Deep Seq: Next Generation Sequencing Facility


Midlands Sequencing Consortium Meeting

Monday 13th July 2015

The Arts Centre, University of Nottingham


09:20 to 09:50 : Registration with Coffee and biscuits

09.50 to 10:14 : Consortium Introduction (A30, Lecture Theatre):

09.50 to 10:00 : Matt Loose, Nottingham : to introduce the meeting.

10:00 to 10:14 : 1minute introduction to each facility


10:14 to 12:30 : First Session (A30, Lecture Theatre). Chaired by Matt Loose

10:14 to 10:20 : Introducing the session

10:20 to 11:05 : Nick Loman, MicrobesNG, University of Birmingham  “Microbes, MinION and metagenomics”.

11:05 to 11:35 : Carla Simoes, Illumina  "Points to consider for successful library prep"

11:35 to 11:50 : Steve Picton, Pacific Biosciences  "A New Insight into Complex Genomes with SMRT Sequencing"

11:50 to 12:30 : Nicolas Goffard, Illumina  “Illumina's Data Aggregation and Interpretation Platform for Research and                                Translational Medicine”


12:30 to 13:30 : Lunch (Department of Music Foyer)


13:30 to 14:30 : Three Parallel Breakout sessions

13:30 to 14:00 : Sponsor led session, each with 1 or 2 short company technical talks

14:00 to 14:30 : Discussion relating to lab/bioinformatics questions. Chaired by members of the Consortium.

Breakout Sessions Company Talks:

  1. Lab Breakout Parallel Session 1 (Room B8): Chaired by Lesley Ward and Alan McNally. Garry Cusack, Roche (profile)
    "Advancements in RocheNimblegen NGS Target Enrichment Technologies" 

    Adam Peltan, New Englands BioLabs 
    "NEBNext: Novel Solutions for NGS of Challenging DNA and RNA Samples"
  2. Lab Breakout Parallel Session 2 (Room B10): Chaired by Sunir Malla.  Alex Stretton, Agilent Technologies
     “New TapeStation for NGS QC and Highlights of New Target Enrichment.”  

    Herbert van den Berg, KapaBiosystems 
     "Evolved enzymes for NGS library preparation" 

  3. Bioinformatics Breakout Parallel Session 3 (A30 Lecture Theatre): Chaired by Richard Emes  Tim Bonnert, Associate Director of QIAGEN Advanced Genomics, Qiagen 
    "Knowledge based analysis of NGS data with QIAGEN Bioinformatics" 


14:30 to 15:00 : Break: Coffee and cake (Department of Music Foyer)


15:00 to 16:55 Final Session (A30, Lecture Theatre): Chaired by Nick Loman

15:00 to 15:05 : Introduction to the session

15:05 to 15:35 : Mike Quail, The Wellcome Trust Sanger Institute (Profile)

                          " The shape of things to come. A look at the future for NGS".

15:35 to 15:50 : Reshma Vaghela, NUCLEUS Genomics Core Facility, University of Leicester

                          “Genomics Core Facility - Leicester”

15:50 to 16:05 : Darren Grafham, Sheffield Diagnostic Genetics Service (Profile)

                          "Deploying NGS in a Clinical Setting".

16:05 to 16:20 : Richard Emes, Adavanced Data Analysis Centre , University of Nottingham (Profile)

                          "Bioinformatics, bugs and big data".

16:20 to 16:35 : Roy Chaudhuri, Sheffield Bioinformatics Hub and MicrobesNG (Profile)

                         "Cheap as chips: making the most of the £50 bacterial genome"

16:35 to 16:50 : Matt Loose, Deep Seq University of Nottingham

                          “Real-time MinION analysis with MinoTour”.


16:50 to 16:55 : Closing Remarks, Matt Loose


Followed by a meal/drinks at The Hemsley with anyone who would like to join us!   

This event is free to University staff. Click for Registration Details.    

Click for Directions to Arts Centre, University Park, University of Nottingham, Nottingham, NG7 2RD.

Event Sponsors:

We would like to thank our sponsors for their support:






  Illumina2013   BibbyScientific Qiagen_Logo
Cambridge-Bioscience-Full-Colour-Logo    Agilent  

Speaker Profiles:

Garry Cusack Profile :

I studied and obtained my academic qualifications at University of West Scotland in Biotechnology after which I moved into commercial sales in the molecular biology industry. Over 15 years I gained a wealth of experience, holding positions with high profile organisations and currently delighted to be with Roche Diagnostics UK. Over that time I have witnessed the significant advancements in science enabled by the latest cutting edge genomic technologies, the exponential rise of Next Generation sequencing and the peripheral industry that has emerged around it. I have been with Roche for ten years on the commercial side of the business. As Senior Key Account Manager and now Senior Technology Specialist for Roche Molecular Systems Life Science division, I am responsible for the sequencing solutions business in the UK, covering 454 Life Science Next Generation sequencing, and now the RocheNimblegen range of targeted enrichment and sequence capture products.


