strategy of processing complex data
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疾病管制局
Strategy of Processing Complex Data
-TB Database As A Case Study
Pei-Ju Chin
Bioinformatics Core
Mycobacteria Reference Lab
Laboratory Research & Development Division
Center of Disease Control
Taipei, Taiwan, R.O.C.
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疾病管制局
Flowchart of Genotype Analysis
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疾病管制局
Experimental Data We Engaged
• Fingerprint
– RFLP, PFGE, PCR-RFLP
• Character
– VNTR, MIRU, Spoligotype
• Sequence
– 16s rDNA, SNP of MDR gene
• Matrix
– DNA Homology Matrix
• Cluster Analysis
– UPGMA, Ward, NJ….etc
• Dimensioning and Statistics
– PCA, MDS, SOM
• Identification
– Neural network, Basic Expert System
• Database Sharing Tool
• Server Package
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疾病管制局
Fingerprint Type- RFLP
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疾病管制局
Character Type- Spoligotype
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疾病管制局
Character Type- VNTR-MIRU
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疾病管制局
Contents In TB Genotype Database (Dec. 2002~Mar. 2005)
Experiment Present RFLP Spoligotype VNTR MIRU
Number 1197 2379 628 1098
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疾病管制局
• Consulting IT Service Provider
– Advantage
• Without maintenance requirement
– Disadvantages
• Budget ?
• Compatibility ?
• Distributed System
– Advantage
• Flexibility
– Disadvantage
• Management is a difficult issue
Integrated Database: How ?
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疾病管制局
Bi-Directional Data Sharing
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疾病管制局
CDM Schema of TB InteGrated & Research Database (TIGR DB)
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疾病管制局
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疾病管制局
TB InteGrated & Research Database (TIGR DB)
• Laboratory-Oriented Database
• Focus on examination data, not epi data
– Bi-directional data sharing with EID division & TB division
• http://192.168.83.3/db1/