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des Systmes Vivants Doctoral School Structure and Dynamics of - - PowerPoint PPT Presentation

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SDSV SDSV Ecole Doctorale Structure et Dynamique des Systmes Vivants Doctoral School Structure and Dynamics of Living Systems SDSV SDSV 1. Who Im ? 2. The Paris-Saclay Context 3. Brief history of SDSV 4.

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Ecole Doctorale « Structure et Dynamique des Systèmes Vivants » Doctoral School « Structure and Dynamics

  • f Living Systems »

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1. Who I’m? 2. The Paris-Saclay Context 3. Brief history of SDSV 4. The SDSV Doctoral School

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1. Who I’m? 2. The Paris-Saclay Context 3. Brief history of SDSV 4. The SDSV Doctoral School

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Professor at Paris-Sud University Laboratoire Evolution, Génomes, Comportement, Spéciation UMR 9191 Campus de Gif-sur-Yvette Pierre CAPY

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  • Who I’m?
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  • Mobilome: Jumping Gene

Who I’m?

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  • Who I’m?
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  • The World of transposable elements (selfish DNA)
  • Structural impact on genomes
  • Impact on genome expression and regulation
  • Regulation of their activity through small RNA (epigenetics)
  • Relationship between stress and TE activity
  • Dynamics in genomes, populations and species

Who I’m?

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1. Who I’m? 2. The Paris-Saclay Context 3. Before SDSV 4. The Doctoral School SDSV

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Paris-Saclay University

Evry-Val d’Essonne University Paris-Sud/Orsay UniversitY

CNRS Gif/Yvette CEA Saclay INRA Jouy-en-Josas INRA Versailles Ecole Polytechnique AgroParisTech ENS

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  • The Paris-Saclay Context
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Life Sciences

  • 3 Schools (Masters)
  • 1 department
  • 8 Doctoral Schools

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  • The Paris-Saclay Context
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  • The Paris-Saclay Context
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1. Who I’m? 2. The Paris-Saclay Context 3. Before SDSV 4. The SDSV Doctoral School

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Old structures

GGC GAO Large overlap between GAO et GGC GAO = From Genomes to Organisms GGC = Genes, Genomes, Cells

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  • Before SDSV
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Common fields

  • Molecular Genetics
  • Cellular Genetics
  • Human Genetics
  • Human, animal, vegetal and microbial

Genomics

  • Structural and functional Genomics
  • Structural Biology
  • Cellular Biology
  • Developmental Biology
  • Bacteriology, Virology
  • Synthetic and Systemic Biology

GGC “Genes, Genomes, Cells”

Scientific fields

  • Génétique moléculaire
  • Génétique quantitative
  • Génétique des populations
  • Génomique structurale et fonctionnelle
  • Biologie structurale
  • Biologie cellulaire
  • Microbiologie
  • Biologie du développement et évolution

moléculaire

  • Bactériologie, Virologie
  • Pathologies du métabolisme des génomes
  • Cancers liés aux altérations des fonctions

génétiques et génomiques

  • Impact fonctionnel et évolutif des

phénomènes épigénétiques

  • Biologie systémique

GAO “From Genomes to Organisms”

Scientific fields

  • Génétique moléculaire
  • Génétique cellulaire
  • Génétique humaine
  • Génomique humaine, animale, végétale et

microbienne

  • Génomique structurale et fonctionnelle
  • Biologie structurale
  • Biologie cellulaire
  • Biologie du développement
  • Biochimie et biologie moléculaire,
  • Thérapie génique et cellulaire
  • Bactériologie, parasitologie, virologie
  • Biocatalyse
  • Biologie synthétique et systémique
  • Biophysique moléculaire
  • Relations hôtes parasites
  • Mathématiques, Statistiques, Physique, Chimie

et Informatique pour la biologie

  • Immunologie
  • Neurosciences
  • Biomécanique des perf. motrices

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  • Before SDSV
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Old structures

