Edinburgh Genomics is a Sequencing and Bioinformatics Core Facility at the University of Edinburgh, located at the School of Biological Sciences, King’s Buildings campus. The facility has established a global reputation for the provision of advanced genomics services, providing access to a range of genomic technologies and services including next-generation sequencing (NGS), transcriptomics, single-cell sequencing, epigenomics, metagenomics, bioinformatics analysis and training.
- The facility produces high-quality high-volume data for a diverse community of customers and research collaborators across academia, government and industry.
- We have a proven track record of delivering superior quality results to exacting standards.
- We have collaborated with a broad range of organizations on a variety of research projects, including human health, agriculture and environmental sciences, and have generated data for more than 1,300 peer-reviewed publications.
With over 20 years experience of providing genomics services to life science researchers, our talented team has what it takes to deliver the highest quality data for the most challenging of projects.
Over 20 years experience
Recognised Facilities
versatile sequencing instrumentation
![](https://genomics.ed.ac.uk/wp-content/uploads/2023/08/KB-1.jpeg)
What We Offer
Click each service below for more information
Edinburgh Genomics offers access to a wide range of genomics platforms including Illumina’s NovaSeq technology, Pacific Biosciences Revio system, and the Oxford Nanopore Technologies PromethION. This modular and flexible approach to providing the latest technologies, combined with expert knowledge across a broad range of applications, supports a large and diverse portfolio of scientific research projects. The EdGe team also offers a wide range of bioinformatics services, from data QC to genome assembly, variant identification and interpretation, in addition to a programme of popular genomics and bioinformatics training workshops.
![EdinGen3_cropped EdinGen3_cropped](https://genomics.ed.ac.uk/wp-content/uploads/elementor/thumbs/EdinGen3_cropped-qagv4j3erb2wvn68gsjnmw9ng75pqibin194g12ozy.jpg)
- Sequencing
- Training
- Bioinformatics
The facility provides high-quality short-read library preparations and sequencing with the Illumina NovaSeq 6000 and MiSeq sequencers. We also provide high-fidelity (HiFi) long-read DNA and RNA sequencing with the PacBio Revio sequencer, and we operate an Oxford Nanopore PromethION 24 as an open access platform and to offer long-reads library preparations and sequencing services.
Click here for more information on our short and long-read sequencing services
We offer in-person and online training courses on bioinformatics topics like long-read data, single cell RNA-seq data analysis, Linux, R and Python programming. These ELIXIR-UK recognised courses provide researchers with the skills and knowledge needed to plan and execute their genomics experiments, as well as to analyse and interpret the resulting data.
Interested in one of our training courses? See the list of all our current workshops here
Edinburgh Genomics offers bespoke bioinformatics and consultancy services to researchers who require specific support for their genomics data analysis. This can include customised analysis, building complex bioinformatics workflows, access to specialized compute hardware, implementing tailored training programs and consultation on analysis design and results interpretation.
For more information or to make an enquiry about our bioinformatics services click here
- Sequencing
- Training
- Bioinformatics
The facility provides high-quality short-read library preparations and sequencing with the Illumina NovaSeq 6000 and MiSeq sequencers. We also provide high-fidelity (HiFi) long-read DNA and RNA sequencing with the PacBio Revio sequencer, and we operate an Oxford Nanopore PromethION 24 as an open access platform and to offer long-reads library preparations and sequencing services.
Click here for more information on our short and long-read sequencing services
We offer in-person and online training courses on bioinformatics topics like long-read data, single cell RNA-seq data analysis, Linux, R and Python programming. These ELIXIR-UK recognised courses provide researchers with the skills and knowledge needed to plan and execute their genomics experiments, as well as to analyse and interpret the resulting data.
Interested in one of our training courses? See the list of all our current workshops here
Edinburgh Genomics offers bespoke bioinformatics and consultancy services to researchers who require specific support for their genomics data analysis. This can include customised analysis, building complex bioinformatics workflows, access to specialized compute hardware, implementing tailored training programs and consultation on analysis design and results interpretation.
