EOS_IJSCM_day 1
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This document summarizes the goals and phases of the Mathematics and Informatics for Environmental ‘Omic Data Synthesis (‘Omics) TAP program. The program has five phases: 1) NERC consultation, 2) forming an advisory group, 3) administering bioinformatics fellowships, 4) building an environmental ‘omics network, and 5) wrapping up the program. All phases aim to establish the Environmental ‘Omics Synthesis (EOS) centre to synthesize ‘omics data as recommended by the NEOMICS strategy through building collaborations between researchers. The advisory group will oversee administering fellowships focused on using ‘omics to address challenges in understanding biodiversity, evolution, genetics, ecosystems, and more. The
EOS_IJSCM_day 1
- 2. Unifying a portfolio of EOS activities
- 3. Mathematics and Informatics for Environmental ‘Omic Data Synthesis (‘Omics) TAP
- 4. Five phases of Delivery: Where are we 1. NERC Consultation. 2. Formation of the Advisory and Implementation Group (AIG). 3. Administering the Bioinformatics Fellowships. 4. Building the Environmental ‘Omics Network (EON). 5. Wrap up of programme All of these goals will be achieved through the establishment of the Environmental ‘Omics synthesis (EOS) centre, as recommended by the NEOMICS strategy.
- 6. Establishing an effective AIG Directorate: Management Team Academic and Technology Specialists Observers: Industry/Government Research Council Partners AIG
- 7. Omics Discipline Hopping Grants Tracey Timms-Wilson
- 8. Awards Made Modelling proteomics data for investigating plant response to environmental stress. Professor Steven Rushton, Newcastle University Spatial ecological genomics of free-ranging Great tits. Professor Ben Sheldon, Oxford University Implementing Metabolomics Analyses into Workflows: Towards Genome-Metabolome Large-Scale Data Fusion. Professor Mark Viant, University of Birmingham Exploiting sociogenomics datasets for understanding phenotypic plasticity. Dr Seirian Sumner, University of Bristol Efficient Biological Networks Discovery and Analysis Professor Leszek Gasieniec, University of Liverpool
- 9. NERC Independent Research Fellowships in Bioinformatics Dawn Field
- 10. AIG input • Science Quality must be primary criteria • Need to leverage reputation of NERC fellowships • Do not re-invent the wheel • Balance science quality with delivering directed science program
- 11. Scientific Challenge Areas “Applicants will be expected to develop science- driven, environmentally relevant, multi- disciplinary and computationally-based independent research agendas in bioinformatics using ‘omics technologies.” “direct relevance to the NERC strategy and associated areas such as human health, global food security, agricultural productivity, ecosystem health, and other aspects of sustainability”
- 12. Scientific Challenge Areas: ...may included • Understanding patterns of biodiversity, including ‘hidden’ or cryptic biodiversity. • Understanding past evolutionary and ecological events to understand the present and build predictions about future response to changing environments. • Understanding the relationship between genetic variation and response to the environment. • Modelling complex biological interactions underlying the resilience of ecosystem services. • Linking environmental ‘omics data to other large scale data sets and models. • Informing the relationship between environment and human health. • Advancing novel algorithms, data structures and ontologies. It is recognised that to effectively address these strategic science challenges it will be necessary for Fellows to align with other Research Councils, Government Agencies and Departments, charities or industry. Applicants should identify these strategic alignments within their Case for Support.
- 13. The Environmental Omics Synthesis Centre (EOS): Synergies Bringing together ideas, disciplines, people and organisations to harness ‘omics to advance Environmental Science. Ensuring that we build an active research community working in this area over the next five years and beyond. Establishing Bioinformatics as a discipline in its own right in environmental science. Mainstreaming the use of sophisticated informatics approaches and developing new ones. Promoting an interdisciplinary approach that facilitates integration of environmental biology into complex scientific problems. Promoting a synthesis approach that makes use of existing data resources as well as generating new data to address complex environmental problems. Building collaborations between environmental science and other areas of science (e.g. medical science, structural biology, computational science, etc.). Growing the environmental ‘omics community in the UK and beyond. Successful applicants will be required to interact with EOS and attend annual conferences.
- 14. iEOS: International Environmental Omics Synthesis Conference Peter Kille
- 15. Science program Cross-cutting NERC Themes • SESSION I. Archeaological Omics. Learning from the Past to inform the Future. Chair: Prof. Tom Meagher • SESSION II. Ecological Omics . from Biodiversity workflows to Molecular Adaptation. Dr Claire Gachon • SESSION III. Epigenetics. From Molecules to Phenotypes. Chair: Prof. Peter Kille • SESSION IV. Evolutionary Omics. Phylogenetics and the Tree of Life. Chair: Dr Daniel Barker • SESSION V. Integrated and systems Omics. Towards Environmental Systems Biology. Chair Prof. Mark Viant • SESSION VI. Community Ecology. Community Profiling (Metagenomics and Metabarcoding) to Function. Chair Dr Mesude Bicak
- 16. International speakers of the highest calibre
- 17. What is the Environment ‘Omics Synthesis centre – EOS? Disciplines People OrganisationsIdeas
- 18. Moore’s Law put to shame: Man to machine 2000 02 04 06 08 10 100,000 10,000 1,000 100 1.0 0.1 10 Moore’s Law – Cost of Computing Cost ($) per Million Bases Broad Institute Radionucleotides Fluorescence Capillary MPS SingleMolecule
- 19. Technology Overload Illumina Highseq – 40 Gb/day ABI SOLiD 5500xl – 30 Gb/day Roche Flx Titanium – 2 Gb/day £300-500K
- 20. Technology Overload Illumina Highseq – 40 Gb/day ABI SOLiD 5500xl – 30 Gb/day Roche Flx Titanium – 2 Gb/day £300-500K Illumina MiSeq – 1 Gb/day £130-70K ABI SOLiD 5500 – 10 Gb/day Roche GS – 0.1 Gb/day
- 21. New Horizons Pacific Biosciences – PacBio RS Ion Torrent– Personal Genome Machine Oxford Nanopore
- 22. Much more than ‘genomics’
- 23. To only glimpse the tree of life: the opportunities are endless Professor Mark Blaxter (Edinburgh University)
- 24. Mathematics and Informatics for Environmental ‘Omic Data Synthesis (‘Omics) TAP