Welcome!

This is my personal website.

I am a systems biology/pluripotent stem cell biologist.

I have discovered the research world during my first internship in 2009 in Japan.
Since then, I have developed my skills in the field of stem cells and bioinformatics.
I particularly enjoy to work on multidisciplinary approaches mixing biology, informatics and mathematics.

I did my 4-year PhD at the University of Liverpool (UK), a first 4.5-year postdoc at I-Stem (Genopole, Evry, France) and a second one at TIMC-EHPP (UGA, Grenoble, France).
I am now working with ADLIN Science.

Feel free to contact me!

English resume

French resume

My research interests

The main ones

#StemCells
#SystemsBiology
#omics
#OpenAccess
#DataVisualisation

The current ones

#Dockers
#DataIntegration
#IA

The former ones

#skin
#exposome
#aging

#KnockDown
#lentivirus
#RNAinterference

#dystrophin
#DMD
#ExonSkipping
#HighThroughputScreening

Latest news

#Muscle #DMD #myogenesis #multiOmics #WebApp

I am very pleased to share with you our latest work on human myogenesis and DMD early onset modelling.
We have analysed time series omics on human pluripotent derived cells and found several interesting elements around mitochondria or fibrosis.
But to us, the most important finding is that transcriptional defects appear at the somite stage, before the expression of skeletal muscle markers and before the expression of the muscular dystrophin.

If you are interested, you can find the entire manuscript online , as well as explore the entire datasets via a Shiny app.

Feel free to contact us for any questions or comments you have; we will be happy to discuss.

Upcoming presentations

Research projects

2020/2021 - PostDoc project (3)
A multi-omics approach to study the exposome impact on skin ageing

Keywords: Skin, Ageing, Exposome, Multi-omics, Epigenetics

Publications:

Characterization of the epigenetic profile of epidermis in response to co-exposure to ultraviolet radiations and Benzo[a]pyrene

2015/2019 - PostDoc project (2)
Defining DMD onset during myogenesis using human induced pluripotent stem cells

Keywords: Duchenne myopathy, Duchenne muscular dystrophy, dystrophin, human pluripotent stem cells, omics

Publications:

Duchenne muscular dystrophy: a developmental disease? / La dystrophie musculaire de Duchenne : une maladie du développement ?

Myogenesis modelled by human pluripotent stem cells: a multi‐omic study of Duchenne myopathy early onset

Presentations:

Slides: A multi-omics graphical interface for exploring DMD onset and human muscle development

Slides: Seeing Duchenne muscular dystrophy as developmental disease

Slides: Pluripotent stem cells applied to DMD: A skeletal muscle model, a developmenral model, a screening model

Poster: Duchenne muscular dystrophy in a dish using human pluripotent stem cells: a model effciently recapitulating the disease phenotype

Poster: Duchenne muscular dystrophy, a progressive developmental disease

Galleries - Data:

Bulk mRNA-seq: deposited in the ArrayExpress database at EMBL-EBI under accession number E-MTAB-8321

Bulk miR-seq: deposited in the ArrayExpress database at EMBL-EBI under accession number E-MTAB-8293

Single-cell mRNA-seq: deposited in the ArrayExpress database at EMBL-EBI under accession number E-MTAB-9510

TMT Isobaric quantitative proteomics: deposited in the PRIDE Archive database at EMBL-EBI under accession number PXD015355

Background
Duchenne muscular dystrophy (DMD) causes severe disability of children and death of young men, with an incidence of approximately 1/5000 male births. Symptoms appear in early childhood, with a diagnosis made mostly around 4 years old, a time where the amount of muscle damage is already significant, preventing early therapeutic interventions that could be more efficient at halting disease progression. In the meantime, the precise moment at which disease phenotypes arise—even asymptomatically—is still unknown. Thus, there is a critical need to better define DMD onset as well as its first manifestations, which could help identify early disease biomarkers and novel therapeutic targets.

Methods
We have used both human tissue-derived myoblasts and human induced pluripotent stem cells (hiPSCs) from DMD patients to model skeletal myogenesis and compared their differentiation dynamics with that of healthy control cells by a comprehensive multi-omic analysis at seven time points. Results were strengthened with the analysis of isogenic CRISPR-edited human embryonic stem cells and through comparisons against published transcriptomic and proteomic datasets from human DMD muscles. The study was completed with DMD knockdown/rescue experiments in hiPSC-derived skeletal muscle progenitor cells and adenosine triphosphate measurement in hiPSC-derived myotubes.

Results
Transcriptome and miRnome comparisons combined with protein analyses demonstrated that hiPSC differentiation (i) leads to embryonic/foetal myotubes that mimic described DMD phenotypes at the differentiation endpoint and (ii) homogeneously and robustly recapitulates key developmental steps—mesoderm, somite, and skeletal muscle. Starting at the somite stage, DMD dysregulations concerned almost 10% of the transcriptome. These include mitochondrial genes whose dysregulations escalate during differentiation. We also describe fibrosis as an intrinsic feature of DMD skeletal muscle cells that begins early during myogenesis. All the omics data are available online for exploration through a graphical interface at https://muscle-dmd.omics.ovh/.

Conclusions
Our data argue for an early developmental manifestation of DMD whose onset is triggered before the entry into the skeletal muscle compartment, data leading to a necessary reconsideration of dystrophin roles during muscle development. This hiPSC model of skeletal muscle differentiation offers the possibility to explore these functions as well as find earlier DMD biomarkers and therapeutic targets.

