Lille Integrated Genomic Advanced Network
Our LIGAN-PM platform is dedicated to human genome sequencing and combines a range of technologies in the field of NGS (Next Generation Sequencing), allowing us to respond to various projects (medium/high throughput/very high throughput) in genotyping, sequencing, transcriptomics and bioinformatics and statistical analysis. Our platform is dedicated to precision medicine. In particular, we use NGS and genotyping tools to identify genetic predisposing factors to diabetes and obesity, in order to better understand the mechanisms of onset and complications of these pathologies, and to find an adequate treatment according to the genetic heritage of each patient. We are open to all academic and industrial collaborations and propose services in line with our expertise. Our laboratory is ISO15189 certified for the diagnosis of diabetes and associated diseases (obesity, kidney disease, cardiovascular disease, etc.).
Informations
Technical director: Emmanuelle Durand
Scientific director: Amélie Bonnefond
1 place de Verdun
EGID, Faculté de Médecine, Campus Santé, Université de Lille
59045 LILLE
Mots-clés
ISO15189, NGS, Next generation sequencing, Personalized medicine, Whole exome sequencing, Whole genome sequencing, High throughput sequencing, Targeted sequencing, Transcriptome analysis, BiostatisticsLocalisation
- ISO15189 Medical Biology Laboratory
- NGS (Next Generation Sequencing)
- Bioinformatics
- DNA and RNA extracts
- DNA / protein interactions
- Genotyping
- Bioinformatics
- Biostatistics
Examples of projects:
- CoDE-Seq technology (for Copy number variation Detection and Exome sequencing) single-step sequencing of DNA point mutations of all human genes, and very precise detection of large and small chromosomal abnormalities
- Declaration of invention VisuVAR (platform for analysis and visualization of genetic abnormalities identified by CoDE-Seq technology in patients with a rare disease)
Extractions
- DNA extractions from whole blood, saliva samples, tissue sections
- RNA Extractions Genotyping/ Expression
Genotyping/Expression
- SNP genotyping
- Expression by Taqman probes
- High-throughput genotyping
- Expression via NCounter Nanostring
- Digital PCR
DNA sequencing on capillary sequencer and NGS sequencing
- Preparation of libraries
- Ready to Load Libraries
- Exome Sequencing (WES) / Genome Sequencing (WGS)
- 3D chromatin analysis (HiC)
- RNA sequencing (total RNA-seq, miRNA-seq, mRNA-seq)
- Re-sequencing & targeted sequencing
- De novo sequencing
- Mitochondrial sequencing
- Epigenetics (MethylSeq / methylation chip)
- Analysis of DNA/protein interactions (ChIPseq)
Bioinformatics and Biostatistics analysis
- Transverse and longitudinal genome-wide association study
- Detection of chromosomal events (mosaicism / CNV)
- Prioritization of genes / signaling pathways
- Pipelines & Package
Our platform possess innovative technologies dedicated to sequencing, NGS, genotyping, ddPCR, QPCR, proteomics and expression studies:
- next generation sequencing platforms (NovaSeq 6000, NextSeq 500, MiSeq, CBot – Illumina)
- targeted ultrasound device (E220 – Covaris)
- liquid handling workstations (STARlet (Hamilton), Bravo Automated Liquid Handling Platform (Agilent) and Sciclone® G3 NGSx iQ™ (Perkin Elmer))
- automated platform for DNA and RNA purification (Chemagic Prime - Perkin Elmer)
- platform for quantification and size analysis of DNA and RNA
- bioanalyzer for sample quality control (Agilent 2100)
- scanner for genetic analysis (iScan – Illumina)
- Real Time PCR System (Viia7 Real Time PCR System – Life Technologies)
See the detailed list of equipment.
Private
Genoscreen, Genes Diffusion, CIRCAGEN (UK), IMMATICS (D)
Academic
AP-HP, CHU (Reims, Nantes, Poitiers, Amiens, Guadeloupe), INRA (Rennes), IFREMER, CNRS (U5554, U8727, U7144, UMR 7232, UMR 8198, UMR5244,…), INSERM (U894, U1018, U933, U1019, ...), Universités (Sorbonne, Montpellier, Aix Marseille, Amiens)
Well Cornell (Qatar), Imperial College London (UK), UC Louvain (Belgium)