Sequencing and NGS

Our laboratory is equipped with technologies dedicated to the most efficient and innovative genomics. We are thus able to answer to all requests in this area, from robotic preparation of libraries for the high-throughput sequencing, including exomes sequencing projects, to targeted, genome and also metagenomic sequencing projects, de novo sequencing or mutation detection.

NovaSeq 6000, HiSeq 2500, HiSeq 4000, NextSeq 500, MiSeq, CBot – Illumina

Illumina offers innovative next-generation sequencing (NGS) platforms that deliver industry-leading data quality and accuracy, at an unparalleled scale.NGS involves rapid sequencing of large DNA stretches spanning entire genomes. The latest Illumina DNA sequencers enable a wide variety of uses, and can produce gigabases to over a terabase of data in a single sequencing run. By folowing the link here you will be able to consult the specificities of the Illumina sequencers.

Common DNA Sequencing Applications: Illumina sequencing enables a broad range of applications, such as whole-genome and de novo sequencing, targeted region sequencing, mutation discovery, and identification of copy number variations. Common DNA sequencing applications include:Whole Genome Sequencing: Characterize entire genomes of any size and complexity.

  • Exome sequencing: Sequence protein coding regions, as a cost-effective alternative to WGS.
  • Targeted sequencing: Sequence specific genes or other regions of interest.
  • De novo sequencing: Sequence and assemble novel genomes.
  • Mitochondrial sequencing: Detect mitochondrial disease-associated mutations.
  • Transcripome sequencing : transcriptome analysis
  • Epigenetics: methyl sequencing
  • Metagenomics: sequencing of 16S / 18S unti to characterize bacterial populations
  • Miseq : dedicated to small genome, amplicon and targeted gene panel sequencing

Nextseq500 and Hiseq 2500 and Hiseq 4000: dedicated to genome, exome, transcriptome sequencing

 

E220 – Covaris

The Covaris E220 is a targeted ultrasound device designed for the treatment of samples of many biological and chemical applications, including DNA and shear chromatin tissue homogenization, cell lysis, dissolution compound, and micronization particles.

The use of acoustic energy (Adaptive Focused Acoustics ™) allows processing of 1-96 samples with precision and accuracy to samples of variable volumes.

Star – Hamilton & Bravo – Agilent

The Star (Hamilton) workstation and the Bravo Automated Liquid Handling Platform (Agilent) are liquid Handling workstations providing reproductibility and flexibility. Both dedicated to NGS libraries preparation, these equipments perform a large panel of automation protocols for Illumina Sequencing as libraries TruSeq DNA and RNA, Kapa DNA, Haloplex (Agilent), and WES or targeted captures (Nimblegen Roche, Sureselect Agilent) …

Pyromark Q24 advanced – QIAGEN

PyroMark Q24 Advanced has improved Pyrosequencing® technology and provides even better real-time, sequence-based detection and quantification than before. PyroMark Q24 Advanced features advanced technology, software, and chemistry and is highly suited for analyzing any kind of sequence variation, particularly DNA methylation at CpG or CpN sites. The new CpN mode of PyroMark Q24 Advanced now enables methylation analysis of cytosine residues that are not part of CpG sites.

PyroMark Q24 Advanced enables improved methylation quantification in long sequence runs at any sequence position. Previously, analysis of methylation sites further away from the sequencing primer could be uncertain, but now with longer read lengths and higher accuracy, methylation quantification is highly reliable throughout the entire sequencing run.

Access array – Fluidigm

Through a combination of Fluidigm’s exclusive integrated fluidic circuits (IFCs), the Access Array creates amplicon libraries using a unique tagging protocol, in which primers attach sample-specific barcode sequences and sequencer-specific tags to each PCR product. Multiplex primers build libraries of 480 amplicons per sample, and barcode sequences let you run up to 384 samples in one multiplex sequencing run.

SPRIworks SPRI-TE – Beckman

The SPRI-TE is an automated sample preparation for next generation sequencing Illumina or Roche. Based on magnetic bead purification technology (SPRI), it allows a differential sizing fragment and process up to 10 libraries in 5 hours.

Thunderstrom – Raindance

The RainDance ThunderStorm System is a fully automated, high-throughput NGS content enrichment solution that enables researchers to automatically process up to 96 samples in 48 hours and to access up to eight different primer panels. The ThunderStorm System is based on RainDance’s proven single-molecule picodroplet PCR technology that generates millions of unique picodroplet PCR reactions, enabling scientists to target up to 20,000 genomic loci in a single sample. The system is compatible with all NGS platforms (Illumina sequencers, Roche sequencers, Life Technologies sequencers, and PacBio RS).

Bioanalyzer 2100 – Agilent

The Agilent 2100 bioanalyzer is the industry standard for RNA sample QC and has replaced labor-intensive gel electrophoresis for this application. It is also rapidly replacing gel electrophoresis for DNA fragment analysis and SDS-PAGE analysis of protein samples.

GS Junior – Roche

The GS Junior System brings the power of NGS-454 Sequencing Systems directly to the laboratory benchtop. This system uses GS Junior Titanium chemistry; one run delivers an output of 35 Mbases with 400 bp reads in ten hours. The GS junior allows us a wide range of sequencing applications: amplicon sequencing, sequence capture, whole genome sequencing, metagenomics and transcriptome sequencing.