WPI Worcester Polytechnic Institute

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BCB4003/503 CS4803/583 Biological and Biomedical Database Mining
Schedule of Classes - A term / Fall 2013

PROF. CAROLINA RUIZ 

WARNING: Changes to this schedule may be made during the course of the semester. 
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WEEK DATE DUE TOPIC
1 Aug. 30   Introduction to data and text mining in bioinformatics
Biological and biomedical data and text sources, ontologies
2 Sept. 3 - 6 PbmSet1 Data preprocessing, feature selection
Visualization
Clustering
Hirarchical clustering, phylogenetic trees

Problem set discussion
3 Sept. 10 - 13 PbmSet2 Bayesian models
Expectation Maximization (EM)
Gibbs sampling

Problem set discussion
4 Sept. 17 - 20 PbmSet3 Markov chains
Hidden Markov Models (HMMs)

Problem set discussion
5 Sept. 24 - 27   Kernel methods: Support Vector Machines (SVMs)
Sequence mining
6 Oct. 1 - 4 PbmSet4 Statistical Natural Language Processing
Preprocessing for text mining
Principal Components Analysis (PCA)

Problem set discussion
7 Oct. 8 - 11 PbmSet5 Text clustering
Text classification
Pattern discovery from text
Ontologies
Integrating data and text for mining

Problem set discussion
8 Oct. 15 PbmSet6 EXAM
9 - 15 Oct. 28 - Dec. 20 Final Project Advanced graduate topics and readings