For more information or to make an enquiry about our bioinformatics services click here
![EdinGen3_cropped EdinGen3_cropped](https://genomics.ed.ac.uk/wp-content/uploads/elementor/thumbs/EdinGen3_cropped-qagv4j3erb2wvn68gsjnmw9ng75pqibin194g12ozy.jpg)
- Sequencing
- Bioinformatics
- Training
Genome
- De novo genome sequencing
- Genome resequencing
- Targeted sequencing
- Metagenomics
- ATAC-Seq
- ChIP-Seq
- Hi-C
- Long read DNA sequencing (ONT & PacBio)
Transcriptome
- De novo transcriptome sequencing
- Total RNA sequencing
- mRNA sequencing
- Small RNA sequencing
- Low input RNA sequencing
- PacBio Iso-Seq
- ONT direct RNA sequencing
User Prepared Libraries
- User prepared libraries ready for sequencing
Click here for more information on our short and long-read sequencing services.
- Genome/transcriptome assembly and annotation
- Variant calling, annotation and variant discovery (SNVs and SVs)
- RNA-seq and miRNA differential expression
- Single cell genomics/transcriptomics data processing
- Genome linked reads assembly, phasing and variant calling
- Metabarcoding and metagenomics data analysis
- Amplicon analysis and variant quantification
- Bespoke Bioinformatics analysis
For more information or to make an enquiry about our bioinformatics services click here.
Bioinformatics Training
Our Bioinformatics team currently offer the following workshops (Online and also onsite courses)
- RNA-seq data analysis
- R for Biologists
- Introduction to metagenomic data analysis
- Variant Analysis
- Long-read genome bioinformatics data analysis
- Long-read transcriptomic data Analysis
- Introduction to Linux for genomics
- Introduction to Python for Biologists
- Advanced Python for Biologists
- Data Science for Everyone (Python)
Genomics Lab
In addition, Edinburgh Genomics periodically organises workshops for DNA and RNA sequencing library preparations.
Interested in one of our training courses? See the list of all our current workshops here.
Edinburgh Genomics offers access to a wide range of genomics platforms including Illumina’s NovaSeq technology, Pacific Biosciences Sequel IIe platform, and the Oxford Nanopore Technologies PromethION. This modular and flexible approach to providing the latest technologies, combined with expert knowledge across a broad range of applications, supports a large and diverse portfolio of scientific research projects. The EdGe team also offers a wide range of bioinformatics services, from data QC to genome assembly, variant identification and interpretation, in addition to a programme of popular genomics and bioinformatics training workshops.
Our team
meet the edinburgh genomics team
Facility Team Leaders
- Dr. Javier Santoyo Lopez – Facility Manager
- Urmi Trivedi, MSc – Bioinformatics Team leader
- Dr. Matt Arno – Laboratory Team Leader
Scientific Advisors
We have very highly skilled scientists in the laboratory and bioinformatics teams with a wealth of experience in sequencing technologies, computational genomics and bioinformatics to help you with your genomics projects.
- Prof. Josephine Pemberton (Steering Committee Chair)
- Dr. Alex Twyford (Steering Committee Member and Academic Lead)
- Dr. Katja Guschanski (Steering Committee Member and Academic Lead)
- Prof. Thorunn Helganson (Steering Committee Member)
Edinburgh Genomics is embedded in the rich academic environment of the School of Biological Sciences at University of Edinburgh, spanning medical, veterinary and biological realms. Our staff comprises highly skilled and motivated individuals who are dedicated to delivering high quality outputs in collaboration with colleagues across the spectrum of the biomedical sciences.
![](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/edgen-staff-hoodies-1024x607.jpg)
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/staff-member.png)
Jena Dryden
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/Robert_Foster.jpg)
Robert Foster
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/08/Helen-Ritch.jpg)
Helen Ritch
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/Ana-Vieira-scaled.jpg)
Ana Vieira
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/Caitlin-Newman-resized.png)
Caitlin Newman
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/staff-member.png)
Kathryn Campbell
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/Tim-Booth.jpg)
Tim Booth
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2024/05/frances.jpg)
Frances Turner
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/Heleen-De-Weerd-scaled.jpg)
Heleen De Weerd
![Icon](https://genomics.ed.ac.uk/wp-content/uploads/2023/07/staff-member.png)
Chieko Kontani
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Testimonials
feedback from our collaborators and service users
“Advanced Python for Biologists” Student, July 2016
“I also liked the fact that Martin spent a good amount of one on one time talking to people helping explain specific concepts and giving people advice on their personal academic projects.”
