Informatics and System Biology Platform

The Computational System Biology Laboratory (CSBL) provides comprehensive bioinformatics support, assisting researchers with their computational data analysis needs. Offering expert consultation, CSBL has a broad research scope, capable of analyzing data from fields as varied as neuroscience to infectious diseases. With specialized knowledge in transcriptomics, the laboratory can provide in-depth analysis of single-cell RNA-seq and spatial RNA-seq datasets. Furthermore, CSBL employs machine learning methods for integrative omics analysis, ensuring a holistic understanding of complex biological datasets.

The Molecular Biology Unit (UBM) offers standardized nucleic acid sequencing services and fragment analysis by capillary electrophoresis. It also offers advice for the experimental design of genomic and transcriptomic studies through DNA microarrays or massive sequencing.

NGS and microarrays data analysis (Genome Assembly; Variant analysis; Transcriptomic and ribosomal profile analyses; Small RNAs data analysis; Sequence alignment and phylogenetic inference). Biostatistics and advice on specific software usage. Metagenomic data analyses and experimental design.

The Sequencing Platform is intended to strengthen research activities and public health response related to genomic sequencing within the institute and regional collaborators.

We are a transversal unit developing and implementing molecular biology and bioinformatics applications to perform both routine analyses, and scientific and technological research. As a centre of excellence and expertise in applied genomics, we drive and inspire innovation through our transversal research, development and associated routine services, to facilitate the integration of genomics into public health for the benefit of the society. By setting up internal and external partnerships, we generate new knowledge and tools tailored to face and anticipate the current and future challenges affecting human and animal health. This includes activities in the domain of molecular detection, identification and characterisation of micro-organisms (AMR, bacteria, viruses, and fungi) (genomics, metagenomics), biotech plants and human nucleic acid (genetic, epigenetic) and microbiome-based biomarkers using high-tech equipment (e.g. real time PCR, digital droplet PCR, Sanger and NGS sequencers (Illumina and Nanopore).”

Thanks to its multidisciplinarity, this laboratory provides a platform for specialized analyzes such as genotyping of resistance to antivirals, genotyping of IL28B, search for mutations in Hereditary Hemochromatosis type 1 (HFE), deficiencies in Alpha anti -trypsin, etc.

The Bioinformatics and Applied Genomics develops molecular, genomics and bioinformatics applications relevant to sequencing technologies of all generations, but also develops software and pipelines for the analysis of large-scale datasets (big-data). Serving as a Core Facility, BiGen supports all research groups within HPI providing sequencing services, including the design and the execution of wet-lab assay preparation, the sequencing analysis and the downstream bioinformatics. Equipped with high-end sequencers and state of the art robotics, BiGen Unit also provides public services, both in academia and the pharmaceutical industry.

NGS systems: MiSeQ Illumina, NextSeq Illumina, DNBSEQ-G50 MGI/BGI.

Mutualized Platform for Microbiology (P2M) is open to all the reference laboratories of the Institut Pasteur, in Paris and within the Pasteur Network, providing easy access to next generations multi-pathogenic sequencing (Illumina and Ion Torrent technologies).

The Platform was created in 2015 and has extensive experience of multipathogen sequencing.

Results can be downloadable remotly and sequence analysis can be carried out by the HUB bio info of the Institut Pasteur in Paris on request.