Frequently Asked Questions

How can I work with Edinburgh Genomics?

We are an open-access academic facility, and are happy to work with researchers on a “fee for service” basis, or as a full collaborator. We are happy to provide just a quote for a piece of work where you know exactly what you want, or help you develop an idea and do the work in full collaboration. We pride ourselves on being able to engage with the entire research process, from project design, grant writing, project execution, data analysis and results write up (posters, papers, presentations etc).  Please get in touch through our Contact page and a member of our project team will contact you.

Please do contact us early in your experimental planning or grant writing process so that we can best help you write a successful application.

What sort of technologies does Edinburgh Genomics have? What can Edinburgh Genomics do?

We provide a complete genomics service, from sample QC, through library production, sequencing/data collection, and data cleaning to in-depth analysis. We offer DNA and RNA sequencing on Illumina (NovaSeq and MiSeq), PacBio (Sequel IIe), and Oxford nanopore Technologies (PromethION). We deliver data from a small RNA-seq projects through to multi-whole genome resequencing projects involving tens of Terabytes of data. Similarly our Bioinformatics support ranges from data QC through to management of major genome sequencing and analysis projects, and includes advanced training.

 

Edinburgh Genomics currently has three main areas of expertise: 

 

  • Sequencing on MiSeq, NovaSeq 6000, Pacific Biosciences Sequel IIe, and Oxford Nanopore PromethION. Whether you want to sequence a bacterial genome, or the genome of a mammal; survey a microbiome to identify the species and genes present; count mRNAs, ncRNAs, smallRNAs; identify and score genetic variants; explore the epigenome of your study system; or perform the latest single cell sequencing, Edinburgh genomics can offer the appororiate technology.
  • Bioinformatic analyses ranging from exacting data QC through to in-depth exploration of the genome biology of complex systems. We also offer advanced training in bioinformatics, including bespoke training for research groups.
How do I get a quote from Edinburgh Genomics for a project I want to do?

Please fill in the enquiry form on our Contact page. Remember to tell us what your deadlines are, and please do give us as much information as you can about your needs. A member of our project team will contact you as soon possible to discuss the project in more depth and will develop a quotation to deliver to your project specifications. Please allow a week to 10 days for this process.

How much DNA or RNA do I have to supply? How should I ship it?

Please see our Sample Requirements page for information on sample preparation, sample QC and the amounts we need for different library preparation methods. If you have any questions, please contact the member of the project team you have been discussing your project with directly.

Please do contact us early in your experimental planning or grant writing process so that we can best help you write a successful application.

How much will it cost?

Edinburgh Genomics is a “cost recovery” facility: we must recover from the services we offer the full cost of delivering them. It is very hard to give simple guidelines for how much a sequencing experiment will cost. Suffice to say that Edinburgh Genomics prides itself for being not only high-throughput and high-quality, but also competitive on price. When you discuss your needs with our project team, we will indicate what our prices will be. Our large throughput means we can negotiate good deals from suppliers, especially if the reagents are all for one project. As we are a full cost recovery facility, it is hard for us to offer discount where the size of the project does not attract additional interest from suppliers.

We are required to charge VAT at a non-zero rate for projects with collaborators/customers outside the University of Edinburgh unless a formal collaboration agreement is in place. Do contact us to discuss this.

How do I get my data back from Edinburgh Genomics? How long do you store data for?

We use a secure system to deliver data back to collaborators. When your project data are ready for download, you will be contacted and given a link to your data. No-one else can see your data unless you give them access. 

We leave next generation sequencing data on our live website for one month after we have notified you, and guarantee to store the data securely on local discs for three months after notifying you it is ready. You can ask us to keep it for longer.

How long will it take?

It is hard to give exact timings for every project in a general response to this question, but we aim to turn round samples as fast as we can, and to deliver analyses back to collaborators within an agreed timeline. When we set up a project with you we will give you an estimate of how long we expect it to take. For user supplied next generation libraries and small data volumes, turnaround can be fast (from 1-2 weeks). For larger projects involving hundreds of samples and terabases of data, obviously, turnaround is longer.

I want to do a project through the NERC Biomolecular Analysis Facility: how should I contact you?

NERC has recently commissioned a new environmental omics facility (https://nerc.ukri.org/latest/news/nerc/13-million-investment-for-neof/). The new two node NERC Environmental Omics Facility (NEOF) is based at the Universities of Liverpool and Sheffield and replaces the current three node NERC Biomolecular Analysis Facility (NBAF) based at the Universities of Edinburgh, Liverpool and Sheffield. The general expectation is that most requests for genomic services for NERC research will now be directed to NEOF. Edinburgh Genomics remains open for business and continues to provide genomics services for research collaborators and customers across academia, government and industry. Edinburgh has played an active role in hundreds of NERC sequencing and bioinformatic projects over the past decade and while no longer formally providing services in this role the facility will continue to support NERC-area research however possible. If your research requires specific expertise, equipment or collaborators within Edinburgh Genomics or the University of Edinburgh please do get in touch before submitting NERC applications and we will discuss how we can help. We will also continue to deliver currently funded NERC research supported by the facility.

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