PubH 7445 Statistics for Human Genetics and Molecular Biology - Fall 2019 |
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Syllabus and Course Information
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Click on address to send email |
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Instructor: |
Dr. Cavan Reilly |
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Teaching Assistant: |
Souvik Seal |
Office hours for Cavan: Mon. and Wed. 2:30-3:30 in the Coordinating Centers for Biometric Research (2221 University Ave, Floor 2) (612.624.9644)
Office hours for the Souvik: Tue. 1-2 in Mayo A446
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Week |
Topics |
Lecture Notes |
R Code |
Homework |
Reading |
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1 |
Review of Molecular Biology |
SimpleR section 1-3 (Introduction, Data, Univariate Data), Foulkes Chapter 1, SimpleR section 6 (Random Data), Appendix on t-tests (page 97-99)) |
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2 |
Review of Statistics and introduction to R |
SimpleR Section 4, 5, 7, 8, 10, 11, 12, 13, 15, Foulkes Chapter 2 |
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3 |
Linkage disequilibrium, Hardy Weinberg equilibrium |
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Foulkes Chapter 3 |
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4 |
Multiple comparisons for GWAS |
Foulkes Chapter 4 |
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5 |
Testing associations between phenotypes and haplotypes |
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Foulkes Chapter 5 |
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6 |
Supervised learning with high dimensional data and categorical predictors |
Foulkes Chapters 6 and 7 |
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7 |
More on supervised learning |
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Foulkes Chapter 7 |
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8 |
Introduction to microarray analysis |
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Bioconductor Case Studies Chapters 1-4 |
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9 |
Differential expression |
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Bioconductor Case Studies Chapters 6-7 |
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10 |
Interpretation of differentially expressed genes |
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Bioconductor Case Studies Chapter 8 |
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11 |
Next generation sequencing: bioinformatics |
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12 |
Next generation sequencing: biostatistics |
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13 |
Machine learning approaches to gene expression data |
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14 |
R tools for pathway analysis using RNA-Seq data |
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15 |
Proteomics and metabolomics |
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