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© Institut Pasteur/Antoinette Ryter
Bactériophages d'Escherichia coli. Les têtes icosaédriques vidées de leur matériel génétique apparaissent claires en microscopie électronique.

Software

Software
Ongoing
6 Members

instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder

Romain Koszul (PI)

https://github.com/koszullab/instaGRAAL Hi-C exploits contact frequencies between pairs of loci to bridge and order contigs during genome assembly, resulting in chromosome-level assemblies. Because few robust programs are available for this type of data, we developed […]
Software
Completed
6 Members

GRAAL: genome assembly from chromosome contact frequencies

Christophe Zimmer (PI)

A software to reconstruct 1D genome structures from 3D contact data obtained from Hi-C experiments. This movie shows the iterative assembly by GRAAL of the Trichoderma reesei genome (right) using contact frequencies determined by […]
Software
Ongoing
6 Members

META3C (MetaHiC), metaTOR

Romain Koszul (PI)

https://github.com/koszullab/metaTOR We have pushed further our analysis about the potential of 3D contact data to solve genomics limitations and problems. We have developed meta3C, a metagenomic chromosome conformation capture approach that allows characterizing individual […]

CV

EXPERIENCE

2009-2016                   Institut Pasteur, Département Génomes et Génétiques, Paris, France.

Postdoc, RSG Lab – Dr Romain Koszul.

Analysis of interplay between spatial chromosome organization and cell physiology in microorganisms.

Development of new tools for (meta)genomics analysis.
Funding : ARC (3 ans), ANR (1 an), ERC (2 ans).

2005-2009                   CEA, Laboratoire de Biologie des Cyanobactéries, Saclay, France.

Thesis, Supervisor – Dr. Franck Chauvat.

Analysis of cell division machinery in cyanobacteria Synechocystis PCC6803.

Funding : Contrat Formation à la Recherche – CFR (Bourse CEA).

 

EDUCATION

2018                HDR (habilitation à diriger les recherches) in Biology. University Paris XI.

2009                Ph.D in Biology. University Paris XI.

2005                Master in Biotechnologies. University Paris XI.

Publications

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