GGC GAO Large overlap between GAO et GGC

Merging of the two doctoral Schools

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  • Before SDSV

Structure and Dynamics of Living Systems in 2015

New structure

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1. Who I’m? 2. The Paris-Saclay Context 3. Before SDSV 4. The SDSV Doctoral School

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  • Structure and spatial organization of macromolecules
  • Structural and functional dynamics of genomes
  • Environmental genomics and transcriptomics
  • Molecular, cellular and developmental processes
  • Molecular evolution (structural and functional)
  • Gene and cell therapies
  • Microbiology, virology
  • Immunology, hematology
  • Population genetics and genomics and quantitative genetics
  • Chemistry, physics, mathematics and bioinformatics for systems understanding in an

integrative approach (Living Systems Modeling, Systems Biology, Synthetic Biology)

Definition of SDSV

Scientific domains

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  • The SDSV Doctoral School
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  • Research organisms and Universities : UPSud, UVSQ, UEVE, ENS, CNRS, INRA, CEA, INSERM, Curie

Institute, Pasteur Institute, Jacques Monod Institute, several hospitals…

  • I2BC (Institute for Integrative Biology of the Cell)
  • IPS2 (Institute Plant Science Paris-Saclay)
  • NeuroPSI (Paris-Saclay Institute of Neuroscience)
  • IDEEV (Institute of Diversity, Ecology and Evolution)
  • MC2I (Cell Death, Inflammation, Infection)
  • National Genotyping Center
  • Micalis Institute
  • IBSS (Institute of Systems Biology and Synthesis)
  • Few groups abroad : USA, Angleterre…
  • …...

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Scientific units

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  • Definition of SDSV

The SDSV Doctoral School

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Management and administrative assistance

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  • The SDSV Doctoral School
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Scientific Board

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Last name First name PR/DR Mr Capy Pierre PR Mme Gonnet Florence PR Mr Mignotte Bernard PR Mr Pernodet Jean-Luc DR Mr Meinnel Thierry DR Mr Werner Michel DR Mme Rogel Gaillard Claire DR Mr Pastre David PR Mr Chiocchia Gilles DR Mr Lespinet Olivier PR Mr Ambroise Christophe PR Mme Dieudonné Marie-Noëlle PR Mme Le Bihan Sandrine ITA

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  • The SDSV Doctoral School
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  • Last name

First name Mme Lama Zoé Doctorante Mme Ait Saada Anissia Doctorante Mme Seffouh Ilham Doctorante Mr Grandon Benjamin Doctorant Mme Clavier Amandine Doctorante Mme Raposo Graca DR Mr Mazel Didier Professeur IP (=DR1) Mr Baldacci Giuseppe PR Mr Nogues Claude CR Mme Tamara Smokvina Danone Nutricia Research Mme Sophie Picot Région des Pays de Loire Mr Grognet Jean-Marc Directeur Général de Génopole Mr Desquier Emmanuel Directeur Genopole Recherche et Plates-formes Mme Morieras Angeline Responsable Recherche Clinique Mr Lirsac Pierre-Noël CELLforCURE/groupe LFB

The SDSV Doctoral School Scientific Board

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Last name First name PR/DR Invited Mr de Vienne Dominique PR Mr Rouyer François DR Mr Aymerich Stéphane DR Mme Petit-Texeira Elisabeth DR Mr Rossignol Jean-Michel Eméritat

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  • Scientific Board

The SDSV Doctoral School

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  • Governmental Fellowships
  • Competitive exam
  • All procedures are on the web site of Paris-Saclay and on that of SDSV
  • https://www.universite-paris-saclay.fr/fr/formation/doctorat/structure-et-

dynamique-des-systemes-vivants-0#l-ecole-doctorale

  • http://www.ed-sdsv.u-psud.fr/

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PhD recruitment

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  • The SDSV Doctoral School
  • External Fellowships (before and after the competitive exam)
  • Audition by the executive committee in autumn
  • Selection criteria
  • Student Curriculum
  • The quality of the training file
  • The rate of supervision of the HDR
  • Relevance and feasibility of the project
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Follow-up of PhD students