2015/2019 - PostDoc project (1)
Identification of modifiers of the dystrophin gene expression to restore functional proteins using high-throughput techniques on cell progenies derived from human induced pluripotent stem cells

Keywords: Duchenne myopathy, Duchenne muscular dystrophy, dystrophin, exon skipping, human pluripotent stem cells, high throughput screening

Publications: Dp412e: a novel human embryonic dystrophin isoform induced by BMP4 in early differentiated cells

Presentations:

Slides (English): 3MT (English) / MT180 (French) presentation on Duchenne myopathy and exon skipping strategy

Slides (French): 3MT (English) / MT180 (French) presentation on Duchenne myopathy and exon skipping strategy

Galleries:

Video: (French) Saga Jeunes talents - Virginie du Génopole

Video: (French) MT180 presentation on Duchenne myopathy and exon skipping strategy

2010/2014 - PhD project
Defining stemness of human embryonic stem cells using a systems biology approach

Keywords: hESC, pluripotency, differentiation, transcriptome, interactome, RT-qPCR, shRNA, lentivirus, immunofluorescence, Western blot

Publications:

Thesis: Defining stemness of human embryonic stem cells: a systems biology approach

Network based meta-analysis prediction of microenvironmental relays involved in stemness of human embryonic stem cells

A descriptive guide for absolute quantification of produced shRNA pseudotyped lentiviral particles by real-time PCR

Presentations:

Slides: In silico approach to define stemness in human embryonic stem cells

Slides: Mercia Stem Cell Alliance workshop on lentivirus

Slides: Back to the stemhood (teaser talk)

Poster: In silico approach to define stemness in human embryonic stem cells

Poster: Back to the stemhood

Human embryonic stem cells (hESCs) come from the inner cell mass of in vitro fertilized blastocysts. These pluripotent cells are transiently present in vivo and give rise to the three germ layers (endoderm, mesoderm, ectoderm). in vitro, they can be maintained undifferentiated or committed into lineages under specific culture conditions. At present, little is known about the mechanisms that regulate hESC stemness; in particular, the role of cell-cell and cell-matrix interactions has been relatively unexplored.

We propose a top-down approach to identify new extracellular proteins responsible for hESC stemness maintenance. The first step consists of an in silico study, combining the analysis of microarrays and the use of annotated databases, to build and define a hESC transcriptome (8,934 messenger RNAs) and interactome (more than 6,000 proteins and almost 47,000 interactions). This interactome or protein-protein interaction network has been structurally studied and filtered to narrow down it to a short list of 92 candidate proteins, focusing on the extracellular matrix molecules and their links to the transcription factor network. Some of these 92 proteins are already known to be involved in hESC 'stemness' whereas most of them are not yet. The second step comprises an in vitro study where few of these candidates have been selected and their role in maintaining hESC stemness is being assessed. To this end, shRNA technology is used to knockdown candidate gene expression, and the effect this has on the expression of pluripotency markers is investigated using at the mRNA by qPCR and at the protein level by immunofluorescence and Western Blotting.

This Systems Biology approach should bring new clues for a better understanding of the stemness state in order to mobilise the great potential of hESCs.

2010 - Master project (2)
LIF targets in mouse embryonic stem cells - functional test and proteomic approach

Keywords: LIF, mESC, pluripotency, differentiation, transcriptome, proteome, Lifind genes, RT-qPCR, siRNA, iTRAQ^TM, MS

Understanding the action mechanisms of LIF (Leukemia Inhibitory Factor), a cytokine with pleiotropic effects involved in maintenance of pluripotency in mESC, is the objective of my reception laboratory (UMR CNRS 5164 CIRID). The model is composed of 3 states: i) the pluripotency state with LIF-dependent gene expression, ii) the reversible and iii) irreversible commitment toward differentiation where the role of LIF-induced genes have to be defined. A transcriptomic analysis allowed the identification of a cluster of genes named Lifind (for LIF induced) whose expression is induced by addition of LIF after 24 or 48 hours of culture without this cytokine. These conditions correspond to two cell states in which LIF has different effetcs.

The purpose of my placement was to complete the transcriptomic analysis by i) developing a functional test based on siRNA/RT-qPCR strategy to study effects of Lifind genes on pluripotent and committed cells and ii) a proteomic approach (in collaboration with the proteomic platform of Bordeaux2 University), by iTRAQ^TM labelling and mass spectrometry, to identify and quantify most proteins of total cellular lysates obtained from pluripotent or committed cells.

Functional test and proteomic analysis revealed to be first conclusive approaches respectively for the study of Lifind genes and for the comparison of proteomes.

2009 - Master project (1)
Cloning and characterisation of novel moss lipoxygenases

Keywords: lipoxygenase, moss, cloning, sequencing

The Department of Life Science and Biotechnology, which is part of the Faculty of Life and Environmental Science of Shimane University at Matsue (Japan), studies lipids. Cloning, sequencing and characterisation of novel moss lipoxygenases is one of its research focus.

Lipoxygenases were found in Phiscomitrella patens moss and my reception laboratory was searching for novel lipoxygenases in Ricciocarpos natans moss. During my placement, I cloned and sequenced pieces of lypoxygenases. ChromasPro freeware allowed the sequencing analysis. Some portions of a novel lipoxygenase were determined, in particular some restriction sites. Presence of other lipoxygenases into realised clones are to be confirmed.