Mike Quail Profile: 

Michael Quail is team leader of the Sequencing Research Group at the Sanger Institute.Michael obtained his undergraduate degree in Biochemistry from the University of Hull (1986). He then spent two years in industry at Quest International (a Unilever company)developing methods of producing natural food flavour compounds. After this time Michael left industry to do a Ph.D investigating the cytochrome P-450 system of Botrytis cinerea under the supervision of Dr. S.L. Kelly at the University of Sheffield. Michael then moved down the corridor to the lab of Professor John Guest (FRS) where he did two successive Wellcome Trust funded postdoctoral positions working on regulation of the PDH complex and the function of iron-storage proteins in E. coli. With molecular biology and sequencing a strong component in these studies Michael moved to the Sanger Centre in February 1997 to be a Senior Research Assistant working on subcloning for the pathogen sequencing program. As this program, and the size of his group, expanded Michael was promoted to project leader. In 2007 he gained responsibility for the whole library construction group and became Head of sequencing Library Construction. From January to October 2010 Michael had the position of Library Coordinator where he managed the library construction, 454 and mapping and archive groups. Michael was involved in the initial testing of the Solexa sequencing platform and set up a group in 2008 for preparing libraries to supply our production group. Since October 2010 he has been managing the sequencing R and D group which has been involved in evaluating new sequencing technologies, ancilliary equipment, molecular biology kits and reagents, and in development of new sequencing applications.

Darren Grafham Profile: 

In 1995, Darren graduated from Warwick University with a 2:1 class B.Sc. (Hons.) in Biochemistry and continued his studies at Ashcroft International Business School where he obtained his M.B.A. in 2003. 
Darren worked for the Wellcome Trust Sanger Institute for 17 years and has 20 years genomics experience, overall, with involvement in the Human Genome Project and other large eukaryotic sequencing programmes. Darren has experience in managing large diverse groups of teams both internally and as part of international consortia. 
Darren was appointed as Head of Laboratory Services at Sheffield Diagnostic and Genetic Services in 2013. He is responsible for providing management and direction for the integrated cytogentic and molecular genetic laboratory in all aspects of research and development (R & D), next generation sequencing (NGS), diagnostic testing, space, equipment, IT, administration, finance, and infrastructure. 
He has most recently successfully implemented NGS in the clinical environment

Roy Chaudhuri Profile:

Since December 2013, Roy Chaudhuri has been a Lecturer in Bioinformatics in the Department of Molecular Biology and Biotechnology at the University of Sheffield, and a member of the Sheffield Bioinformatics Hub. His first degree was in Genetics at the University of Newcastle-upon-Tyne (1998), and this was followed by a PhD on the origins and evolution of HIV with Paul Sharp at the University of Nottingham (graduating in 2002). Roy then moved to the University of Birmingham for a first postdoc with Mark Pallen, where he was responsible for the creation of coliBASE and subsequently xBASE, online databases for bacterial comparative genomics, and became involved in several bacterial genome projects. In 2007 he moved to work with Duncan Maskell at the University of Cambridge, where he developed methods for the analysis of data derived from TMDH and TraDIS, which are microarray-and Illumina sequencing-based methods of performing transposon mutagenesis screens to identify bacterial genes required for survival and fitness during infection of a host. In 2012 he moved to the Centre for Genomic Research at the University of Liverpool, a major UK sequencing centre, where he was Bioinformatics Team Leader.

Richard Emes Profile:

Richard Emes is Professor of Bioinformatics at the School of Veterinary Medicine and Science and Director of the University of Nottingham Advanced Data Analysis Centre (ADAC). Richard initially studied Zoology at the University of Wales (First Class, 1996) and completed a PhD in molecular parasitology (Glasgow 2000). But the emerging world of genomics drew him away from the lab bench and to the computer keyboard. He undertook post-doctoral positions at Oxford University and the Sanger Institute Cambridge developing bioinformatics and comparative genomics approaches to investigate the evolution of genes and genomes. He was subsequently awarded an MRC Fellowship in Bioinformatics to study molecular evolution at University College London. His research attempts to understand complex biological problems using genomic and computational biology approaches particularly in the fields of host-pathogen biology, epigenetics and neurobiology.


Event Registration is required as seats are limited: to register please email:

Please provide your name, place of work, any dietary or access requirements (vegetarians should be catered for as standard).

Also please let us know if you would like to join us in the pub after the meeting so we can choose and appropriate venue.


For directions to and maps of University Park, University of Nottingham, please click here.

Please also see this map which shows the location of the Arts Centre in University Park:



Deep Seq

Centre for Genetics and Genomics
The University of Nottingham
Queen's Medical Centre, Nottingham, NG7 2UH

telephone: +44 (0) 115 823 0363