Genomics and Data Analytics Core (GeDaC)
The Genomics and Data Analytics Core (GeDaC) at the Cancer Science Institute of Singapore (CSI) is designed to meet the increasing need of bioinformatics and computational support for institute labs. Its mission is to, 1) provide investigators access to bioinformatics expertise and solutions, 2) use data science to enhance the impact of CSI’s research, and 3) develop innovative platforms for cancer genome analytics.
GeDaC is part of a broader vision to establish CSI as a regional and global leader in cancer-related computational biology.
For further information and to discuss how we may help you with your computational biology work and price list, please contact the Genomics and Data Analytics Core (GeDaC) via email (csi_gedac[at]nus.edu.sg) and kmande22@nus.edu.sg.
Facility Head
Dr. Jason James PITT
Principal Investigator, Cancer Science Institute of Singapore, NUS
jason.j.pitt[at]nus.edu.sg
Service Unit Lead
Henry YANG
Lead of GeDaC Research Bioinformatics Unit
Research Associate Professor, Cancer Science Institute of Singapore, NUS
csiyangh[at]nus.edu.sg
Dr. Kumaran Kuppusamy MANDE
GeDaC Manager
Senior Research Scientist, Cancer Science Institute of Singapore, NUS
kmande22[at]nus.edu.sg
Tony TAN
Lead of GeDaC Clinical Bioinformatics Unit
Senior Research Scientist, Cancer Science Institute of Singapore, NUS
csittz[at]nus.edu.sg
CK ONG
Lead of GeDaC Storage Unit
IT Manager, Cancer Science Institute of Singapore, NUS
csiock[at]nus.edu.sg
Team Members
Li YING
GeDaC Research Bioinformatics Unit
Research Associate, Cancer Science Institute of Singapore, NUS
csiliyi[at]nus.edu.sg
LINGANESAN Kularatnarajah (Mani)
GeDaC Scaling Unit
Software Engineer, Cancer Science Institute of Singapore, NUS
mani[at]nus.edu.sg
CHIA Yong Keng, Hydrus
GeDaC Storage unit and administration
IT Analyst, Cancer Science Institute of Singapore, NUS
ykchia@nus.edu.sg
Services and Solutions
GeDaC is providing services and solutions made up of three collaborative and complementary units as illustrated below.
We provide services for 1) project-based bioinformatics data analysis consultation for research groups , 2) best practice pipelines for common genomic data (e.g. NGS) processing and analyses, 3) standardization and storage of CSI datasets.
The facility also houses CSI’s Genomics Bench that is equipped with a variety of equipment to support research analysis within the institute. The full list of equipment under the Genomics Bench are:
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- 10x Genomics Chromium Controller
- Agilent 2100 Bioanalyzer
- Agilent 4200 TapeStation
- Covaris ME220 Focused-ultrasonicator
- Diagenode Bioruptor Plus
- Diagenode Bioruptor Pico
- Bio-Rad QX200 Droplet Digital PCR
The Storage unit is responsible for the maintenance of CSI servers and storage management such as backup and archiving. The unit also provides support for the institute’s cloud computing transition, security, and network maintenance.
The Scaling unit provides support and assistance to users on how to transform bioinformatics pipelines into scalable and portable workflows. The unit is also developing a cloud-based software stack to harmonize/warehouse local and public sequencing data. This includes constructing modern APIs/databases to facilitate smooth data access for CSI researchers. Finally, this unit will liaise with tech industry partners as well as manage collaborative efforts between CSI and the Genome Institute of Singapore.