Full list of oral presentations

03/2012 - UK - Liverpool Postgraduate Symposium - In silico approach to define ‘stemness’ in human embryonic stem cells - 10 minutes
05/2012 - UK - Manchester Life Sciences PhD Conference - In silico approach to define ‘stemness’ in human embryonic stem cells - 20 minutes
06/2012 - FRANCE - Invited by Hélène Boeuf, CNRS UMR CNRS 5164 CIRID, Bordeaux - A Systems Biology approach to define ‘stemness’ in human embryonic stem cells - 40 minutes
01/2013 - UK - Institute of Integrative Biology, Research and Impact Day, Liverpool - Back to the stemhood - a Systems Biology approach identifying external relays involved in stemness of human embryonic stem cells - 2-minute teaser talk
09/2013 - UK - PPI-Net Young Researchers Meeting, Leed - Defining stemness of human embryonic stem cells: A systems biology approach - 15 minutes
02/2014 - UK - Departmental presentation, Liverpool - Defining stemness of human embryonic stem cells: A systems biology approach - 40 minutes
09/2014 - UK - Workshop presentation, Liverpool - Lentivirus approach for knock-in/knock-down studies - 1 hour presentation, co-presented with Sofia Melo Pereira
07/2015 - UK - Invited by TrishMurray, the Physiology department, University of Liverpool - Duchenne muscular dystrophy - Human pluripotent stem cells & Exon skipping strategy - 40 minutes
11/2015 - FRANCE - Opération "1000 Chercheurs dans les Ecoles", Scientific popularisation in high schools- 1 hour presentation * 8 times - Press articles (in French): L-Echo.info & La Montagne
02/2016 - FRANCE - The 5th annual consortium meeting of Revive (Regenerative biology & medicine), Chantilly-Gouvieux - Human pluripotent stem cells: Tools to understand Duchenne myopathies and propose novel therapeutic approaches - 1-minute teaser talk
06/2016 - FRANCE - Genoforum, Evry - Duchenne muscular dystrophy and exon skipping strategy - 3-minute presentation in a 3MT style (Video & Slides)
09/2016 - FRANCE - Forum BiotechPolytech'Marseille - Human pluripotent stem cells: Tools to understand Duchenne muscular dystrophy (DMD) & develop therapeutic approaches - 40 minutes
10/2016 - FRANCE - 2nd workshop onRegenerative Medicine, Bordeaux - Human pluripotent stem cells: Tools to understand Duchenne muscular dystrophy (DMD) & develop therapeutic approaches - 10 minutes (best oral presentation prize)
11/2016 - FRANCE - I-Stem, Corbeil-Essonnes - Project presentation to the Crédit Agricole - Scientific popularisation - 30 minutes
11/2016 - FRANCE - Opération "1000 Chercheurs dans les Ecoles", Scientific popularisation in high schools
01/2017 - FRANCE - The 6th annual consortium meeting of Revive (Regenerative biology & medicine), Chantilly-Gouvieux - Defining an early phenotype of Duchenne muscular dystrophy (DMD): a systems biology approach using human pluripotent stem cells - 15 minutes
02/2017 - FRANCE - External seminar Ecole Polytech’Clermont-Ferrand - 40 minutes
04/2017 - FRANCE - BioTherAlliance meeting – 10 minutes
11/2017 - FRANCE - Opération "1000 Chercheurs dans les Ecoles", Scientific popularisation in high schools
01/2018 - FRANCE - The 7th annual consortium meeting of Revive (Regenerative biology & medicine), Chantilly-Gouvieux - Duchenne muscular dystrophy: a developmental disease? - 15 minutes
11/2018 - FRANCE - Invited by Chantal Housset, Faculté de médecine Pierre et Marie Curie, Paris - Duchenne muscular dystrophy: a human developmental disease - 45 minutes
11/2018 - FRANCE - Opération "1000 Chercheurs dans les Ecoles", Scientific popularisation in high schools
03/2019 - FRANCE - Invited David Israeli, Genethon, Evry - Duchenne muscular dystrophy: a developmental disease - 45 minutes
03/2019 - FRANCE - Invited by Hélène Boeuf, BxCRM, Bordeaux - Duchenne muscular dystrophy: a developmental disease - 45 minutes
04/2019 - FRANCE - The 8th annual consortium meeting of Revive (Regenerative biology & medicine), Chantilly-Gouvieux - Duchenne muscular dystrophy: a developmental disease - 15 minutes
04/2019 - UK - Invited by Trish Murray, the Physiology department, University of Liverpool - Duchenne muscular dystrophy: a developmental disease - 40 minutes
06/2019 - USA - 1^st France-USA Stem cell Symposium, Los Angeles - Duchenne muscular dystrophy: a developmental disease
- 10 minutes
07/2019 - FRANCE - Invited by Laurent Schaeffer, the NeuroMyoGene Institute, Lyon - Duchenne muscular dystrophy: a developmental disease - 40 minutes
07/2019 - FRANCE - Aurastem meeting, Lyon - Duchenne muscular dystrophy: a developmental disease - 10 minutes
09/2019 - JAPAN - Invited by Shin'ichi Takeda, National Institute of neuroscience, Tokyo - Duchenne muscular dystrophy: a developmental disease - Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment - 40 minutes
09/2019 - FRANCE - Invited by Pascal Maire/Athanassia Sotiropoulos, Institut Cochin, Paris - Duchenne muscular dystrophy: a developmental disease - Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment - 40 minutes
10/2019 - FRANCE - Invited by Frederic Relaix, Université Pari-est, Créteil - Duchenne muscular dystrophy: a developmental disease - Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment - 40 minutes
11/2019 - FRANCE - Workshop “Computational systems biology for complex diseases” 2019, Paris-Saclay - Duchenne muscular dystrophy: a developmental disease - Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment - 1 hour
02/2020 - FRANCE - Invited by Nicolas Glade, TIMC-IMAG, Grenoble - Duchenne muscular dystrophy: a developmental disease - Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment - 1 hour

