Christine Bole-Feysot

Genomics platform

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Christine Bole
Christine Bole-Feysot

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The Imagine Institute's genomics platform was created in 2008 to provide high-throughput gene sequencing and expression services to the Necker campus research community mainly. The design of the experiments is carried out in collaboration with the researchers and the site's bioinformatics platform (Imagine Institut/Université Paris Cité) which analyzes the data.

Available Equipments

The genomics core facility is equipped with:

Long-read sequencers:

  •  Revio, PacBio (SMRT Cell with SPRQ chemistry, 90Gb data Hifi reads, N50 : 15-50kb, Q40+)
  • P2i, Oxford Nanopore Technologies 

Short-read sequencers:

  •  NovaSeq6000, Illumina (production from 800 million to up to 10 billion reads/clusters)
  • iSeq100, Illumina (production of ~3 million reads/clusters)
  • Access to a MiSeq, Illumina (production of up to ~15 million reads/clusters)

Other equipment:

  • Capillary electrophoresis: Tape Station 4200 (Agilent Technologies), Fragment Analyzer (Agilent Technologies) and Femto Pulse (Agilent Technologies)
  • DNA fragmentation: Covaris R230
  • Other devices for nucleic acid assay or quality control of NGS libraries:  Xpose spectrophotometer (Trinean), Qubit 4 fluorimeter (Invitrogen), Step One Plus Light Cycler (Life Technologies)

Services provided

The platform provides:

  • Support for the experimental design
  • Quality control of DNA, RNA and next-generation sequencing libraries
  • Library Preparation and sequencing some types of next generation sequencing libraries
  • Initial quality control of certain types of next generation sequencing libraries and their sequencing
  • Initial quality control of the sequencing raw data and automatic transfer of the data to the bioinformatics platform.

Standard applications proposed (in collaboration with the bioinformatics platform for data analysis):

  • Whole-genome sequencing:  PacBio HiFi reads on Revio technology with high fidelity (Q40+) and long fragments
  • Targeted re-sequencing: Exome sequencing and other types of targeted re-sequencing performed by hybridization capture
  • mRNA-seq: 2 options for total RNA not degraded: low-input (200 ng - 500 pg) and high-input (100 ng - 1000 ng)
  • On-demand NGS libraries sequencing: Single Cell 10X libraries, BD Rhapsody, Parse Technologies
  • Other NGS sequencing applications: ChIP-Seq libraries sequencing (immunoprecipitated chromatin sequencing), ATAC-Seq, other amplicon sequencing, other types of applications on demand…

Team