Development of Computer-aided Skin Disease Severity Assessment System
May 2010 - May 2012
Partners: Dr Goh Chee Leok (NSC), Prof Leow Wee Kheng (NUS)
BIG Staff: Tan Tsu Soo, Alice Cheong, Feng Song Zhe, Gu Wenhui
Summary: A collaborative project with the National Skin Centre and the National University of Singapore, to develop a system for quantified dermatology aimed at both the medical and aesthetics communities. This project is supported by an NRF TRD grant (2009).
Development of Software for Fluorescence Endoscopy Cancer Detection with Indicative Grading
April 2009 - July 2009
Partners: Dr Malini Olivo (NCCS)
BIG Staff: Alice Cheong
Summary: Development of an interactive real-time image processing and analysis software based on colour ratio diagnostics algorithm for fluorescence endoscopy cancer diagnosis in oral and bladder cancer.
Development of Accelerated Carcinoma Grading System for High Content Screening
April 2009 - April 2012
Partners: Dr Tan Soo Yong (SGH)
BIG Staff: Dr Kong Wai Ming, Desmond Lim, Tan Tsu Soo, Joyce Wong, Zin Ko Ko Min
Summary: Development of a system for high-throughput objective analysis of immunohistochemically stained tissue images. A patent application was filed during the initial phase of the project. This project is supported by an MOE-IF grant (2008).
Multifactorial Analysis of Geographical Factors Affecting Dengue Incidence In Singapore
July 2008 - January 2009
Partners: EHI/NEA
BIG Staff: Dr Kong Wai Ming, Shi Shao
Summary: Study of how geographical factors, for example vegetation, are related to dengue incidence in Singapore.
Tissue Microarray Management System (TiMMS)
May 2008 - November 2008
Partners: Dr Tan Soo Yong (SGH)
BIG Staff: Desmond Lim, Tan Tsu Soo
Summary: Development of Tissue Microarray Management System, based on MS-SQL and MS .Net technology, for use with a manual tissue microarrayer.
Chemical Inventory & Management System
February 2008 - May 2008
Partners: Dr Guo Xuming (SCL(LS) - NYP)
BIG Staff: Desmond Lim, Tan Tsu Soo
Summary: Development of a centralised database system, with web-based user interface, for the inventory and control of chemicals used in SCL.
Automated Grading of Her2/neu Immunohistochemistry
February 2008 - May 2008
Partners: Dr Tan Soo Yong (SGH)
BIG Staff: Angela Jean, Dr Kong Wai Ming, Tan Tsu Soo
Summary: Development of an automated method to grade cancer cells based on Her2/neu immunohistochemistry.
Gastric Cancer Knowledge Management System
October 2004 - September 2007
Partners: Prof Kon OL (NCCS), Dr Alvin Eng (SGH), Dr Wong Wai Keong (SGH), Dr Marian PK (SGH), Dr Patrick Tan (GIS)
BIG Staff: Adrian Png, Lawrence Tham, Choo Keng Wah
Summary: A National Medical Research Council (NMRC)-funded project, for the development of a Gastric Cancer Knowledge Management System (GCKMS) for:
- capturing comprehensive clinical and laboratory test and experimental data including genomics and proteomics study results and
- allowing easy retrieval, manipulation and mining of information that is critical for the development of new and improved methods of diagnosis and treatment
Disease Centric SNP Database (DCSDB)
September 2006 - March 2007
Partner: KOOPrime Pte Ltd
BIG Staff: Lawrence Tham
Summary: Development of an integrated disease centric SNP, genomic and pathway mapper. DCSDB will include multiple SNP databases: dbSNP, Han SNP, JSNP, Hapmap, for easy comparison of SNP differences between different human races. Information from SNP, genome and pathway is amalgamated with disease information from databases such as OMIM and CGAP, to aid new and innovative discoveries.
Proteomics Informatics Tools for Analysis of Tandem Mass Spectrometry Data
September - December 2006
BIG Staff: Choo Keng Wah
Summary: Employment of piece-wise convolution method to identify the b-ion and y-ion fragments found in the tandem mass spectrometry datasets for assessment of quality and fitness for MS database search or de novo sequenceing.
Proteomics Experimental Data Curation Tools
August - December 2006
Partner: Dr Mac Ho MF (NCCS)
BIG Staff: Adrian Png, Choo Keng Wah
Summary: Development of workflow tools for biomarkers discovery and data management and visualization of proteomics experiments performed at National Cancer Centre Singapore (NCCS).
BioGlue - A Bioinformatics Workflow System.
February - December 2006
BIG Staff: Adrian Png
Summary: Development of a Bioinformatics Workflow System that will utilise standards-based Web Services technologies to amalgamate different genomic and proteomic data sources and provide scientists with a single platform for eliciting multi-dimensional information relating to their research interests.