Examples of oral presentations

2021 - A multi-omics graphical interface for exploring DMD onset and human muscle development

2020 - Seeing Duchenne muscular dystrophy as developmental disease

Project 01

Project 02

2018 - Pluripotent stem cells applied to DMD: A skeletal muscle model, a developmenral model, a screening model

Project 01

Project 02

2016 - 3MT (English) / MT180 (French) presentation on Duchenne myopathy and exon skipping strategy

English

French

2015 - In silico approach to define stemness in human embryonic stem cells

2014 - Mercia Stem Cell Alliance workshop on lentivirus

MSCA workshop on lentivirus.pdf

2013 - Back to the stemhood (teaser talk)

Full list of posters

12/2011 - UK - Mercia Stem Cell Alliance, Annual Scientific Meeting, Manchester - In silico approach to define ‘stemness’ in human embryonic stem cells
01/2012 - UK - Institute of Integrative Biology, Research and Impact Day, Liverpool - In silico approach to define ‘stemness’ in human embryonic stem cells
05/2012 - SWITZERLAND - Gordon Research Conference on Fibroblast GrowthFactors in Development & Disease, Les Diablerets - In silico approach to define ‘stemness’ in human embryonic stem cells (co-best poster prize)
12/2012 - UK - Mercia Stem Cell Alliance, Annual Scientific Meeting, Nottingham - Identification and study of proteins potentially involved in ‘stemness’ maintenance of human embryonic stem cells: a top-down approach
01/2013 - UK - Institute of Integrative Biology, Research and Impact Day, Liverpool - Back to the stemhood - a Systems Biology approach identifying external relays involved in stemness of human embryonic stem cells
05/2013 - UK - Manchester Life Sciences PhD Conference - Back to the stemhood - a Systems Biology approach identifying external factors involved in stemness of human embryonic stem cells
10/2013 - GERMANY - Quantitative Single Cell Biology in Stem Cell Researchmeeting, Munich - Back to the stemhood - a Systems Biology approach identifying external factors involved in stemness of human embryonic stem cells
12/2013 - UK - Mercia Stem Cell Alliance, Annual Scientific Meeting, University of Keele - Back to the stemhood - a Systems Biology approach to identify extracellular factors involved in stemness of human embryonic stem cells
01/2014 - UK - Institute of Integrative Biology, Research and Impact Day, Liverpool - Back to the stemhood - a Systems Biology approach to identify extracellular factors involved in stemness of human embryonic stem cells (best poster prize)
04/2014 - UK - Institute of Translational Medicine, Post-Graduate Symposium, Liverpool - Back to the stemhood - a Systems Biology approach to identify extracellular factors involved in stemness of human embryonic stem cells (best poster prize)
06/2015 - FRANCE - Colloques JeunesChercheurs, Journées des Familles 2015, Paris - Duchenne muscular dystrophy: pluripotent stem cells & exon skipping strategy
02/2016 - FRANCE - The 5th annual consortium meeting of Revive (Regenerativebiology & medicine), Chantilly-Gouvieux - Human pluripotent stem cells: Tools to understand Duchenne myopathies and propose novel therapeutic approaches
03/2016 - FRANCE - Myology 2016, 5th International Congress of Myology, Lyon - Duchenne muscular dystrophy: an easy, fast and robust cell platform for developing therapeutic strategies
10/2016 - FRANCE - iForum 2016 - Connect Discover Innovate, Paris - Human pluripotent stem cells: Tools to understand Duchenne muscular dystrophy (DMD) & develop therapeutic approaches
01/2017 - FRANCE - The 6th annual consortium meeting of Revive (Regenerativebiology & medicine), Chantilly-Gouvieux
11/2017 - FRANCE - Annual meeting of the French Society of Myology (SFM), Colmar
11/2017 - FRANCE - Annual meeting of the French Society for Stem CellResearch (FSSCR), Paris
01/2018 - FRANCE - The 7th annual consortium meeting of Revive (Regenerativebiology & medicine), Chantilly-Gouvieux
12/2018 - FRANCE - Annual meeting of the French Society for Stem Cell Research (FSSCR), Nantes
12/2018 - FRANCE - Single-cell meeting, Curie Institute, Paris
03/2019 - FRANCE - Myology 2019, 6th International Congress of Myology, Bordeaux
06/2019 - FRANCE - Maladies Rares congress, Paris
06/2019 - USA - ISSCR annual meeting, Los Angeles
11/2019 - FRANCE - Annual meeting of the French Society for Stem Cell Research (FSSCR), Lyon
11/2019 - FRANCE - Annual meeting of the French Society of Myology (SFM), Marseille

