Platform MicroScope – Annotation and comparative analyzes of microbial genomes

#Software Platform #IT and Bioinformatics

• Bioinformatics platform
• Bacterial genome annotation
• Functional annotation
• Comparative analysis of bacterial genomes
• Bacterial metabolism
• Metabolic networks Structure d’accueil

Host:
CEA-Genoscope / UMR 8030 Laboratoire d’Analyses Bio-informatiques en Génomique et Métabolisme (LABGeM)

Supervisors:
The platform is integrated with the metabolic Genomic UMR (UMR 8030) whose supervisors are CEA, the CNRS and the University of Evry – Paris-Saclay.

The platform is integrated with national infrastructures in life sciences France Génomique and Institut Français de Bio-informatique. The platform is also integrated with the European ELIXIR infrastructure.

Certification

LABGeM received ISO 9001:2008 and NF-X 50-900 certifications for its research, development and services activities via the MicroScope platform.

Activities

• Development of tools for the annotation and comparative analysis of bacterial genomes and metabolism.
• Organization and management of genomic and metabolic data in database structures.
• Prediction and analysis of bacterial genome metabolic networks and models.
• NGS data analysis: projects in evolution (polymorphisms) and transcriptomics (RNA-seq).
• Development of user-friendly Web interfaces for the use of expert analysis and annotation tools (MaGe, Magnifying Genomes).
• An internationally-scaled genomics data analysis service for the microbiology community.
• Training for annotation, genomic and metabolic comparative analysis and transcriptome data analysis with the MaGe interface.

Equipments

• Locally, the MicroScope platform is mutualized within the IT infrastructure of Genoscope: 700 processor cores/1 petaoctet of storage.
• Access to the CEA supercomputing center located in Bruyères-le-Châtel (CCRT): 4000 processor cores and 5 petaoctets of storage made available for the France Génomique national network of platforms.

Access & services

>> Follow this link for information on the platform and access it

Training

The LABGeM offers to MicroScope users regular training sessions organized in collaboration with Evry University:

• “Annotation and analysis of prokaryotic genomes using the MicroScope platform”: this 4.5 days training course is aimed at presenting the functionalities of the Microscope platform to the new users. It includes 1 day fully dedicated to bacterial metabolism analyses, exploration and annotation. This training is proposed twice a year in spring and autumn.
• “MicroScope platform – Advanced course”: this 2 days training course is aimed at presenting the last developments of the MicroScope platform to users who have followed a MicroScope training a few years ago. It is proposed once a year.

>> More informations on LABGem Web Site