1. 生物資訊與網路資源 Department of Life Science Institute of Biotechnology National Dong Hwa University David Shiuan 生物資訊與網路資源 Bioinformatics and Web Resources

2. Bioinformatics (Computational Biology or Information Biology) Computational approaches to answer biological questions 使用電腦來解決生物學的問題 Bioinformatics

3. Bioformatics covers :  型態、結構、顏色 morphology,color  DNA 及 基因體 genomes  蛋白質、碳水化合物等大分子 Biomacromolecules, proteome  生化、生理、遺傳、演化特性 biochemistry, physiology,genetics,evolution etc.

4. NTHU 清華大學 生物資訊與網路教學卓越計畫

5. 清華大學 生物資訊與網路教學 卓越計畫

9. Bioinformatics : Revelations from the Book of Life …….BIOHRIACGTDSTRONGJKWISEGT TUSH……MLGHSINCERITYGKJ……….. CANCER ……...FEBEAUTYRANTGGGGCUP………

10. Bioinformatics Information can be converted into knowledge Promote human civilization and science achievements Creat knowledge-based economics

11. Bioinformatics (Computational Biology or Information Biology) Why does it emerge so rapidly ? 1. Explosion of sequence and structural information 2. Advancement of Internet Bioinformatics

12. The Three Projects Affecting Human Civilization most Menhatten Project 1940s Apollo Project 1965s Human Genome Project 1993-2003

13. Human Genome Project 1990-2003 Unravelling the 3 x 10 9 bp genome Goals 1. Understanding Life Science 2. Disease Diagnosis and Treatment Legal and Ethical Challenges 1. Human rights 2. Health insurance

14. GOLD (Genomes OnLine Database)

17. Internet (International Network) 1972 - ARPAnet (created by Defense Advanced Research Projects Agency), cold war network 1979 - Usenet ( the first News Distribution protocol) 1982 - TCP/IP (Transmission Control Protocol/ Internet Protocol), with routing capability 1987 - NSFnet (TCP/IP based, connecting university supercomputers, evolved into Inernet today) 1990 - Commercial links to Internet, and popularization of WWW

18. Major Tasks of Bioinformatics 1. Establish data base 2. Search/retrieve bioinformations 3. Analysis of bioinformations

19. From independent works to unified actions 1. Database 2. Data Retrieval 3. Data Analysis

20. Major Disciplines Algorithm, Graphics, Signal Processing, Statistics, Simulation, Computer Architecture, Database Management, Artificial Intelligence… Biochemistry, Molecular Biology, Genomics, Proteomics, Physical Chemistry, Structural Biology/Physics

21. Applications Database Construct, Database Query, Genome Mapping and Comparison, Gene Identification and Annotation Sequence Alignment, Molecular Evolution Structure Alignment and Comparison, Structure Prediction, Structure-Based Drug Design, Molecular Modeling and Simulation

22. Gene Annotation Gene Annotation 定序 DNA Sequencing 組合 Assemble DNA Sequence 確認基因 Gene Identification 功能註解 Gene Annotation 資料庫 GenBank 使用分析 Retrieval and Analysis

23. NCBI (National Center for Biotechnology Information) Established (1988) by US Congress 1. System for storing and analyzing 2. Advancing methods for data retrieval and analysis 3. Facilitation of the use

24. NCBI NCBI 1. Database : GenBank 2. Database Retrieval Entrez, PubMed, Locus Link, Taxonomy Browser 3. Data Analysis BLAST, Electronic PCR, ORF Finder, UniGene, dbSNP, Human Genome Sequencing, Human MapViewer, Intrer Genomes, Cancer Chromosome Aberration Project (CCAP), Gene Expression Omnibus (GEO), Online Online Mendelian Inheritance in Man (OMIM), The Molecular Modeling DataBase (MMDB), and the Conserved Domain Database (CDD).

25. GenBank Created (1982) by NIGMS/NIH Los Alamos National Lab - annotates & organizes IntelliGenetics (1987-) NCBI (1988-)

26. NCBI

27. Human Genome, Alzheimer disease

28. Human Genome Map, Presenilin 2 ( Alzheimer disease 4)

29. NCBI - ORF Finder, M. hyopneumoniae PTSI

30. NCBI – ORF Finder, PTSI

31. NCBI – BLAST, PTSI

32. NCBI – Structure, MMDB, PTSI

33. NCBI – Cn3D, PTSI structure

34. ExPASy

35. ExPASy - 2 ExPASy - 2 o structure prediction, GOR IV, PTSI

36. ExPASy – 2 ExPASy – 2 o structure prediction, GOR IV, PTSI

37. ExPASy – Topology prediction, SOSUI

40. PDB

41. PDB

42. Web Resources Organization : NCBI/NIH, EBI/EMBL, SIB Database : GenBank, ExPASy, PDB Societies/Agencies : WHO, ASM Universities : NIH, CDC, Pasteur, 國衛院, 高 速電腦中心, 清華, 陽明 Firms : Celera, Human Genome Sciences

43. Conclusion Tremendous information on the web Promote biological sciences Solving problems and creating new hints/problems Use the information and generate new information