1. 11 SaaS Science as a Service Abner Huang CSBB Lab., NTHU Dec. 14, 2011 Figure from GEN News Highlights: Jul 2, 2010 2. 22 3. Science is different 3 4. Science as a service 4 5. 6 Evolution of Biomedical researchers 6. 7 Nature: Milestones in DNA 1977 DNA sequencing 1990 BLAST 2002 UCSC Genome browser 2004 Ensembl Figure from http://www.nature.com/milestones/miledna/timeline.html 7. 8 The Trend of NGS BRIEFINGS IN BIOINFORMATICS. VOL 11. NO 5. 484 ^ 498 8. 9 Illumina's Certified Service Providers www.illumina.com/services/cspro.ilmn 9. 10 Personal Genome and Clinical Business 10. 11 http://news.sciencemag.org/scienceinsider/2010/06/uk-to-sequence-10000-genomes.html 11. 12 NHGRIs New Sequencing Projects Genome Sequencing Near $85 million in the first year Mendelian Disorders $12 million per year Clinical Exploration $10.3 million per year Informatics Tools $20 million for four years 12 http://www.genome.gov/27546261 12. 13 The Trend of NGS ivory.idyll.org/permanent/lstein-ngs-capacity.png 13. 1414 Challenges for Biomedical researchers 14. 15 Solve It Using Cloud Computing http://genomebiology.com/2010/11/5/207 15. 16 ``Cloud Computing in PubMed 16. 17 Biomedical Institutes hug cloud computing J. Craig Venter Institute released JCVI CLOUD BIO-LINUX IBM eX5 Improves Next Generation Sequencing for Sanger Institute ISB made Trans-Proteomic Pipeline (TPP) on clouds. 17. 18 Startup Companies 18. 19 19. Galaxy Cloud 21 http://www.biomedcentral.com/1471-2105/11/S12/S4 20. Galaxy Cloud 22 21. Parallel Algorithms Spectrum 23 22. CloudBurst 24 23. 25 24. RNAseq Unified Mapper (RUM) 26 25. Myrna 27 26. 28 27. Contrail 29 28. Whats Next? Alternative expression Allelic expression Structural variation Epigenomics Metagenomics Biological data/text mining Hapotype/Hapomap K thousand genomes 30 29. 32 30. NGS economics Biomedical Researcher Instrument vendors Sequencing outsourcing Analysis outsourcing Consultants 33 31. NGS economics Biomedical Researcher Instrument vendors Sequencing outsourcing Analysis outsourcing ODM Consultants 34 32. NGS economics on clouds Biomedical Researcher Instrument vendors Sequencing outsourcing Analysis outsourcing Fabless ODM Consultants 35 2 1 3 4 33. Voila! RNA-Seq Data Analysis 36 34. 38 IaaS Infrastructure as a Service PaaS Platform as a Service SaaS Software as a Service Cloud Service Models for Scientists www.spoutingshite.com/wp-content/uploads/2008/12/saas_and_cloud_computing.ppt 35. 39 Eating your own dog food 36. 40 37. 41 38. Science as a service Service as a science 42 39. Loose coupled interdisciplinary 43 40. Service science and cloud computing HPC on cloud computing of NGS Data Transfer Bottlenecks Streaming Computing Cost of Cloud Storage Community Cloud Developing App. Exchange of bioinformatics 44 41. THANK YOU 45