Genomics platform
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Activities
CIP (Interdepartmental Steering Committee)- Platform coordinators: Guénaëlle Levallet, Nicolas Richard, François Gravey
- Platform health manager: Olivia Ferec, alternate: Manuela Leroux
- Platform engineer: Nadia Coudray
- Bioinformatics Engineer: Bryce Leterrier
- Laboratory Manager: Simon Le Hello
- Senior manager of the Biology-Hygiene department: Mélanie Nonennmacher
- Heads of departments (or their representative) of disciplines using the genomics platform.
- Biologists using the genomics platform
- Technical staff representatives: Brice Coulleray (Oncogenetics), Maryse Artu (Constitutional Genetics), Nathalie Millerioux (Cytogenetics)
- Representative of the Biomedical Department: Catalina Vialle
- Representative of the Information Systems Department: Irvin Madec
- Quality Assurance Manager: Pauline Olivier
Main missions of the CIP- Validate the coordinators proposed by the Laboratory Manager, elected for a renewable 4-year term
- Decide how the platform will operate
- Validate the choice of hardware and software as determined by the Equipment Committee of the Caen Normandy University Hospital
- Evaluate the feasibility and validate the development and production of the new analyses
Large equipment
- Nucleic acid extractors (Maxwell RSC 48, Promega; Maxwell RSC, Promega; Quickgene)
- EP MOTION pipetting robot (5073 L, Eppendorf)
- Fleet of 16 conventional thermocyclers, 3 real-time (LightCycler 480, Roche; 7500 Fast, Applied Biosystems) and 3 Idylla drawers (Biocartis)
- Droplet Digital PCR (QX200 Droplet Digital PCR System and QX600 Droplet Digital PCR System, Biorad)
- Labchip (GX Touch HT, Perkinelmer)
- 2 Bookstore Preparation Systems (ZEPHYR NGS IQ, PerkinElmer; STAR NGS, Hamilton)
- Sanger sequencer (SeqStudio, Applied Biosystems)
- 3 High-Speed Sequencers (Nextseq550, Illumina; S5 Prime + Ion Chef Instrument, Thermo Fisher and two Miseq, Illumina, one of which is DX, Illumina)
- Scanners (CGH: SureScan G2600D, Agilent; FISH: DM5500 B/DM6 B/DMR, Leica; Pathscan, Excilone)
- Cell sorter (AutoMACS Pro Separator, Miltenyi Biotec)
- Numbering device (XN-L-450, sysmex)
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Platform News
February 2025: The Genomic PTF routinely implements a new high-throughput sequencing panel!
A new panel (named NGS_SP) developed in particular by the doctors/biologists of the Genetics (Head: Dr Nicolas Gruchy) and Biological Hematology (Head: Prof Yohann Repessé) departments, with the methodological help of the engineer of the Genomic PTF, Nadia Coudray, has been deployed since the beginning of 2025.
- A new panel for what purpose?: the simultaneous sequencing of 55 genes!
- A new panel for which pathologies?: solid tumors and certain malignant hematological disorders.
- Run frequency: 2 times per week.
December 2024: The Genomics PTF welcomes a new Sanger sequencer 🙂
This type of sequencing remains essential for conducting genomic analyses. For example, it allows for the confirmation of anomalies detected by high-throughput sequencing, the analysis of fragments, and much more; the applications are numerous.
July 2024: The Genomic PTF routinely implements a new high-throughput sequencing panel!
A new panel (named NGS_LP) developed in particular by the doctors/biologists of the Genetics (Head: Dr Nicolas Gruchy) and Biological Hematology (Head: Prof Yohann Repessé) departments, with the methodological help of the engineer of the Genomic PTF, Nadia Coudray, has been deployed since the summer of 2024.
- A new panel for what purpose?: the simultaneous sequencing of 177 genes!
- A new panel for which pathologies?: malignant hematological diseases but not only… any fresh sample can be analyzed on this panel (ex: vascular pathologies).
- Run frequency: once every 15 days.
May 2024: The Genomics PTF welcomes a new MiSEQ DX sequencer 🙂
This sequencer will enable the deployment of new solid tumor sequencing and microbial sequencing panels!
