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3D_CHROME Events

3D_CHROME: 3D CHRomosome Organization: from single Molecule to Evolution

Coordinator: Mireille Bétermier (I2BC)

The 3D_CHROME interdisciplinary research initiative brings together a community of 48 groups of experimental biologists, bioinformaticians, physicists, and mathematicians from 14 different Paris-Saclay institutes, supported by cutting-edge imaging and sequencing platforms. Building on the expertise of 3D_CHROME teams in the study of a wide array of model organisms from all kingdoms of life, our objective is to set up a multidisciplinary research and training network with a core scientific focus on the three-dimensional organization of genomes, which has emerged as a major player in controlling chromosome dynamics and biological processes in living cells. For the I2BC, nineteen research groups and two platforms actively participate in the network.

The main scientific aims of 3D_CHROME are to:
(i) develop innovative microscopy techniques to image chromosomes and chromatin in live cells and analyze the complex molecular machineries that act on DNA.
(ii) develop original high-throughput genomics tools to unravel single-cell genome assemblies and 3D interactomes.
(iii) stimulate interdisciplinary collaborations to study the dynamics of 3D genome organization during biological processes and identify the determinants of spatio-temporal genome organization using both experimental and theoretical modeling strategies.
(iv) examine the reciprocal impact of 3D genome organization on genome evolution.

3D_CHROME was awarded the Paris-Saclay label in October 2016. Thanks to financial support from the Department of Life Sciences, LABEX PALM, LABEX SPS and the contribution of I2BC imaging and sequencing platforms, three workshops will be held in 2017.

- Multiscale imaging of cells and molecular structures (Sept 18-19, 2017)
The aim of the workshop is to share our expertise on cutting-edge approaches to image cells and molecules, from live cell imaging to high-resolution structural analyses. The workshop will include short talks from 3D_CHROME teams, three roundtables focused on practical technological aspects, one poster session and keynotes from two invited speakers.
Information and registration: https://multi-im2017.sciencesconf.org/

- Modelling of 3D genome structure - Integrating genomics and microscopy data (Oct 2-3, 2017):
The workshop will be focused on the modelling of 3D genome / nuclear organization, with talks given by seven or eight invited speakers either having a background in experimental biology or physical modelling of data.
Information and registration: https://mgo2017.sciencesconf.org/

- Recent Developments with Nanopore Sequencing (Oct 9-10, 2017)
The workshop will focus on Nanopore sequencing. Talks will be given by external invited speakers and 3D_CHROME members.
Information and registration: https://pfseqnanopore.sciencesconf.org/

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Agenda

  • From 2 October 13:00 to 3 October 18:00 -

    3D-CHROME Workshop: “Modelling of 3D genome organisation”

    Résumé : MGO2017 Workshop - “Modelling of 3D Genome Organization - Integrating genomics and microscopy data”
    Chromosomes need to be precisely organized within the limited nuclear volume that is available in interphase. Genomics and microscopy studies have revealed that 3D genome organization directly mirrorsbiological functions like gene regulation, recombination and DNA replication and repair. Biophysical and mathematical modelling can provide further insights whether 3D genome organization dictates functional outputs and how much variation is present between individual cells and over time.
    During the workshop 8 internationally renowned experts will discuss recent projects where genomics and microscopy studies are integrated using biophysical and modelling approaches.
    Confirmed speakers:
    • Kerstin Bystricky - LBME, Toulouse
    • Luca Giorgetti, FMI, Switzerland
    • Ivan Junier, TIMC-IMAG, Grenoble
    • Jop Kind, Hubrecht Institute, The Netherlands
    • Julien Mozziconacci, UPMC, Paris
    • Mario Nicodemi, University of Naples and INFN, Italy
    • Cédric Vaillant, Ecole Normale Supérieure, Lyon
    • Juan Vaquerizas, MPI for Molecular Biomedicine, Germany
    The workshop is aimed at scientists with backgrounds in (bio)physics, biology and bioinformatics (PhD students, postdocs, engineers, young and senior scientists). Registration is free of charge but mandatory (https://mgo2017.sciencesconf.org).The number of participants is strictly limited to 150 participants, on a first-come basis, with deadline on the 24th of July. We therefore advise to register as soon as possible. The workshop is organized by the University Paris-Saclay 3D-CHROME Initiative with support from LABEX PALM and LABEX SPS.
    The workshop will be followed by a half-day bioinformatics tutorial on Hi-C data analysis (afternoon of October 3rd) where tools for Hi-C data processing and the calling of functional domains will be discussed by Nicolas Servant (Insitut Curie) and Kai Kruse (MPI for Molecular Biomedicine, Germany). Registration to this tutorial is limited to 20 participants, with selection based on motivation. The tutorial is organized by the University Paris-Saclay PSay-CompBioInitiative.
    Further information at https://mgo2017.sciencesconf.org and in the flyer.

    Lieu : Auditorium - Bâtiment 21, campus de gif


  • From 9 October 14:00 to 10 October 12:00 -

    3D-CHROME Workshop: “Recent development with Nanopore Sequencing”

    Résumé : NanoSep2017 - Recent development with Nanopore Sequencing
    Over the last decade, next-generation sequencing technologies have opened a new era for genomic studies. These technologies are associated with increasing sequencing power but are also limited by short length of sequenced DNA fragments. This limitation has recently been considerably surpassed by technologies that allow sequencing single DNA molecules. This workshop is dedicated to studies using the MinION sequencer (Oxford Nanopore Technologies), a 3rd generation nanopore sequencer that can sequence DNA fragments up to hundreds of kb, as well as full length RNA molecules. This opens the road for unprecedented possibilities in genomics, metagenomics and epigenomics (de novo genome sequencing, genome variant sequencing, identification of messenger RNA isoforms, identification of DNA modifications, etc.). During NanoSeq-2017, internationally renown experts will present their work and share their expertise in these different fields integrating the possibilities provided by MinION sequencing.
    The workshop is aimed at scientists working with genomics (DNA and RNA sequencing), metagenomics and epigenomics.
    Registration is free but mandatory and is limited to 150 participants, on a first-come basis (see registration form on the website).
    Invited Speakers
    - Céline Bigot (CNRGH, CEA, Evry)
    - Michael Clark (Garvan Institute of Medical Research, Australia & University of Oxford, UK)
    - Cécile Donnadieu (GeT-PlaGe, Toulouse)
    - Philipp Euskirchen (Charité-Universitätsmedizin, Berlin)
    - Dominik Handler (IMBA, Austria)
    - Eric van der Helm (NNFCB, Denmark)
    - Christiaan Henkel (Institute of Biology Leiden, The Netherlands)
    - Wigard Kloosterman (University Medical Center Utrecht, The Netherlands)
    Speakers from 3D_CHROME
    - Jean-Marc Aury (Genoscope, CEA)
    - François-Xavier Barre (I2BC, Gif-sur Yvette)
    Further information at https://pfseqnanopore.sciencesconf.org/ and in the flyer.

    Lieu : auditorium - Bâtiment 21, campus de Gif


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