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  • Presentation of the doctoral school
  • Structure, rules, right and duty of PhD
  • Annual interview for registrations and re-registrations
  • With one member of the direction team
  • PhD Committee (compulsory)
  • First within 6 months after the first registration,
  • Second year
  • Third year
  • Every year before the next registration

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  • The SDSV Doctoral School
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PhD Committee

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  • The SDSV Doctoral School

Objective The aim of the thesis committee is to review the scientific aspects (on the programming and progress of the work), on the supervision, on the training courses and the professional project of the PhD student. Composition The thesis committee consists of at least two scientific experts from outside the doctoral laboratory (including the tutor) and the thesis supervisor(s). The experts are proposed by the PhD student in consultation with the thesis supervisor(s) and submitted to the Director of the Doctoral School for approval.

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  • PhD Committee

The SDSV Doctoral School

The meeting organization is entirely managed by the doctoral student who must contact the persons concerned sufficiently in advance to respect the deadlines. The proposed sequence of the meeting is as follows:

  • Presentation of the work by the doctoral student and then scientific discussion
  • Discussion on the professional project and the trainings
  • Separate interview of the thesis supervisor(s) by the external experts
  • Separate interview of the student by the external experts.
  • At the end of the meeting, a short report is written by the experts and the tutor.

In particular, this report must give the opinion of the committee on the progression of the thesis project, the achievements at the time of the meeting, the difficulties encountered (scientific or personal) and whether the thesis can be pursued.

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Follow-up of PhD students

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  • Presentation of the doctoral school
  • structure, rules, right and duty of PhD
  • Annual interview for registrations and re-registrations
  • With one member of the direction team
  • PhD Committee (madatory)
  • First within 6 months of the first registration,
  • Second year
  • Third year
  • Every year before the next registration
  • The Day of the Doctoral School
  • In 2019, at the Versaille St-Quentin University
  • Probably the 4th of April
  • Like a workshop – Student in third years can present their works
  • Special talk at the end of the Day

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  • The SDSV Doctoral School
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Day of the Doctoral School

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  • The SDSV Doctoral School
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  • Nicole Le Douarin

Stem Cells Jean-Michel Claverie Giant viruses Laurent Loison Evolution of the gene definition Albert Jacquard Science, ethics, society

The SDSV Doctoral School Day of the Doctoral School

Patrick Winckler Tara Ocean Guillaume Lecointr La Science et la République

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  • The SDSV Doctoral School

Day of the Doctoral School

Maureen O’ Malley From microbiota to human brain 2017 Frédéric Thomas Darwinian medecine 2018

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Follow-up of PhD students

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  • Presentation of the doctoral school
  • structure, rules, right and duty of PhD
  • Annual interview for registrations and re-registrations
  • With one member of the management team
  • PhD Committee (compulsory)
  • First within 6 months of the first registration,
  • Second year
  • Third year
  • Every year before the registration
  • The Day of the Doctoral School
  • In 2019, at the Versaille St-Quentin University
  • In April (probably the 4th of April)
  • Like a workshop – Student in third years can present their works
  • Special talk at the end of the Day
  • ADUM Database
  • Must be maintained during the PhD and during (at least) 3 years after the PhD defence
  • Many informations / survey … will be sent via ADUM

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  • The SDSV Doctoral School
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  • Ask if you are lost….

The SDSV Doctoral School

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  • Thesis = 3 years
  • Possible derogation for a 4th year, if there is a financial support
  • No 5th year
  • Possibility of European PhD

The Thesis

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  • The SDSV Doctoral School
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European Doctrate label

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  • The SDSV Doctoral School
  • Recognition of the European dimension of a doctorate
  • The “European Doctorate”, or “Doctor Europaeus” is a label awarded by Université Paris-Saclay

and applies to the national doctorate diploma, already internationally recognised under the European Undergraduate-Graduate-Post-Graduate framework, and which enables recognition of the European dimension of the PhD project.

  • It is open to PhD students from European Community member countries, and extended to other

states of the European Free Trade Association (Switzerland, Iceland, Norway, Lichtenstein).

