pojer, Alexandre Harari, Kelvin Ka Ching Lau, Julien Racle, David Gfeller, Philippe Guillaume Coune

CD4+T cells orchestrate the adaptive immune response against pathogens and cancer by recognizing epitopes presented on class II major histocompatibility complex (MHC-II) molecules. The high polymorphism of MHC-II genes represents an important hurdle toward ...

CELL PRESS2023

Cathepsin S Regulates Antigen Processing and T Cell Activity in Non-Hodgkin Lymphoma

Bruno Emanuel Ferreira De Sousa Correia, George Coukos, Elisa Oricchio, Julien Racle, Sarah Wehrle, Elena Battistello, Jessica Sordet, Natalya Katanayeva, Stephanie Jocelyne Sungalee, Elie Charles Eugène Dheilly

Genomic alterations in cancer cells can influence the immune system to favor tumor growth. In non-Hodgkin lymphoma, physiological interactions between B cells and the germinal center microenvironment are coopted to sustain cancer cell proliferation. We fou ...

2020

A computational framework for the design of optimal protein synthesis

Vassily Hatzimanikatis, Julien Racle

Despite the establishment of design principles to optimize codon choice for heterologous expression vector design, the relationship between codon sequence and final protein yield remains poorly understood. In this work, we present a computational framework ...

Wiley-Blackwell2012

Noise analysis of genome-scale protein synthesis using a discrete computational model of translation

Vassily Hatzimanikatis, Julien Racle, Adam Stefaniuk

Noise in genetic networks has been the subject of extensive experimental and computational studies. However, very few of these studies have considered noise properties using mechanistic models that account for the discrete movement of ribosomes and RNA pol ...

Amer Inst Physics2015

The interplay between tRNA competition and decoding on mRNA translation elongation rate modulation

Vassily Hatzimanikatis, Julien Racle, Joana Raquel Pinto Vieira

Springer2013