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

Data sets

Data sets used in examples and notes are posted for your convenience. The use of these data sets is for educational purposes only. The data sets were originally obtained from Essential Medical Statistics, 2nd edition.

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