1. Conceptual data modeling for bioinformatics. Erich Bornberg-Bauer and Norman W. Paton. (2002). Briefings in Bioinoformatics. Vol. 3. No. 2. 166-180. Mai Nguyen BUS 550, Spring 2013 Dr. Minder Chen

2. Bioinformatics …the field of science in which biology, computer science, and information technology merge to form a single discipline. Biology (Source) Data Information Processing and System

3. Human Genome Project identify all the approximately 20,000- 25,000 genes in human DNA, determine the sequences of the 3 billion chemical base pairs that make up human DNA store this information in databases, improve tools for data analysis, transfer related technologies to the private sector, and address the ethical, legal, and social issues (ELSI) that may arise from the project.

4. Data Data Data Data,…..

5. Databases http://www.taverna.org.uk/introduction/taverna-in-use/bioinformatics/

6. Conceptual Data Modeling (CDM) Make explicit the structural properties of data, and as such are useful for capturing, refining, and communicating details about the data in a laboratory or database. Entity 1 *A type of notation that describes entity types and relationships. Entity 2 Attributes/ properties

7. The design process Requirements Analysis Conceptual Design Logical Design Database Requirements Conceptual Model Implementation Model * There is no universally accepted standard for either the design process or notation.

8. 1. Entity-Relationship Modeling is a type of CDM Entity Types An entity type provides a description of the properties of entities in a domain An entity type provides a description of the properties of entities in a domain Relationships Represents an association between two or more entity types. Represents an association between two or more entity types. Hemoglobin Myoglobin

9. ER modeling for HIV

10. ER models and fingerprints ER models can be mapped onto relational tables. String of attributes/properties that define and identify the relationship and are unique to the entity.

11. 2. Unified Modeling Language (UML); another CDM The standard object modeling language. Notation is the class diagram which describes the attributes, operations, and relationships of a set of objects.

12. Class Diagram

13. UML versus ER ER ER was developed earlier for relational databases ER uses keys: when one or more attributes of an entity are used to uniquely identify it Uses relational tables Not truly platform independent UML UML is object-oriented Do not support keys Not all relationships are given names or roles Independent of platform

14. Building Useful Networks

15. Applications

16. Personalized Medicine?

17. Question 1. True/False: Conceptual Data Models (CDMs) are only applicable to bioinformatics research. Correct Answer: FALSE

18. Question 2. Which of the following is not an activity in the design process for conceptual modeling? a.Requirements Analysis b.Conceptual Design c.Conceptual Model d.A. B. and C. are all examples of the design process. e.All of the above and activities can vary as there is no universally accepted process or design.

19. Question 3. Which of the following is FALSE in regards to Conceptual Data Models (CDMs)? a.CDMs allow precise statements to made about the data. b.CDMs are easier to read than to construct. c.CDMs easily describe all data without including invalid data. d.Entity Relationship and Unified Modeling Languages are types of CDMs

20. Thank you for your attention!

21. References and Images (In order of appearance) -http://campus.murraystate.edu/academic/faculty/eweber/bio101/images/cell_to_dna_sm.jpg -http://bioinfo.imdik.pan.pl/mediawiki/images/e/e1/Sek3.jpg -http://asgpb.mhpcc.hawaii.edu/sequence/454sequencer.jpg http://asgpb.mhpcc.hawaii.edu/sequence/454sequencer.jpg http://blog.chron.com/bakerblog/files/legacy/dna.jpghttp://www.nature.com/nature/journal/v464/n7289/images/464680a-i1.0.jpg http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml http://25.media.tumblr.com/tumblr_loa5m3vYuO1qbh26io1_1280.jpghttp://www.sanger.ac.uk/about/history/hgp/http://en.wikipedia.org/wiki/File:Myoglobin.pnghttp://en.wikipedia.org/wiki/File:1GZX_Haemoglobin.png http://www.databaseanswers.org/data_models/hotels/index.htm http://www.schillerlab.net/guides/hiv/image009.png http://www.nature.com/scitable/content/6437/10[1].1073_pnas0701361104-fig2b_mid_1.jpg