Qualitative Measurement of Tandem MS Data.
May - September 2006
BIG Staff: Lawrence Tham, Choo Keng Wah
Summary: Development of new approaches in qualitative and quantitative measurement of tandem mass spectra.
Allergen Prediction Using 3D Structural Data.
May - September 2006
BIG Staff: Dr Kong Wai Ming, Tan Tsu Soo
Summary: Use of 3D structural data to represent motifs found in allergens, for the prediction of allergeneicity of novel protein.
Grid-based Protein Homology Modeling Process.
April - September 2006
BIG Staff: Dr Kong Wai Ming, Tan Tsu Soo
Summary: Deployment of Fugue, Modeller and Procheck, on a Linux cluster to build a process for large scale protein 3D modeling. The system was used to create a 3D structure database used in allergen prediction.
Disease Related Biological Database.
April - September 2006
BIG Staff: Dr Kong Wai Ming, Choo Keng Wah
Summary: Development of a disease related biological database using publicly available data - OMIM and DBSNP databases for known genetic human disease and SNP information.
Proteomics Data Management & Discovery System
April - September 2006
Partners: Prof Kon OL (NCCS), Dr Mac Ho MF (NCCS)
BIG Staff: Lawrence Tham, Adrian Png, Choo Keng Wah
Summary: Development of bioinformatics protocols in the management and analysis of protein MS/MS data, in association with specific peptides relating to disease phenotypes that will affect the treatment outcomes and prognosis of gastric cancer.
Protein Profiling of Pseudomonas aeruginosa.
February - May 2006
Partner: Matthew Lau (SCL(LS) - NYP)
BIG Staff: Dr Kong Wai Ming, Choo Keng Wah
Summary: The protein profile of the Pseudomonas aeruginosa, obtained from clustering proteins of Pseudomonas strains, can be used for diagnostic purpose to detect its presence. Detection of the bacterium is important for curbing chronic bacterial infections in the lungs of cystic fibrosis patients.
Pathway Mapping of Pseudomonas Proteins.
February - May 2006
Partner: Matthew Lau (SCL(LS) - NYP)
BIG Staff: Dr Kong Wai Ming, Lawrence Tham
Summary: Development of visualization system for identifying Pseudomonas proteins and their respective pathway. The system will allow scientists to view the pathways of Pseudomonas proteins in order to identify potential drug targets.
Development of Proteomics Analysis Protocols in Disease Studies.
February - June 2006
Partner: Matthew Lau (SCL(LS) - NYP)
BIG Staff: Choo Keng Wah
Summary: Development of proteomics/bioinformatics analysis protocols using Pseudomonas genome as the study platform.
Proteomics Data Analysis System.
February - July 2006
Partners: Dr Zhou Lei (SERI), Prof Kon OL (NCCS)
BIG Staff: Adrian Png, Lawrence Tham, Choo Keng Wah
Summary: Development of a filtering and analysis module for the PDMS, to provide automated filtering and analysis of proteomics data generated from Pro Group Report and Mascot; data processed by this module is formatted for further analysis using GeneSpring.
Pathway Mapping of Pseudomonas Proteins.
February - May 2006
Partner: Matthew Lau (SCL(LS) - NYP)
BIG Staff: Dr Kong Wai Ming, Lawrence Tham
Summary: Development of visualization system for identifying Pseudomonas proteins and their respective pathway. The system will allow scientists to view the pathways of Pseudomonas proteins in order to identify potential drug targets.
Development of an Allergen Prediction System based on Allergen Representative Peptides (ARPs).
October 2005 - April 2006
BIG Staff: Dr Kong Wai Ming
Summary: Study of newly proposed method in allergen prediction for enhancement of allergen prediction algorithm developed at NYP.
Development of Protein-Protein Interaction Models for Dengue Virus Envelope Protein with Dendritic-cell-specific ICAM3-grabbing Non-integrin (DC-SIGN).
November 2005 - March 2006
Partners: Dr Prasanna Kolatkar (GIS), Dr Kyung H.K. (University of Korea)
BIG Staff: Tan Tsu Soo
Summary: Development of protein-protein interaction models of the dengue virus envelope protein with DC-SIGN using docking software, for example AutoDock, on a high-performance computer cluster.
Development of Multi-dimensional Genome-Wide Expression Visualization Tools.
October 2005 - February 2006
BIG Staff: Choo Keng Wah
Summary: Development of a general toolbox for displaying genome datasets (of different sizes and lengths) along with the genetic expression profiles obtained from multiple experiments.
Integration of Pathway Finder into Genome Mappers.
October 2005 - January 2006
Partner: KOOPrime Pte Ltd
BIG Staff: Lawrence Tham, Choo Keng Wah
Summary: Integration of pathway algorithm (Patent No: 200305750-2) into Genome Mapper for upgrading commercial software package.
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