Examples of posters

2019 - Duchenne muscular dystrophy in a dish

Project 01

Project 02

2014 - Back to the stemhood

2012 - In silico approach to define stemness in human embryonic stem cells

Random wet lab pics

Random dry lab pics

2019 Cell biology - Beating heart... in a dish!

2017 (French) Saga Jeunes talents - Virginie du Génopole

2016 (French) MT180 presentation on Duchenne myopathy and exon skipping strategy

2014 The Postgraduate Symposium in 4 minutes

Under construction

2015-2019 - DMD project

Under construction

Muscle-DMD-omics app

Peer-reviewed articles

2022
The Journey of SCAPs (Stem Cells from Apical Papilla), from Their Native Tissue to Grafting: Impact of Oxygen Concentration

Cells . doi.org/10.3390/cells11244098
(previously submitted as preprint to bioRxiv - August 2021)

M. Mavinga, M. Palmier, M. Rémy, C. Jeannière, S. Lenoir, S. Rey, M. Saint-Marc, F. Alonso, E. Génot, N. Thébaud, E. Chevret, V. Mournetas , B. Rousseau, C. Boiziau, H. Boeuf
2022
Gene co-expression network analysis of the human gut commensal bacterium Faecalibacterium prausnitzii in R-Shiny

Plos One . doi.org/10.1371/journal.pone.0271847
(previously submitted as preprint to bioRxiv - July 2022)

S. Auger, V. Mournetas , H. Chiapello, V. Loux, P. Langella, J.-M. Chatel
2022
Loss of full-length dystrophin expression results in major cell-autonomous abnormalities in proliferating myoblasts

eLife . doi.org/10.7554/eLife.75521
(previously submitted as preprint to bioRxiv - August 2021)

M.R.F. Gosselin, V. Mournetas , M. Borczyk, S. Verma, A. Occhipinti, J. Róg, L. Bozycki, M. Korostynski, S. C Robson, C. Angione, C. Pinset, D.C. Gorecki
2021
Myogenesis modelled by human pluripotent stem cells: a multi‐omic study of Duchenne myopathy early onset

Journal of Cachexia, Sarcopenia and Muscle . doi.org/10.1002/jcsm.12665
(previously submitted as preprint to bioRxiv - August 2019)

V. Mournetas , E. Massouridès, J.B. Dupont, H. Polvèche, M. Jarrige, A.R.L. Dorval, M.R.F. Gosselin, A. Manousopoulou, S.D. Garbis, D.C. Górecki, C. Pinset
2019
Efficient genome editing in primary cells and in vivo using viral-derived "Nanoblades" loaded with Cas9/sgRNA ribonucleoproteins

Nature Communications . doi:10.1038/s41467-018-07845-z
(previously submitted as preprint to bioRxiv - October 2017)

P.E. Mangeot, V. Rissons, F. Fusil, A. Marnef, E. Laurent, J. Blin, V. Mournetas , E. Massouridès, T.J.M. Sohier, A. Corbin, F. Aube, C. Pinset, L. Schaeffer, G. Legube, F.-L. Cosset, E. Verhoey, T. Ohlmann, E. P. Ricci
2016
A descriptive guide for absolute quantification of produced shRNA pseudotyped lentiviral particles by real-time PCR

JBM . DOI: 10.14440/jbm.2016.142

V. Mournetas , S. Melo Pereira, D. G. Fernig, P. A. Murray
Murine Embryonic Stem Cell Plasticity Is Regulated through Klf5 and Maintained by Metalloproteinase MMP1 and Hypoxia

Plos One . DOI: 10.1371/journal.pone.0146281

A. A. Hammoud, N. Kirstein, V. Mournetas , A. Darracq, S. Broc, C. Blanchard, D. Zeineddine, M. Mortada, H. Bœuf
2015
Dp412e: a novel human embryonic dystrophin isoform induced by BMP4 in early differentiated cells

Skeletal Muscle . DOI:10.1186/s13395-015-0062-6

E. Massouridès, J. Polentes, P.-E. Mangeot, V. Mournetas , J. Nectoux,N. Deburgrave, P. Nusbaum, F. Leturc, L. Popplewell, G. Dickson, N. Wein, K. M. Flanigan, M. Peschanski, J. Chelly and C. Pinset
2014
Network based meta-analysis prediction of microenvironmental relays involved in stemness of human embryonic stem cells

Peer J . DOI:10.7717/peerj.618
(previously submitted as preprint to PeerJ - June 2014)

V. Mournetas , Q. M. Nunes, P. A. Murray, C. M. Sanderson, D. G. Fernig
2013
The heparin-binding protein interactome in pancreatic diseases

Pancreatology . DOI:10.1016/j.pan.2013.08.004

Q.M. Nunes, V. Mournetas , B. Lane, R. Sutton, D.G. Fernig, O. Vasieva

Reviews

2012
LIF-Dependent Signaling: New Pieces in the Lego.

Stem cell reviews . 8(1):1-15. DOI:10.1007/s12015-011-9261-7

M.-E. Mathieu, C. Saucourt, V. Mournetas , X. Gauthereau, N. Thézé, V. Praloran, P. Thiébaud, H. Bœuf

Preprints

2022
Fusion-negative Rhabdomyosarcoma 3D-organoids as an innovative model to predict resistance to cell death inducers

bioRxiv . doi.org/10.1101/2022.09.06.506756

C. Savary, ..., V. Mournetas , ..., L. Broutier
2022
Gene co-expression network analysis of the human gut commensal bacterium Faecalibacterium prausnitzii based on WGCNA in R-Shiny

bioRxiv . doi.org/10.1101/2022.07.10.499454 (Now published in Plos One - November 2022)

