Sequencing and NGS

Illumina offers innovative next-generation sequencing (NGS) platforms that deliver industry-leading data quality and accuracy, at an unparalleled scale. NGS enables the rapid sequencing of genomic DNA. Illumina’s latest DNA sequencers enable a wide variety of uses, and can produce from a few 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.

Applications : Sequencing via Illumina platforms enables a wide range of applications, such as whole genome sequencing, de novo sequencing, targeted region sequencing, mutation discovery, and copy number variation identification. Applications:

• Whole genome sequencing (WGS): to characterize whole genomes of any size
• Exome sequencing (WES): sequencing of coding regions, can be considered as a cost-effective alternative to WGS
• Re-sequencing & targeted sequencing: specific sequencing of gene panels of interest
• De novo sequencing: Sequencing and assembly of new genomes
• Mitochondrial sequencing: sequencing performed to detect mutations associated with mitochondrial diseases
• Transcriptome sequencing
• Epigenetics: sequencing of methylated regions of the genome after bisulfite transformation
• Metagenomics: sequencing of 16S / 18S subunits to characterize microbial populations

The Iseq100 and Miseq are mainly dedicated to sequencing small genomes, amplicons resequencing or targeted sequencing.

The Novaseq X Plus and DX and the Nextseq500 are mainly dedicated to genome, exome and transcriptome sequencing.

The DNA analyser 3730xl 48/96 capillaries is the reference tool for Sanger sequencing. This tool enables the analysis of SNP, the detection of rare mutattion and traditional DNA sequencing. The 36cm-capillaries allow a 500bp sequencing (QV20) in 1 hour per capillary. Click on the link here to see the specifics of this sequencer.

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.

The STARlet (Hamilton) workstation, the Bravo Automated Liquid Handling Platform (Agilent) and the Sciclone® G3 NGSx iQ™ workstation (Perkin Elmer) are pipetting machines dedicated to library and capture preparations for next-generation sequencing. We can automate protocols for TRuSeq DNA and RNA libraries, KAPA DNA, Haloplex amplicon libraries, and Nimblegen and Agilent captures, for whole exome or targeted sequence.

The chemagic Prime™ instrument is a highly automated platform combining chemagen patented M-PVA Magnetic Bead technology for DNA and RNA purification with liquid handling to provide high-throughput automated isolation of ultra-pure nucleic acids. The liquid handling unit transfers the primary samples to plates suitable for automated nucleic acid purification which are in turn automatically loaded on the extraction deck.

DNA and RNA quantitation and sizing can be done in seconds using automated capillary electrophoresis separation. The LabChip® GX Touch™ nucleic acid analyzer’s microfluidic technology generates reproducible, high-resolution data and is optimal for :
• NGS library preparation (smear and fragment analysis) and quality control
• RNA and DNA fragment analysis (including cell-free (cfDNA), FFPE, liquid biopsy, and PCR-free samples)
• Quantitation and qualification for CRISPR fragment analysis
• Agarose gel workflows

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.