Publications by Jacques Rougemont

Multicenter analysis of sputum microbiota in tuberculosis patients

Stewart Cole, Jacques Rougemont, Marion Leleu, Claudia Sala, Andrej Benjak, Philippe Busso

The impact of tuberculosis and of anti-tuberculosis therapy on composition and modification of human lung microbiota has been the object of several investigations. However, no clear outcome has been presented so far and the relationship betweenM.tuberculos ...

2020

Two-Tier Mapper, an unbiased topology-based clustering method for enhanced global gene expression analysis

Cathrin Brisken, Kathryn Hess Bellwald, Jacques Rougemont, Rachel Marcone

Motivation: Unbiased clustering methods are needed to analyze growing numbers of complex data sets. Currently available clustering methods often depend on parameters that are set by the user, they lack stability, and are not applicable to small data sets. ...

2019

Differential regulation of RNA polymerase III genes during liver regeneration

Olivier Martin, Bart Deplancke, Felix Naef, Jacques Rougemont, Marion Leleu, Nicolas Jean Philippe Guex, Fabrice David, Kyle Gustafson, Dominic Villeneuve, Cristian Carmeli

Mouse liver regeneration after partial hepatectomy involves cells in the remaining tissue synchronously entering the cell division cycle. We have used this system and H3K4me3, Pol II and Pol III profiling to characterize adaptations in Pol III transcriptio ...

Oxford University Press (OUP)2019

GETPrime 2.0: gene- and transcript-specific qPCR primers for 13 species including polymorphisms

Bart Deplancke, Jacques Rougemont

GETPrime (http://bbcftools.epfl.ch/getprime) is a database with a web frontend providing geneand transcript-specific, pre-computed qPCR primer pairs. The primers have been optimized for genome-wide specificity and for allowing the selective amplification o ...

Oxford University Press2017

Privacy-enhancing technologies for medical tests using genomic data

Jean-Pierre Hubaux, Jacques Fellay, Erman Ayday, Jacques Rougemont, Jean Louis Raisaro, Mathias Jacques Jean-Marc Humbert, Amalio Telenti

In this invention, we propose privacy-enhancing technologies for medical tests and personalized medicine methods, which utilize patients' genomic data. Assuming the whole genome sequencing is done by a certified institution, we propose to store patients' g ...

2016

Bicaudal C1 promotes pancreatic NEUROG3+ endocrine progenitor differentiation and ductal morphogenesis

Daniel Constam, Anne Grapin-Botton, Jacques Rougemont, Joan Goulley, Yung Hae Kim, Laurence Anne E Lemaire

In human, mutations in bicaudal C1 (BICC1), an RNA binding protein, have been identified in patients with kidney dysplasia. Deletion of Bicc1 in mouse leads to left-right asymmetry randomization and renal cysts. Here, we show that BICC1 is also expressed i ...

Company Of Biologists Ltd2015

Phage-dependent variability of Candidatus ‘Accumulibacter phosphatis’ populations in aerobic granular sludge

Christof Holliger, Julien Maillard, Jacques Rougemont, Aline Sondra Adler

During the past 20 years, aerobic granular sludge (AGS) has been extensively studied with the aim to develop an attractive alternative to conventional activated sludge for wastewater treatment. The phosphate-accumulating organism (PAO) Candidatus ‘Accumuli ...

2015

Analysis of S. pombe SIN protein association to the SPB reveals two genetically separable states of the SIN

Michaël Unser, Daniel Sage, Jacques Rougemont, Viesturs Simanis, Andrea Krapp, Daniel Andreas Schmitter, Anastasia Chasapi, Ioannis Xenarios

The Schizosaccharomyces pombe septation initiation network (SIN) regulates cytokinesis, and asymmetric association of SIN proteins with the mitotic spindle pole bodies (SPBs) is important for its regulation. Here, we have used semi-automated image analysis ...

Company Of Biologists Ltd2015

The Intestinal Microbiota Contributes to the Ability of Helminths to Modulate Allergic Inflammation

Jacques Rougemont, Laure Menin, Nicola Harris, Mario Michael Zaiss, Ilaria Mosconi, Alessandra Piersigilli, Benjamin John Marsland, Lalit Kumar Dubey, Alexis Rapin, Luc Xavier Marie Lebon

Intestinal helminths are potent regulators of their host's immune system and can ameliorate inflammatory diseases such as allergic asthma. In the present study we have assessed whether this anti-inflammatory activity was purely intrinsic to helminths, or w ...

Elsevier2015

Progesterone and Wnt4 control mammary stem cells via myoepithelial crosstalk

Cathrin Brisken, Jacques Rougemont, Ayyakkannu Ayyanan, Marian Caikovski, Duje Buric, Renuga Devi Rajaram

Ovarian hormones increase breast cancer risk by poorly understood mechanisms. We assess the role of progesterone on global stem cell function by serially transplanting mouse mammary epithelia. Progesterone receptor (PR) deletion severely reduces the regene ...

Wiley-Blackwell2015