“Introduction to Long-read Bioinformatics” Student, May 2021
“Fantastic long reads bioinformatics workshop from @edgenome, superbly setup, good mix of theory and hands-on with @nanopore data. Also @urmi208 is a brilliant instructor, effortlessly handling a very mixed skills bunch of people – and all that, online, hats off!”
“R for Biologists” Student, April 2022
“Really enjoyed the last few days of the “R for biologists course” of @edgenome. Thanks @nathcmedd for the great introduction! Can highly recommend to anyone who wants to have a first try with R”
“RNA-seq Data Analysis” Student, November 2014
“Loved it! I’m now itching to get my hands on my RNA-seq data and analyse it myself.”
“Introduction to Linux for Genomics” Student, May 2016
“Having never used Linux before I came away with a working knowledge of the command-line and the confidence to use it.”
“R for Biologists” Student, August 2022
“Thanks to brilliant @Nathcmedd for transforming me from completely clueless to vaguely competent in just 3 days! 100% recommend for anyone looking to get into coding!”
“Introduction to Python for Biologists” Student, February 2016
“Great learning from someone with a biology background rather than computer science – meant we were on the same wavelength.”
“RNA-seq Data Analysis” Student, May 2017
“I really enjoyed the workshop and I thought it was extremely well organised and taught.”
“Advanced Python for Biologists” Student, August 2015
“Just what I needed to start writing more complex code.”
“Introduction to Python for Biologists” Student, April 2017
“Really excellent. I learned so much and have never loved coding so much.”
![edge-micropipette edge-micropipette](https://genomics.ed.ac.uk/wp-content/uploads/elementor/thumbs/micropipette-qapmbuijw5wpp9ikr2n3s4o9wjw2englneypev1h28.png)
“I also liked the fact that Martin spent a good amount of one on one time talking to people helping explain specific concepts and giving people advice on their personal academic projects.”
“Advanced Python for Biologists” Student, July 2016
“I thought it would be painful but it was actually fun!! #linux course. Thanks Tim & Nathan”
“Introduction to Linux for Genomics” Student, November 2021
“Really enjoyed the last few days of the “R for biologists course” of @edgenome. Thanks @nathcmedd for the great introduction! Can highly recommend to anyone who wants to have a first try with R”
“R for Biologists” Student, April 2022
“Having never used Linux before I came away with a working knowledge of the command-line and the confidence to use it.”
“Introduction to Linux for Genomics” Student, May 2016
“Loved it! I’m now itching to get my hands on my RNA-seq data and analyse it myself.”
“RNA-seq Data Analysis” Student, November 2014
“Thanks to brilliant @Nathcmedd for transforming me from completely clueless to vaguely competent in just 3 days! 100% recommend for anyone looking to get into coding!”
“R for Biologists” Student, August 2022
“Just what I needed to start writing more complex code.”
“Advanced Python for Biologists” Student, August 2015
“Great learning from someone with a biology background rather than computer science – meant we were on the same wavelength.”
“Introduction to Python for Biologists” Student, February 2016
“Really excellent. I learned so much and have never loved coding so much.”
“Introduction to Python for Biologists” Student, April 2017
“Fantastic long reads bioinformatics workshop from @edgenome, superbly setup, good mix of theory and hands-on with @nanopore data. Also @urmi208 is a brilliant instructor, effortlessly handling a very mixed skills bunch of people – and all that, online, hats off!”
“Introduction to Long-read Bioinformatics” Student, May 2021
“Fantastic long reads bioinformatics workshop from @edgenome, superbly setup, good mix of theory and hands-on with @nanopore data. Also @urmi208 is a brilliant instructor, effortlessly handling a very mixed skills bunch of people – and all that, online, hats off!”
“Introduction to Long-read Bioinformatics” Student, May 2021
“Having never used Linux before I came away with a working knowledge of the command-line and the confidence to use it.”
“Introduction to Linux for Genomics” Student, May 2016
“I thought it would be painful but it was actually fun!! #linux course. Thanks Tim & Nathan”
“Introduction to Linux for Genomics” Student, November 2021
“I really enjoyed the workshop and I thought it was extremely well organised and taught.”
“RNA-seq Data Analysis” Student, May 2017
“Loved it! I’m now itching to get my hands on my RNA-seq data and analyse it myself.”
“RNA-seq Data Analysis” Student, November 2014
“I also liked the fact that Martin spent a good amount of one on one time talking to people helping explain specific concepts and giving people advice on their personal academic projects.”