S. Auger, V. Mournetas , H. Chiapello, V. Loux, P. Langella, J.-M. Chatel
2022
A transition support system to build decarbonization scenarios in the academic community

HAL

N. Gratiot,... V. Mournetas ..., I. Michaud-Soret,
2021
Loss of full-length dystrophin expression results in major cell-autonomous abnormalities in proliferating myoblasts

bioRxiv . DOI:10.1101/2021.08.24.457331 (Now published in eLife - September 2022)

M. R. F. Gosselin, V. Mournetas M. Borczyk, L. Bozycki, M. Korostynski, S. C. Robson, C. Pinset, D. C. Górecki,
2019
Myogenesis modelled by human pluripotent stem cells uncovers Duchenne muscular dystrophy phenotypes prior to skeletal muscle commitment

bioRxiv . DOI:10.1101/720920
(Now published in Journal of Cachexia, Sarcopenia and Muscle - February 2021)

V. Mournetas , E. Massouridès, J.-B. Dupont, E. Kornobis, H. Polvèche, M. Jarrige, M. Gosselin, S. D. Garbis, D. C. Górecki, C. Pinset
2017
Efficient genome editing in primary cells and in vivo using viral-derived “Nanoblades” loaded with Cas9/sgRNA ribonucleoproteins

bioRxiv . doi.org/10.1101/202010
(Now published in Nature Communications - January 2019)

P.E. Mangeot, V. Rissons, F. Fusil, A. Marnef, E. Laurent, J. Blin, V. Mournetas , E. Massouridès, T.J.M. Sohier, A. Corbin, F. Aube, C. Pinset, L. Schaeffer, G. Legube, F.-L. Cosset, E. Verhoey, T. Ohlmann, E. P. Ricci
2014
Network based meta-analysis prediction of microenvironmental relays involved in stemness of human embryonic stem cells

Peer J . doi.org/10.7287/peerj.preprints.415v2
(Now published in PeerJ - October 2014)

V. Mournetas , Q. M. Nunes, P. A. Murray, C. M. Sanderson, D. G. Fernig

In preparation

Abstracts

2022
Characterization of the epigenetic profile of epidermis in response to co-exposure to ultraviolet radiations and Benzo[a]pyrene

JID . doi: 10.1016/j.jid.2022.09.243

V. Mournetas , M. Fayyad-kazan, M. Dorr, R. Fitoussi, S. bourgoin, M. Seve, W. Rachidi

Other

2018
Duchenne muscular dystrophy: a developmental disease?La dystrophie musculaire de Duchenne : une maladie du développement ?

Cah. Myol. . doi: 0.1051/myolog/201817016

V. Mournetas , E. Massouridès, E. Kornobis, C. Pinset
2014
THESIS - Defining stemness of human embryonic stem cells: a systems biology approach

2020

1 research article for the Molecular Therapy - Methods & Clinical Development

2019

1 research article for the Canadian Journal of Physiology and Pharmacology

2017 - 2019
Supervising undergraduate students during internship

3 Master2 students
2011 - 2013
Involvement in teaching undergraduate students during practical classes

Demonstration, marking and invigilating (total of 260 hours)
2005 - 2007
Teaching mathematics to secondary school students, private lessons

Lesson/test preparation and marking (total of 50 hours)

Session chairs:

2019

REVIVE annual meeting, Chantilly-Gouvieux, France

2014

Institute of Translational Medicine, Post-Graduate Symposium, Liverpool, UK

2013

Manchester Life Sciences PhD Conference, Manchester, UK

Other:

2019

Member of the “Fondagen Grants for PhD students” evaluation committee
Genopole, Evry, France

2017

Co-organiser of the Genodoc seminars for PhDs and PostDocs
Monthly seminars to highlight career paths

2015 - 2018

Volunteer for "1000 chercheurs dans les écoles"
Once a year seminars in high schools to explain what is research in biology (organised by the AFM-Téléthon )
Press articles (in French): L'Echo.info, La Montagne

2014

Co-organiser of the 5th MSCA Annual Meeting
19th of September 2014, University of Liverpool

2014

Co-organiser of the 1st MSCA Young Investigators Workshop on lentivirus techniques
18th of September 2014, University of Liverpool

2014

Young Investigator committee member of the Mercia Stem Cell Alliance (MSCA) Network

2013 - 2014

Co-website designer/manager and co-social media manager of Scouse Science Alliance blog
Website design and maintenance, social media advertisement ( LinkedIn , Twitter )

2012 - 2014

Laboratory meeting organiser
Schedule preparation, dealing with requests and improvement process

2007 - 2009

Member of the school association of biological department
Website maker
Help to organise a Telethon (Television-Marathon) event in order to raise money for a charitable cause

2019 - Present

International Society for Stem cell Research (ISSCR)

2016 - Present

French Society for Stem cell Research (FSSCR)

2016 / 2019

French Society of Myology (SFM)

2012 - 2016

Biochemical Society

2012 - 2016

Society of Biology

2012 - 2016

British Society for Developmental Biology

Awards

1 best oral communication prize (2016)
3 best poster prizes (2012, 2014, 2014)

Grants

Travel Grant (2019 - 1.500 euros - to go to the ISSCR2019)
Postdoc fellowship (Genopole) (2018 - for 2 years - to hire someone)
'Crédit Agricole' grant, principal investigator (2017 - 30,000 euros)
BioTherAlliance grant, principal investigator (2017 - 10,000 euros)
Postdoc fellowship (Revive Consortium) (2016 - for 2 years and 8 months)
'Fondation Maladies Rares'' GenOmics grant, co-applicant (2016 - 65,000 euros)

[ ] IT skills
[ ] Laboratory skills

Operating environments

Windows
Ubuntu

Presentations

Prezi
Microsoft power point

Bibliographic software

Mendeley
ReadCube

Reproducible research

Git & GitHub
Rmarkdown & knitr
Jupyter lab

Statistics

R
SPSS
Prism GraphPad

Images

Paint.net for image manipulation
ImageJ for image analysis

Programming and Web languages

R & Shiny
Python
SQL
bash-unix scripting

HTML

Databases

DAVID
Gene Ontology for gene annotation
KEGG for pathways
STRING for protein-protein interactions
etc.

