SME Bioinformatics Forum 2018
SME Bioinformatics Forum 2018
Join us on the Wellcome Genome Campus for the 11th EMBL-EBI SME Bioinformatics Forum on the 1st of November, 2018. Find out how your company can make the most of public molecular data resources?
EMBL-EBI's freely available and sustainable biological data resources and services enable and support data-driven bioindustries and make it easier for small companies to stay focused on product development. Our annual SME Bioinformatics Forum provides a window into EMBL-EBI, allowing you to:
- discover our latest tools and services
- speak to our bioinformatics experts
- find out how other SMEs have collaborated with us to develop and grow their businesses.
There will be plenty of opportunities on the day to pitch your business and network.
See the list of attendees here.
See an album of pictures from the event here.
Chair: Dominic Clark
|08:30 - 09:30||Arrivals and registration|
|09:30 - 09:40||Welcome and introductions||Dominic Clark, EMBL-EBI|
|09:40 - 10:00||EMBL-EBI Industry Strategy||Jessica Vamathevan|
|10:00 - 10:15||EMBL-EBI News - new resources, tools and services||Oana Stroe|
|10:15 - 10:45||Flash Talks|
|10:45 - 11:15||Networking break|
|11:15 - 12:15||
How EMBL-EBI works with SMEs (case studies)
Millions of Enzymes now Cheaply Available for Biocatalysis (Mark Blight).
|12:15 - 12:25||SciBite on levaraging EMBL-EBI tools||Jane Lomax|
|12:25 - 12:35||EMBL-EBI Training||Sarah Morgan|
|12:35 - 12:45||User Experience for the Life Sciences (UXLS) Toolkit||Paula de Matos|
|12:45 - 14:15||Lunch and EMBL-EBI data resources showcase||
|14:15 - 14:30||Wellcome Genome Campus BioInnovation||Jo Mills|
|14:30 - 14:45||ELIXIR Industry Programme||Kathi Lauer|
|14:45 - 15:00||OneNucleus: Support for SMEs in bioinformatics and data sciences||Tony Jones|
|15:00 - 15:30||Medicines Discovery Catapult||John Overington|
|15:30 - 15:45||BBSRC Funding Support for collaborative research||Laura Pritchard|
|15:45 - 16:15||Networking break|
|16:15 - 16:45||
Moderator: Dominic Clark
Invited panel: SciBite, Congenica, Repositive, Medicines Discovery Catapult, Biocatalyst, OneNucleus
|16:45 - 17:00||Wrap up||Dominic Clark|
|17:00 - 18:00||Drinks reception and networking|
If you have any practical questions about the logistics of this event, please contact Lucie Smith: email@example.com
Please note that the speaker lineup and the timing of talks may change before the event.
Global Internet & Intranet Services Manager.
Dominic holds a PhD in Medical Informatics/AI from the University of Wales Institute of Science and Technology and a postgraduate diploma in IT Project management (OU). He is a founding director of the International Society for Computational Biology.
Jessica is EMBL’s Head of Strategy, based at EMBL-EBI in Hinxton. She is responsible for developing and shaping EMBL’s strategic planning across its six sites, and has a key role in specific initiatives related to the implementation and execution of the EMBL Programme EMBL’s next five year research plan, due to begin in 2022.
Jessica joined EMBL-EBI in 2016, and since May 2018 has been Head of EMBL-EBI’s Strategic Partnership Office, responsible for strategy development, planning, and EMBL-EBI industry initiatives.
Prior to joining EMBL-EBI, Jessica held several roles at GSK, most recently as the Operations Director for Open Targets, a public-private partnership. Jessica oversaw the management of informatics and experimental target validation projects and ensured the strategic deployment and operational translation of the initiative. Jessica was also a Team Leader in GSK Computational Biology, working with discovery scientists in many therapeutic areas including infectious diseases, respiratory, immuno-inflammation and rare diseases to deliver impactful bioinformatics projects.
She spent over six years at The Institute for Genomic Research (TIGR) in Maryland, US working on many pathogen genome sequencing projects and a year at the Wellcome Sanger Institute in human genome annotation. She also taught as a Lecturer in Molecular Evolution at University College London.
Jessica holds a PhD in Bioinformatics from University College London, an MSc in Computer Science from Johns Hopkins University and a Bachelor of Medical Science from the University of Sydney.
Oana coordinates EMBL-EBI's strategic communications, content production, media relations and exhibitions. Before joining EMBL-EBI, Oana spent several years as an Account Manager at engineering and science PR agency Stone Junction. There, she designed and implemented integrated communications campaigns for clients in the pharmaceutical, healthcare, engineering and technology sectors.
Oana holds an MA in Communication, Culture and Media from Coventry University and a BA in Communication and Public Relations from the National School of Political Science and Public Administration in Bucharest, Romania.
Dr Rob Finn leads EMBL-EBI’s Microbiome Informatics team, which is responsible for the MGnify resource, which provides access to the metagenomics, metatranscriptomics and assembly analysis services. The functional and taxonomic profiles of these datasets, once made public, can be access by all via the MGnify website. The team is also responsible for the HMMER website, which enables fast proteins sequence similarity searches against a range of sequence and profile HMM databases. Rob also has a small research group that probes the functions of microbial 'dark matter'.
Rob joined EMBL-EBI from the Janelia Research Campus in the US, where he led a group that designed fast, web-based, interactive protein-sequence searches and annotations. Between 2001 and 2010, he was the project leader for Pfam at the Wellcome Sanger Institute in the UK. Rob’s academic background is in microbiology and he holds a PhD in biochemistry from Imperial College, London.
