Genomic platform
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Activities
CIP (Interdepartmental Steering Committee)- Platform coordinators: Guénaëlle Levallet, Nicolas Richard, François Gravey
- Platform health executive: Olivia Ferec, substitute: Manuela Leroux
- Platform engineer: Nadia Coudray
- Bioinformatics engineer: Bryce Leterrier
- Laboratory manager: Simon Le Hello
- Senior manager of the Biology-Hygiene division: Mélanie Nonennmacher
- Heads of departments (or their representative) of the 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
- Information system management representative: Irvin Madec
- Quality assurance manager: Pauline Olivier
Main missions of the CIP- Validate the coordinators proposed by the Laboratory manager, elected for 4 years, renewable
- Decide how the platform will operate
- Validate the choice of hardware and software under the CHU Caen Normandie Equipment Commission
- Evaluate the feasibility and validate the development and production of new analyzes
Large equipment
- Nucleic acid extractors (Maxwell RSC 48, Promega; Maxwell RSC , Promega; Quickgene)
- Pipetting robot EP MOTION (5073 L, Eppendorf)
- Park of 16 conventional thermal cyclers, 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 Library Preparers (ZEPHYR NGS IQ, Perkinelmer; STAR NGS, Hamilton)
- Sanger sequencer (SeqStudio, Applied Biosystems)
- 3 High Throughput Sequencers (Nextseq550, Illumina; S5 Prime + Ion Chef Instrument, Thermo Fisher and two Miseq, Illumina including one DX, Illumina)
- Scanners (CGH: SureScan G2600D, Agilent; FISH: DM5500 B/DM6 B/DMR, Leica; Pathscan, Excilone)
- Cell sorter (AutoMACS Pro Separator, Miltenyi Biotec)
- Counting device (XN-L-450, sysmex)
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News from the Platform
December 2024: The PTF Génomique welcomes a new Sanger sequencer 🙂
This type of sequencing remains essential in the conduct of genomic analyses. It allows, for example, the confirmation of anomalies detected in high-throughput sequencing, the analysis of fragments, etc. there are multiple applications.
July 2024: The PTF Genomics routinely implements a new high-throughput sequencing panel!
A new panel (named NGS_LP) developed in particular by doctors/biologists from the Genetics (Head: Dr Nicolas Gruchy) and Biological Hematology (Head: Prof. Yohann Repessé ) departments, with the methodological help of the PTF Genomics engineer, Nadia Coudray, has been deployed since summer 2024.
- A new panel for what? : the simultaneous sequencing of 138 genes!
- A new panel for which pathologies? : hematologic malignancies but not only that… any fresh sample can be analyzed on this panel (e.g.: vascular pathologies).
- Run frequency: 1 time per week
May 2024: The PTF Génomique welcomes a new MiSEQ DX sequencer 🙂
This sequencer will enable the deployment of new solid tumor sequencing and microbial sequencing panels!