Omics analysis (unsupervised & supervised)

Types of omics
Transcriptomics
miRnomics
Proteomics

Types of analysis
Differential expression
Correlation
Clustering (hierarchical & Kmean)
Gene enrichments
Networks

Cell culture

Mouse embryonic stem cells
Human embryonic stem cells
Human induced pluripotent stem cells
HEK 293 cells
From human pluripotent cells to myotubes

Gene expression

long RNA and miRNA extraction (TRIZOL)
cDNA synthesis
Agarose gel
PCR/qPCR

Primer design
Absolute/relative quantification
exon skipping/splicing quantification

Protein detection

Immunofluorescence
Western blot
iTRAQ

Lentivirus production and quantification

bacterial culture
plasmid purification

RNAi strategy

siRNA by Lypofectamine transfection (transient effect)
shRNA by lentiviral transduction (stable effect)

Exon skipping strategy

PMO transfection by electroporation

[ ] Diplomas
[ ] Courses / Training

2020
University degree in integrative biology (DUBII)

Unix, R, Python

Université de Paris, FRANCE
2014
PhD in Stem Cell Systems Biology

University of Liverpool, UK
2010
Research Master qualifying for Doctoral studies specializing in Genetics and Physiology

Université Blaise Pascal, Clermont-Ferrand, FRANCE
Diplôme d’ingénieur (Postgraduate diploma) qualifying for Doctoral studies specializing in Biological Engineering

Microbiology, Biochemical Engineering, Biochemistry, Molecular and Cell Biology, Genetics, Enzymology, Micro-organism and Cell Culture, Metabolism, Protein Engineering

Ecole d’ingénieur Polytech’Clermont-Ferrand, Clermont-Ferrand, FRANCE
2007
A two-year university degree in Applied Mathematics

Analysis, Algebra, Numerical Analysis, Computer Sciences

Université François Rabelais, Tours, FRANCE

2020
DataCamp

Online courses on R, Python and SQL
2018
A 3-day course on R programming

INSERM, Paris, FRANCE
2012
Biotechnology YES (Young Entrepreneur Scheme) Training and Competition
A 1-day course on Quantitative Proteomics

followed by the ProteoMMX2.0 Conference, Chester, UK
2011
A 5-week Developmental Biology Course

Institut Curie and Université Pierre and Marie Curie) , Paris, FRANCE ,in collaboration with the Developmental and Regenerative Biology graduate program of HARVARD University
A 4-day course on mathematical modelling

co-organised by CPIB & SIGNET, University of Nottingham, Nottingham, UK
A 2-week course in Systems Biology: Morphogenesis & Spatial Dynamics

University of California at Irvine, Irvine, California, USA

2017 - now
"Collège Solidaire" member of AlterTour

The French tour of Alternatives - 6 riding weeks to meet players of the ecological transition

Help to organise the Tour
Write tutorials on specific tools for other members
Write blog articles
2006
Member of APNE

An association of the University of Tours (FRANCE) for the protection of nature and the environment

2022 - now
Member of the élèfan

Working 3 hours / month at the L'élèfan , a cooperative & participative groceries store of organic food
2015 / 2018
Volunteer during the Telethon

2-day event every year organised by the AFM-Téléthon to raise money for people with genetic diseases
2015 / 2017
Volunteer during "Les Journées des Familles"

2-day event every two years organised by the AFM-Téléthon

Help to liven up workshops for disable children

Dance: I was a ballet dancer for 10 years (performances in the Grand Théâtre de Limoges, FRANCE), modern jazz dance for 4 years.

Athletism: I practiced athletics for 9 years (individual and team Regional competitions).

Rugby: I enjoy following it.

Bike: It is my main means of transport in my everyday life. I also practise it during my holidays

2016 - now
Sewing

kits, boxes, 'zero waste' replacements for kitchen and bathroom, clothes
2007
Member of the school association of Shell Eco Marathon

An annual competition in which participants build special vehicles to achieve the highest possible fuel efficiency

Pilot of the prototype
2005
AFPS diploma

French First Aid Certificate

2022 - now
Japanese

Learning Japanese

2022 - now
Chess

Member of the chess club 'L'échiquier Grenoblois'

2021 - New paper is out! Shared publicly - 17:00 2021/02/15

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Publication

I am very pleased to share with you our latest work on human myogenesis and DMD early onset modelling.
We have analysed time series omics on human pluripotent derived cells and found several interesting elements around mitochondria or fibrosis. But to us, the most important finding is that transcriptional defects appear at the somite stage, before the expression of skeletal muscle markers and before the expression of the muscular dystrophin.
If you are interested, you can find the entire manuscript here, as well as explore the entire datasets here.