  • All European Community institutions authorised to deliver a doctorate can also deliver the

“European Label” upon completion of the oral thesis presentation, subject to the following conditions:

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European Doctrate label

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  • The SDSV Doctoral School
  • The doctorate must, in part, have been prepared during a research internship period of at least

three months in another European country.

  • Oral thesis presentation authorisation is granted on the basis of reports submitted by at least

three professors comprising at least two from higher education institutions from two European countries other than the country in which the oral thesis presentation is to be held. The host laboratory representative cannot submit this report.

  • At least one member of the jury should belong to a European higher education institution from

a different country to that in which the oral thesis presentation is held.

  • Part of the oral thesis presentation should be conducted in an official language of the European

Community which is not the language of the country in which the presentation is held.

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  • Thesis = 3 years
  • Possible derogation for a 4th year, if financing
  • No 5th year
  • Possibility of European PhD
  • Training = 100h
  • We can help you up to 600 € per year

The Thesis

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  • The SDSV Doctoral School
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  • Master Courses
  • Second or first year
  • Check on the web site of the university
  • You do not have to take the exam
  • Doctoral School courses – check in all Docotoral Schools
  • Training in the field of ethics (complusory) – See for instance Polethis Paris-Saclay)
  • Curie Orsay Course, Statistiques with R, Introduction to Biopython …
  • Big Data training (M2 Gen2Ev)
  • Training in the field of imaging
  • ………
  • For the supervisors
  • Training / accompaniment of thesis supervisors

Training

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  • The SDSV Doctoral School
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  • Check the list proposed by Paris-Saclay
  • General trainings
  • Languages, how to write a scientific paper, Doctoriales….
  • Congress, workshop, …
  • We can help you: to 600 € per year
  • Learn a new techniques outside the PhD lab
  • “Science en fête” or “fête de la science”
  • Training to teach
  • Training included in the IRTELIS program
  • ……..

Training

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  • Ask for a certificate to the person in charge of the

training and put it on ADUM The SDSV Doctoral School

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  • Thesis = 3 years
  • Possible derogation for a 4th year, if financing
  • No 5th year
  • Possibility of European PhD
  • Training = 100h
  • We can help you up to 400 € per year (may be more 600 €)
  • A least one paper
  • International Journal (rank A with peer review)
  • First author
  • ADUM
  • Maintain your file with up to date informations

The Thesis

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  • The SDSV Doctoral School
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  • Web sites
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  • Web sites
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  • Web sites
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  • Informations and communication
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Number of teams: about 130 Number of spervisors: 250 Number of PhDs: 270-300

60% of women More than 10 nationalities

Number of geographical sites: 3 Number of Universities: 3

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  • Data of SDSV

The SDSV Doctoral School

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SDSV SDV ABIES Innovation thérapeutique Cancérologie BioSign Santé Publique Common Doctoral space

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Relationship with other Doctoral Schools of Paris-Saclay

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  • The SDSV Doctoral School
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Relationship with other Doctoral Schools of Paris- Saclay

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  • The SDSV Doctoral School

Autumn school: how to build a project?

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HCERES evaluation March 20, 2019

  • You will be invited to this event (but

all will be in french)

  • Will be held at Centrale-SupElec on

the Saclay plateau

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  • The SDSV Doctoral School

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  • The SDSV Doctoral School
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This year: Election of doctoral student representatives

  • Electronic voting - using Balotilo
  • Open on the 10th of December
  • To the 14th of December
  • Vote per site
  • UEVE (Evry)
  • UVSQ (Versailles St Quentin)
  • Paris-Sud, ENS, PSL

UEVE (Number of seats = 1) Julie Lê-Hoang Génoscope UVSQ (Number of seats = 2) Marion Hoareau LGBC Gina Cosentino 2IC Paris-Sud (Number of seats = 2) Thomas Denecker I2BC Mohammed Seba I2BC Laura Belot I2BC Charlotte Mallart I2BC Luisa Ferreira dos Santos I2BC

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  • The SDSV Doctoral School
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Bienvenue à l’Ecole Doctorale « Structure et Dynamique des Systèmes Vivants »

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