Jo was appointed Senior Scientist and Associate Director of EMBL-EBI Services in 2019 with responsibility for data resources. She has been Team Leader for Literature Services at EMBL-EBI since 2009. Her team runs Europe PMC - the open access database of abstracts and full-text articles for the life sciences, which supports the open access policies of 29 international funders of life sciences research.
Prior to joining EMBL-EBI, Jo was a staff scientist at the NCBI, National Library of Medicine, NIH, USA, where she worked on various literature-related resources and website usability, and was the Editor at Trends in Biochemical Sciences (TiBS), Elsevier. Jo’s primary focus has been on the integration of the open access literature with life sciences data, to support the development of new ways to access and discover research information. This has led to interests in the areas of text and data mining, curation, and scientific credit and impact systems. She holds a PhD in plant biology from Manchester Metropolitan University.
Paul Shannon is Head of Technology at eLife, a unique collaboration between the funders and practitioners of research to improve the way important research is selected, presented, and shared. He’s responsible for the technology strategy at eLife ensuring the team are committed to openness in the products they produce to encourage broad change across the research communication landscape. He leads the community efforts around eLife’s open source products (Libero, Lens, ScienceBeam) and contributes to the Coko Community (xPub) through leadership and facilitation. He’s a regular conference speaker and was previously VP Technology for innovative digital music platform 7digital, where he grew the team and scaled the API platform to support the vastly changing music technology industry.
Jane is the Head of Ontologies at SciBite, a company that specialises in text mining, semantics and data intelligence for biopharma, biotech and beyond. Before her time at SciBite, Jane worked as a bioinformatician for WormBase in the Parasite Genomics group, working specifically on parasitic nematodes. Jane co-ordinated the development of the Gene Ontology, a major bioinformatics project to standardise the description of functional data, at EMBL's European Bioinformatics Institute and was involved in many efforts relating to ontologies and standards such as the Open Biomedical Foundries (OBO). Prior to this I researched the population genetics of filarial nematodes at the Univeristy of Cambridge focussing on study population of Wuchereria bancrofti in Papua New Guinea.
Sarah has a BSc and MSc in Biomedical Sciences, followed by a PhD from Cranfield University. Over a 10 year academic career her research has focused on tumour biomarker characterisation and cell-surface interaction. Beyond research she took an active role in the provision of postgraduate taught courses for the University as Lecturer in Molecular Medicine, leading the development and direction of a number of MSc Courses including the MSc in Translational Medicine, the MSc in Molecular Medicine, and more recently acting as director for the MSc Programmes in Advanced Biosciences. She has lectured on a variety of biomedical techniques and topics, including ethics and governance of research.
Paula de Matos
Paula is an independent consultant specialising in the application of UX in complex domains such as lifesciences, finance and biodiversity. She is a Project Manager for the Pistoia Alliance UX for Life Sciences project. This is a collaboration of over 35 UX specialistsworking together to share knowledge and best practices in the UX for Life Sciences domain.
Jo joined the Wellcome Genome Campus as Entrepreneurship and Innovation Centre Manager as part of its vision to establish the Genome Campus as a world-leading innovation ecosystem for Genomes and BioData. Prior to this Jo spent over 15 years at the Cambridge Judge Business School developing entrepreneurship education. For 10 years she was Deputy Director of the Centre for Entrepreneurial Learning and was the Founding Programme Director of the Postgraduate Diploma in Entrepreneurship where she worked with almost 200 aspiring entrepreneurs from across the globe.
Katharina Lauer leads the development and implementation of ELIXIR’s Industry Strategy, including the ELIXIR Innovation and SME programme. Kathi joined ELIXIR from the University of Cambridge where she worked as a research associate looking at the interaction of DNA damage repair proteins and viruses. She was also a member of the Entrepreneurial Postdocs of Cambridge, a group aiming to enhance the entrepreneurial potential of postdocs in academia.Originally from Germany, Katharina Lauer received a Masters degree in Biomedical Sciences at the University of Edinburgh and a PhD in vaccinology from the University of Manchester, UK. During her PhD she also volunteered for Public Health England in the Ebola epidemic in Sierra Leone.
Tony Jones is Director of Business Development at One Nucleus, developing the organisation's membership offering to reflect the current external environment and the changing needs of business. He leads the delivery of BioWednesdays, the Life Science Leadership Series and the annual Genesis Conference. Tony was Director of Biotechnology and Healthcare at London First, managing the London Biotechnology Network and promotion of London’s excellence in healthcare research and delivery. In 2010 he took London Biotechnology Network into a merger with the nonprofit membership organisation ERBI, consolidating efforts to assist member companies in developing their businesses. Tony obtained his PhD in Biochemistry from the University of Southampton, and conducted several years of post-doctoral research in the oncology field, primarily with the Imperial Cancer Research Fund (now CRUK). He moved into Technology Transfer in 1997 with the Medical Research Council and later at University College London's Wolfson Institute for Biomedical Research.
John joined the Medicine Discovery Catapult as CIO, where he leads the development and application of informatics approaches to promote and support innovative, fast-to-patient drug discovery in the UK through collaborative projects across the applied R&D community. John joined from technology company BenevolentAI, where he was involved in the development of novel data extraction and integration strategies, integrating deep learning and other Artificial Intelligence approaches to drug target validation and drug optimisation. Prior to this, John worked for Inpharmatica, where he led the development of a series of computational and data platforms to improve drug discovery, including the medicinal chemistry database StARLite. In 2008 he was central to the transfer of this database to the EMBL-EBI, where the successor is now known as the ChEMBL. More recently, the work extended into large-scale patent informatics with the Open patent database SureChEMBL.