Feel free to contact us for any questions or comments you have; we will be happy to discuss.

2017 - Postdoctoral fellowship offer Shared publicly - 16:07 2017/10/16

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Job offer

The fellowship amount is ranged from € 60,000/year to € 75,000/year (gross salary charged and taxes) according to the experience level of the candidate and is allocated for a maximum of 2 years and is exclusively intended to cover salary costs and related social security contributions.

Genopole-Evry is launching a new call for applications, the objective of which is to grant a fellowship intended to facilitate the return to France of a young researcher trained in France who has completed at least one post-doctoral internship abroad in order to accompany a research project within the Genopole biocluster.

This fellowship is strictly for the sole purpose of:

-A young French or foreign researchers trained in France. i. e. who have obtained their doctorate in France or who have completed at least 3 years of higher education in France.

-And who wish to return to France after a stay abroad.

Studying onset of Duchenne muscular dystrophy during myogenesis from human pluripotent stem cells to identify early markers and therapeutic targets

Duchenne muscular dystrophy (DMD) is the most common form of muscular dystrophy. It is a recessive X-linked monogenic myopathy caused by mutations in the dystrophin gene leading to the loss of a functional protein. Most DMD patients display severe phenotypes that usually appear in early childhood (2-5 years old). These patients, one boy on 3,300 boy births, have a progressive loss of muscle strength implying the use of wheelchair by age 12 and leading to premature death due to cardiac and respiratory failures in their late twenties.

The main role of the muscle long dystrophin isoform is to maintain the homeostasis of adult muscle fibres by participating to membrane stability during contraction. Many converging data and our recent discovery of the existence of an embryonic form of dystrophin specific to the early stage of differentiation in anthropoids lead to propose new functions of this protein during the onset of skeletal muscle differentiation.

Combining the use of cell models derived from human pluripotent stem cells which mimic the earlier phases of differentiation with the exhaustive expression analysis by next-generation-sequencing approaches, our team has been able to show that DMD cells present a specific and complex phenotype from 3 days of differentiation. More precisely, we have been able to identify around 300 genes significantly dysregulated in DMD skeletal muscle progenitors.

From the analysis of high-throughput sequencing data, the postdoctoral researcher will elaborate novel hypotheses on the DMD phenotype during the early phases of development that will be tested in vitro by functional approaches such as gain- and loss-of-function experiments. The goal is to find DMD early markers and/or novel therapeutic targets complementary to the dystrophin rescue. This project should lead us to rethink the dystrophin function(s) during human myogenic differentiation.

If you are interested to apply, please contact : Christian Pinset, MD, CNRS research director

at cpinset@istem.fr

2014 - MSCA Workshop & Annual Meeting Shared publicly - 17:34 2014/06/18

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Symposium

This year, the 5th Mercia Stem Cell Alliance (MSCA) annual meeting

and the 1st MSCA young investigator workshop

are organised by the stem cell research group of the University of Liverpool, UK.

1st MSCA young investigator workshop:

Date: 18/09/2014
Fees: £5 only
Theme: lentivirus techniques for knock-in and knock-out approaches - Production & Quantification
Technical and research presentations
Opportunities for PhD students and postdocs to present their research via oral presentation
Technical ressources will be accessible
Abstract submission (posters & talks) deadline: 15/07/2014
Registration deadline: 31/08/2014

5th MSCA annual meeting:

Date: 19/09/2014
Fees: £10 only
Keynote speaker: Benjamin Dekel, University of Tel Aviv, Israel
Opportunities for PhD students and postdocs to present their research (oral presentation, poster & 2 min poster teaser talk)
Abstract submission (posters & talks) deadline: 23/08/2014 (EXTENDED)
Registration deadline: 31/08/2014

The abstract submission form has to be sent to i.santeramo@liv.ac.uk.

Register via the online store.

For full program, click below:

Questions? Requests? Comments? Contact me!

By email

website@virginie-mournetas.fr

Through social media

Location

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Last update: 12/02/2023

Virginie Mournetas, PhD

Systems Biology

Welcome!

My research interests

Latest news

Upcoming presentations

Research projects

Full list of oral presentations

Examples of oral presentations

Full list of posters

Examples of posters

Random wet lab pics

Carousel content with 8 slides.

hESCs - OCT4/NANOG co-immunostaining

Human embryonic stem cells in culture

Random dry lab pics

Carousel content with 6 slides.

The human embryonic stem cell interactome (6,514 proteins - 46,954 interactions)

2015-2019 - DMD project

Peer-reviewed articles

Reviews

Preprints

In preparation

Abstracts

Other

PostDoc

9-month self-training

A 4.5-year PostDoc

A 4-year PhD project

A 6-month work placement in research laboratory

A 3-month work placement in research laboratory

A 6-month team project

Operating environments

Presentations

Bibliographic software

Reproducible research

Statistics

Images

Programming and Web languages

Databases

Omics analysis (unsupervised & supervised)

University degree in integrative biology (DUBII)

PhD in Stem Cell Systems Biology

Research Master qualifying for Doctoral studies specializing in Genetics and Physiology

Diplôme d’ingénieur (Postgraduate diploma) qualifying for Doctoral studies specializing in Biological Engineering

A two-year university degree in Applied Mathematics

"Collège Solidaire" member of AlterTour

Member of APNE

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Questions? Requests? Comments? Contact me!

By email

Through social media

Location

The human embryonic stem cell interactome
(6,514 proteins - 46,954 interactions)