Our platform provides a wide range of solutions and expertise in the field of medium/high throughput genomics. It includes two specialized hubs: the "Functional and Structural Genomics" hub, which develops its expertise in particular for translational research on cancer, and the "Transcriptomics & Applied Genomics" (TAG) hub, specialized in microbiology applications. With a global or targeted approach, we ensure the follow-up and the realization of research projects from the qualification of samples, the preparation of libraries and their sequencing, to the bioinformatics and biostatistical analysis of these data. We are open to all academic and industrial collaborations and propose training and services in line with our expertise.
-
Martin Figeac
Technical manager -
David Hot
Scientific manager
Bâtiment C9, Avenue Mendeleiev
Campus Cité scientifique, Université de Lille
59000 VILLENEUVE D'ASCQ
https://ums-plbs.univ-lille.fr/les-plateformes-constitutives/genomique
Chiffres clés
• 28 projects carried out over 2019-2020 (for 52 submitted)• 90% of projects at regional level, 5% at national level and 5% at European level
• 24 publications on 2019-2020 (including 2 as project manager)
• 23% of the activity in technology watch
Effectif
Effectif total : 10
Skills
• Transcriptomics: RNA-seq, sRNA-seq, dRNA-seq, NGS-RACE, qRT-PCR, RNA-seq full-length, micro-arrays, DGE, single-cell
• Metagenomics: targeted amplicon-seq 16S-ITS
• Whole genome sequencing and resequencing (human, bacteria, virus)
• Whole Exome Sequencing (WES) of diverse qualities
• Targeted sequencing
• 16S metagenomics
• RNA-seq (DGE) and scRNA-seq
• Microarrays and Nanostring DGE
Example(s) of projects
• Study of clinical and molecular features associated with Met exon 14 splice site mutations in lung cancer
• Search for differential transcriptomic profiles (mRNA, miRNA, lncRNA...) related to socioeconomic environment in women with high grade serous ovarian cancer
• Use of Flagellin as an adjunct in the antibiotic treatment of bacterial pneumopathies
Collaborations/Partners/Scientific clients
Collaborations/Partners/Private Clients
Applications sectors
- Health / wellness
- Science / Research
Services provided
• Sequencing technology in line with the project, its complexity and depending on the type of samples
• Follow-up and implementation of research projects from sample qualification, preparation of libraries and their sequencing, to bioinformatics and biostatistical analysis of these data
From the realization of the experiments to the support of the teams, the platform brings its expertise on the processing of the generated data:
• Genomic assembly, characterization and annotation, variant detection and annotation, study of Mendelian transmission
• Differential expression analysis, unsupervised analysis
• Taxonomic assignment, diversity assessment (α and β), dysbiosis measurement
Consulting services
• Sequencers for WGS and RNA-seq in short and long reads
• Microarrays for DGE (Differential Gene Expression)
• Equipment for scRNA-seq and scDNA-seq
• Computer servers/clusters for analysis and development of bioinformatics tools
Equipments
| Nom | Modèle | Marque |
|---|---|---|
| Short reads WGS and RNA-seq | MiSeq/ | Illumina |
| Long reads sequencing device | MinIon/ | Oxford Nanopore Technologies |
| Ion Torrent Sequencer | PGM/ | Thermo Fisher Scientific |
| Ion Torrent Sequencer | S5/ | Thermo Fisher Scientific |
| DNA microarray for DGE | Agilent Technologies | |
| Nanostring nCounter | Nanostring | |
| Chromium Single Cell pour le scRNA-seq | 10x genomics | |
| Tapestri multi-omics platform for scDNA-seq | Mission Bio |
Affiliated institutions / organisations
Unit(s) of attachment
Groups/Networks/Federations
Labellisations
Regional strategic areas of activity
- Health and Nutrition
- Food ingredients
- Medicine of the future: new health equipment and e-health
- Safe, healthy and sustainable food