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IGP 304: Statistics for Biomedical Research (Spring 2007)
Instructors:Chun Li, Ph.D. (chun.li@vanderbilt.edu; 515D Light Hall; 322-2884)
Leena Choi, Ph.D. (leena.choi@vanderbilt.edu; D-2213 MCN; 343-3497)
Lectures: MWF 2:00-2:55 pm (206 PRB)
Office hours: MWF after class
Syllabus
Textbook and reading materials
- [EMS] Essential Medical Statistics, 2nd edition. We will cover most chapters, with additional materials from other sources. (amazon.com link, also check the book store on the third floor of Light Hall)
- [SN] Statistics Notes. Fifty-two valuable short articles on misuses and correct uses of statistics in medical research.
- [LHSP] Little Handbook of Statistical Practice
- [SP] Statistical Problems to Document and to Avoid. A collection of misuses of statistics.
- Glossary of Statistical Terms
Software
- Intercooled Stata 9: official site and UCLA Stata support site (Buy it here. Stata is also available at the College of Arts & Science Microcomputer Labs.)
- R 2.4: official site and R Clinic
- Chun's Stata notes, Need-to-know commands, and R notes
- Leena's Stata notes for classes and R notes for classes
Stata Labs
Students' datasets
Homework and exams
- Homework 1 (due on Monday, January 29), 1.4.11.Sepsis.dta
- Homework 2 (due on Monday, February 12) 10.7.ERpolymorphism.dta 2.12.Poison.dta
- Homework 3 (due on Monday, February 23)
- Homework 4 (due on Wednesday, April 4) (data esophageal.csv) Keys
- Homework 5 (due on Wednesday, April 18) Keys
- Final Exam Keys
Chun's experimental course blog
Lectures
| Date | To read/do before class | Topics | |
|---|---|---|---|
| 1 | 01/10 (W) | Get the textbook and software | Course description; software demonstration |
| 2 | 01/12 (F) | EMS 1-2; LHSP Is statistics hard?; SN 15 Presentation of numerical data | Data import and entry; data types; spreadsheets from hell and heaven; diagnostic quiz |
| 3 | 01/15 (M) | Stata lab; EMS 3; The scandal of poor medical research and correspondence 1, correspondence 2 | Descriptive/exploratory analysis; graphing using STATA |
| 4 | 01/17 (W) | Stata lab; EMS 3-4 | Descriptive/exploratory analysis |
| 5 | 01/19 (F) | Stata lab; EMS 4-5; SN 51 Standard deviations and standard errors; SN 10 The normal distribution | Means, standard deviations and standard errors |
| 6 | 01/22 (M) | Stata lab; EMS 5 | Normal distribution |
| 7 | 01/24 (W) | Stata lab; EMS 6 | Confidence interval for a mean |
| 8 | 01/26 (F) | Stata lab; EMS 7 | Comparison of two means |
| 9 | 01/29 (M) | Stata lab; EMS 8; SN 13 Absence of evidence is not evidence of absence | HW1 due ; P -values and confidence intervals; discuss the assigned reading materials |
| 10 | 01/31 (W) | Summary of stata commands | Stata commands and HW1 review |
| 11 | 02/02 (F) | EMS 9 | Analysis of variance |
| 12 | 02/05 (M) | Stata lab; EMS 10 | Linear regression and correlation |
| 13 | 02/07 (W) | Stata lab; EMS 10-11 in 419BCD Light Hall | Multiple regression |
| 14 | 02/09 (F) | Stata lab; EMS 11 | Multiple regression |
| 15 | 02/12 (M) | Stata lab; EMS 12 | HW2 due ; Goodness of fit and regression diagnostics |
| 16 | 02/14 (W) | Stata lab; EMS 13; SN 18 Transformations, means and confidence intervals | Transformations |
| 17 | 02/16 (F) | EMS 14-15 | Probability, risks and odds; proportions and the binomial distribution |
| 18 | 02/19 (M) | EMS 15-16 | Binomial distribution; Comparing two proportions |
| 19 | 02/21 (W) | EMS 16 | Comparing two proportions |
| 20 | 02/23 (F) | EMS 16-17 | Comparing two proportions; Chi-squared tests |
| 21 | 02/26 (M) | EMS 17 | HW3 due ; Chi-squared tests |
| 22 | 02/28 (W) | Review Lecture | Review |
| 03/02 (F) | Midterm exam | ||
| 03/03-03/11 | Spring break | ||
| 23 | 03/12 (M) | Guest lecture by Dr. Rafe Donahue | |
| 24 | 03/14 (W) | Guest lecture by Dr. David Airey (materials here) | |
| 25 | 03/16 (F) | EMS 18 | |
| 26 | 03/19 (M) | EMS 19 | |
| 27 | 03/21 (W) | EMS 19-20 | |
| 28 | 03/23 (F) | EMS 20 | |
| 29 | 03/26 (M) | EMS 21 | |
| 30 | 03/28 (W) | EMS 21 | |
| 31 | 03/30 (F) | ||
| 32 | 04/02 (M) | EMS 22 | |
| 33 | 04/04 (W) | EMS 23 | HW4 due |
| 34 | 04/06 (F) | EMS 26 | |
| 35 | 04/09 (M) | EMS 26 | |
| 36 | 04/11 (W) | EMS 27 | |
| 37 | 04/13 (F) | EMS 30 | non-parametrics |
| 38 | 04/16 (M) | EMS 36 | ROC |
| 39 | 04/18 (W) | EMS 35 | HW5 due |
| 40 | 04/20 (F) | reviews | |
| 41 | 04/23 (M) | reviews | |
| 04/25 | Final exam 2-4 pm | ||
Topic revision: r54 - 27 Jun 2007, LeenaChoi
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