Jisc's new shared data centre
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By Phil Richards, Martyn Harrow, Professor Nick Luscombe, eMedLab and Professor Paul Layzell. Presented at the UUK annual conference 2014.
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Jisc's new shared data centre
- 1. 10/09/2014 Jisc’s new shared data centre Professor Paul Layzell, Principal of Royal Holloway University of London For UUK annual conference 2014
- 2. 10/09/2014 Jisc’s new shared data centre Professor Martyn Harrow, chief executive officer, Jisc For UUK annual conference 2014
- 3. www.luscombelab.org Nicholas Luscombe Professor of Computational Biology, UCL Senior Group Leader, Francis Crick Institute
- 4. Our research Applying computational methods to genomic data to understand how genes are switched on and off.
- 5. Human genome encodes ˜23,000 genes
- 6. Right gene at right time and place
- 7. Right gene at right time and place
- 8. Switching is controlled by regulatory genes
- 9. • We discovered 1,300 regulators in humans • 80% have no known target genes • Foundation for many downstream studies 33 human tissues What are the regulators? [Vaquerizas (2019) Nat Rev Genet]
- 10. What do they control? predicted expression • eve gene is expressed in fly embryos • Regulator-target relationships unknown • Modelling identifies relationships [Ilsley (2013) eLife] actual expression even-skipped
- 11. No hnRNP C Nonsensical transcripts hnRNP C binds pre-mRNA Alus suppressed And if it goes wrong…? • hnRNP C loss causes 1000s of nonsense transcripts • Mutations in binding sites can cause genetic disorders [Zarnack (2013) Cell]
- 13. Human genome is huge This is really hard Relationship between regulators and genes are not straightforward We still don’t know what 90% of regulators control
- 14. Human genome is huge This is really hard Relationship between regulators and genes are not straightforward We still don’t know what 90% of regulators control 3 billion letters = 119 volumes!
- 15. GenBank growth since 1989 # nucleotides 1989 time Datasets keep growing 1999
- 16. 1999 GenBank growth since 1989 # nucleotides 1989 time Datasets keep growing 1999 2010
- 17. 1999 GenBank growth since 1989 # nucleotides 1989 time Datasets keep growing 1999 2010 2010 2014
- 18. How do you transport them? data transfer
- 19. How do you transport them? data transfer
- 21. Francis Crick Institute • Opening 2015 • 6 partners (MRC, Cancer Research UK, Wellcome Trust, UCL, KCL, ICL) • World-class biomedical institute with interdisciplinary research • Aiming for >100 “dry" scientists
- 23. A solution
- 24. Shared offsite data centre Crick computing Collaborator project
- 25. eMedLab Data driven discovery for Personalised Medicine
- 26. eMedLab £8.9M MRC award for medical bioinformatics eMedLab infrastructure Capacity building
- 27. eMedLab £8.9M MRC award for medical bioinformatics eMedLab infrastructure Capacity building Secure storage, coordination, analysis
- 28. eMedLab £8.9M MRC award for medical bioinformatics eMedLab infrastructure Capacity building Secure storage, coordination, analysis Research output Clinical outcomes
- 29. Partners provide unique expertise's • Interface between bioinformatics and clinic • Novel bioinformatics methods and interface with wet lab • Genomics of health and disease • Public data access and chemoinformatics
- 31. eMedLab infrastructure Crick Sanger UCL Partners EBI Secure collaborative space
- 32. eMedLab infrastructure Crick Sanger UCL Partners EBI Secure collaborative space
- 33. eMedLab infrastructure Crick Sanger UCL Partners EBI Secure collaborative space
- 34. Infrastructure enables science Research can’t be achieved without reliable infrastructure
- 35. 10/09/2014 Jisc’s new shared data centre Dr Phil Richards, Chief Innovation Officer, Jisc For UUK annual conference 2014
- 36. Outline »Background »Benefits of scale »The human barriers »Partners »Thanks
- 37. Background »Government focus on shared services 2011 »HEFCE Universities Modernisation Fund (UMF) › Feasibility work around shared data centres › Technical proofs of concept via Janet network »Then a pause…
- 39. Benefits of large scale “… construction of extremely large-scale, commodity-computer data centres at low-cost locations… uncovered the factors of 5 to 7 decrease in cost of electricity, bandwidth, operations, software and hardware at these very large economies of scale.” Armburst, Armando Fox et al., Above the Clouds, Berkeley
- 40. Example industrial-scale data centres Owner Location Square feet Apple Maiden, North Carolina 500,000 Facebook Forest City, North Carolina 300,000 Amazon Dublin, Ireland 240,000 Google Hamina, Finland 300,000 HP Winyard, UK 305,000 Source: Greenpeace report ‘How dirty is your data?’, April 2011
- 42. The human barriers Distributed Data-centres Under Desks (DDUDs)
- 43. The Janet network – our ‘national grid’ for big data and computing Industrial-scale data centre Industrial-scale data centre Universities and research institutions
- 44. Partners
- 45. PR’s candidate big themes and possible projects • Lifting the student number cap • Break replacement cycle for Student Record Systems • Open source SRS modelling student lifecycle • Backdoor to HESA for easier data entry and benchmarking • Exorcising the ‘ghost of the MAC initiative’? • MOOCs for the masses • National platform to complement FutureLearn • FutureLearn platform lite or EdX instance? • Scalable approaches to Research Data and Equipment • National site licences for commercial big data • National Kit Catalogue • Joining the big data to the meta-data • Going beyond short-term compliance • Will policy be diluted as true costs emerge?
- 46. Partners
- 47. Extra slides
- 49. Further opportunity »Collaborative research data sharing »Consolidation of research computation support »Scale to £100Ms PA saving for the sector › Why does any HEI need its own data centre? › Can we all start benefitting from large scale? »Through the Janet network, we can!
- 50. Thanks
- 51. Thanks • Colleagues • Tim Marshall • Bob Day • Jeremy Sharpe • Dan Perry • Organisations • Hefce • Infinity
- 52. Find out more… Dr Phil Richards Chief Innovation Officer p.richards@jisc.ac.uk One Castlepark Tower Hill Bristol BS2 0JA T 020 3697 5800 info@jisc.ac.uk jisc.ac.uk Except where otherwise noted, this work is licensed under CC-BY-NC-ND
- 53. Panel discussion