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DBS Genomics

NEXT GENERATION SEQUENCING

The advent of Next Generation Sequencing has seen the use of genomic research expand at a tremendous rate. Sequencing a human genome, first completed in 2003 and having taken 10 years of work on hundreds of sequencers, can now be carried out in a day on a single instrument. NGS utilises a massively parallel sequencing approach, allowing for the generation of billions of base reads in a single run.

NGS at Durham University

DBS Genomics currently operates an Illumina HiSeq 2500, allowing us to offer a broad range of applications and study sizes. Illumina sequencers are the most trusted and widely used systems worldwide, delivering data of the highest quality and accuracy. The HiSeq 2500 is a flexible platform featuring two run modes, rapid run and high output run. Rapid run mode allows quick and efficient processing of samples, and supports longer paired-end reads of 150bp, enabling great depth of coverage (up to 150 million single reads per lane or 300 million paired-end reads per lane). High ouput mode offers the greatest depth of coverage, generating up to 1Tb of data (up to 200-250 million single reads per lane or 400-500 million paired-end reads per lane) in six days using HiSeq version 4 reagents, an ideal option for larger studies.

We are able to offer a broad range of applications, including:

  • Whole genome sequencing
  • Targeted re-sequencing
  • Whole transcriptome sequencing
  • De-novo sequencing and metagenomics
  • Epigenetics and gene regulation

We currently accept user-prepared Illumina compatible sequencing libraries, and also offer a library preparation service if required. The cost of an NGS experiment will vary depending upon the application and run parameters required. Advice can be given on the number of lanes which will be needed to complete your project. It is possible to run multiple libraries per lane depending upon the library type, number of reads and depth of coverage required. A typical experiment, such as a customer prepared library requiring a 125bp paired-end dual indexed run using version 4 chemistry, would cost £2150 per lane inclusive of confirmation QC and a hard-drive containing your data. If you wish to make an enquiry about running an NGS experiment, please contact us using our NGS Enquiry Form and a member of the DBS Genomics team will be happy to discuss available options and pricing.

How to send your libraries

The success of your sequencing is highly dependent upon accurate quality assessment and quantification of your completed library. Quality assessment should be carried out using a Bioanalyser or Tapestation, and the data submitted along with your library. Libraries should be quanitified by qPCR, as this sensitive method measures only templates which have both adapter sequences on either end and will subsequently form clusters on a flowcell for sequencing. If you are multiplexing samples in a pool, QC should be carried out on each individual sample. Poor quality samples should be excluded, and all samples standardised to the same concentration so that each sample is accurately represented within the pool. Pooling should then be carried out according to the instructions provided with your chosen library preparation kit.

We require at least 10ul of pooled library at a concentration of 10nM. Samples should be clearly labelled and secured, and sent to us on sufficient dry ice to ensure they remain frozen until arrival. Confirmation of QC will be carried out on your library before we proceed with sequencing, and you will be notified of any discrepancies or concerns. 

When your libraries are ready to be posted, please complete and submit an NGS Library Submission Form.

Receiving your data

The timeframe in which you will receive your data is dependent upon the experimental parameters you have chosen. Please note that we must fill all lanes of a flowcell before we can proceed with your sequencing in order to ensure the service is cost effective. Upon completion of a sequencing run the raw FASTQ files generated are put through our filtering pipeline to remove adapter and index sequences, and a quality filter removes reads which are unsuitable for downstream analysis. These processed FASTQ files are posted to you on a hard drive, along with the raw FASTQ files and associated QC data if required.

For additional cost we are able to offer a range of further bioinformatic services to process and analyse the data, including alignment to reference genome, production of sequence alignment maps (SAM files), or exon expression analysis. Please contact us to discuss your requirements and costing.

CONTACT US

DBS GENOMICS
Department of Biosciences
Durham University
South Road
Durham DH1 3LE
 
Tel: +44(0)191 3341256
 
Email: DNA.Sequencer@
 durham.ac.uk