1. Bioinformatics Community of CNGrid A New Approach to Utilizing Grids
Yongwei Wu
Tsinghua University
Participants
Sponsorship
Beijing Institute of Genomics, CAS
Tsinghua University

2. Outline
Background
Our Approach
Achievements
Concluding Remarks

3. Exponential Growth of Bio Data
We need more storage and processing power
to store and analyze these data!

4. Grids Draw Much Attention
Bioinformatics is an important application domain of grid computing around the world!

5. Problems with Existing Bioinformatics Grids Practice
Professionals and sharing are not well balanced
Resources are limited in the environments built under the leadership of domain scientists.
The scale is also limited in the environments built only by the Bioinformatics researchers.
For those environments built based on general infrastructure, they are usually not professional, hard to use
No support for sharing GUI software
Not highlighting data’s support for computation
Data synchronization, backup and storage are beyond the ability of domain users, whereas IT developers know little about application requirements.
Covering only partial research activities
No support of daily communication, results sharing, …

6. Outline
Background
Our Approach
Achievements
Concluding Remarks

7. Key Points
Domain scientists lead the bioinformatics community development
Develops Nova to support GUI software sharing
Nova is a toolkit for customizing app environment
Highlights data support for computation
Storage can be attached to the computing environment
Introduces new functionalities
Knowledge repository, data/software sharing, Q&A system

8. Nova: A Virtual Computing Toolkit
Nova aims to provide facilities for users to utilize physical infrastructures in an easier and more productive way.
Customized
Host
Customized
Cluster
Customized
Services
Nova

9. Nova Architecture & Work Procedure
Master Node
Worker Nodes
Information Service
Configuration
② Query
③ Create VM
① Request
Worker Selection
Data Storage
④ OS Image VM
⑤ Start VM
⑦ Notification
⑧ VNC Remote Desktop
Data Storage
KVM/XEN Hypervisor
⑥ App Image
VM Monitor

10. Nova Features Install-/configuration-free client
users only need a Web browser to use the system
High productivity
pre-virtualized software and one-click configuration
Inherent integration with storage cloud
After VMs are created, personal space in storage cloud can be automatically attached as an independent driver, which then acts as a source for input data and as the destination of produced data

11. GUI Software Sharing by Nova
User Request
Nova Core Services
Worker Selection
Image Loading …

12. Providing Workflow Support
To improve research efficiency further
Both workflow definition tool and workflow services are supplied.

13. Knowledge Repository Hot Research Topics Important Journals
Important Conferences/Workshops
Famous Scholars
Important Research Institutes
Influential Surveys/Papers
Important Organizations/Associations

14. Other Useful Resources
Q & A System
For users to help each other
System Announcement
Seminar
Research Breakthrough
Conference/Workshop CFP
Newly added functions

15. Outline
Background
Our Approach
Achievements
Concluding Remarks

16. The Community is on Service16

17. Sequence Format Conversion (17)
234 tools are integrated!
DNA Analysis (28)
（SequenceViewer, WinGene, etc.）
RNA Analysis (19)
（miRanda, RNAshapes, etc.）
Protein Analysis (17)
(InterproScan, InterViewer, etc.)
Protein Structure (38)
(Protein Explorer, RasTop, etc.)
234
Evolution Analysis (41)
(MEGA, GeneTree, etc.)
Sequence Assemble
and Alignment(74)
(BLAST, ClustalX, BioEdit, etc.)
Sequence Format Conversion (17)
(SeqVerter, DataConvert, etc.)

18. 47 databases are provided!
UCSC Genome full mirror + following

19. Community Usage More than 100 users now
More than 60 institutes are involved.
Users’ preference to the resources provided
Software tools 77.38%
Database 67.86％
Knowledge Repository and others 32.14%
Software Tool Database Knowledge
Repository

20. Scenario for HnNn Analysis20

21. Outline
Background
Our Approach
Achievements
Concluding Remarks

22. Concluding Remarks User- and task-oriented design is important
The key to driving cloud computing successful
The reason why we choose domain scientist-leading design
Value-added services are important
The key to attracting and retaining users
The reason why we provide workflow support
Challenges still ahead
How to survive the data deluge?
How to support new requirements?

23. Thanks!