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Syllabus

Biostatistical Methods for Clinical Research III BIOSTAT209

Date/Time Activity Topic/Content Faculty Locations
Tues 3/31/2009
10:30 AM-12:00 PM		Lecture

Survival Data

Survival data, hazards functions, hazard ratios, basics of the Cox model

Prospectus Files: biostat 209_duedates-09.pdf (27 KB) Biostat 209_overview-09.pdf (117 KB) project guidelines 2009.pdf (55 KB) Using_the_Stata_Server.doc (225 KB)

Required Reading:

  1. Chapters 7.1-7.2.3, VGSM

Note/Slide Files: lecture_S1 p6.pdf (344 KB) lecture_S1.pdf (363 KB)

Assignment:
Homework #1, due 4/14/09

Assignment Files: survhw1.pdf (35 KB)

STATA Files: actg019.dta (18 KB) pbc.dta (34 KB)

S ChengCB 6702
Thurs 4/2/2009
10:30 AM-12:30 PM		Lab

Survival Data

Survival Data Lab #1

Assignment Files: lab_S1.pdf (156 KB)

Dataset Files: larynx.dta (2 KB)

S ChengCB 6704
Tues 4/7/2009
10:30 AM-12:00 PM		Lecture

The Cox Model

Cox model with binary, categorical and continuous predictors; confounding, mediation and interaction; adjusted survival curves

Required Reading:

  1. Chapters 7.2.4-7.2.10, VGSM

Note/Slide Files: Lecture_S2.p6.pdf (349 KB) Lecture_S2.pdf (377 KB)

Assignment:
Homework #2, due 4/21/09

Assignment Files: survhw2.pdf (71 KB)

STATA Files: pbc.dta (34 KB)

S ChengCB 6702
Thurs 4/9/2009
10:30 AM-12:30 PM		Lab

The Cox Model

Survival Data Lab #2

Assignment Files: lab_S2.pdf (149 KB)

STATA Files: lab2-pbc.dta (38 KB)

S ChengCB 6704
Tues 4/14/2009
10:30 AM-12:00 PM		Lecture

Extensions and Diagnostic for the Cox Model

Time dependent covariates; stratified Cox model; model check for the Cox model

Required Reading:

  1. Chapters 7.3-7.5, VGSM

Note/Slide Files: Lecture_S3.pdf (1403 KB) Lecture_S3p6.pdf (1383 KB)

S ChengCB 6702
Tues 4/14/2009
12:00 PM-1:00 PM		Other

Homework Session

S ChengCB 6702
Thurs 4/16/2009
10:30 AM-12:30 PM		Lab

Extensions and Diagnostic for the Cox Model

Survival Data Lab #3

Assignment Files: lab_S3.pdf (140 KB)

STATA Files: lab3-actg019_a.dta (18 KB) lab3-pbc_a.dta (6 KB)

S ChengCB 6704
Tues 4/21/2009
10:30 AM-12:00 PM		Lecture

Issues in Data Analysis

Misinterpretation of p-values; estimates and confidence intervals; accuracy versus conservatism

Note/Slide Files: Biostat problems lecture 09.pdf (257 KB) Lecture notes.pdf (305 KB)

Assignment:
Identify problems and good practices in two articles:

Assignment Files: HbA1c disparities.pdf (128 KB) Uganda ART pregnancy.pdf (296 KB)

P BacchettiCB 6702
Tues 4/21/2009
12:00 PM-1:00 PM		Other

Homework Session

Required Reading:

  1. Your project adviser list
S ChengCB 6702
Thurs 4/23/2009
10:30 AM-12:00 PM		Lecture

Issues in Data Analysis

Discussion of readings 		P BacchettiCB 6702
Tues 4/28/2009
10:30 AM-12:00 PM		Lecture

Repeated Measures, Part 1

Introduction to repeated measures data; correlation structures.

Required Reading:

  1. Chapter 8, VGSM

Note/Slide Files: Repeated measures lecture 1 handouts.pdf (1288 KB) Repeated measures lecture 1.ppt (739 KB)

Assignment:
Homework #3, due 5/12/09

Assignment Files: hers_subset_nodm.dta (431 KB) Repeated measures hwk.doc (28 KB) Repeated measures hwk.pdf (6 KB)

STATA Files: hers_subset_nodm9.dta (431 KB)

C McCullochCB 6702
Thurs 4/30/2009
10:30 AM-12:30 PM		Lab

Repeated Measures, Part 1

Assignment Files: GAbabies.dta (15 KB) lab 1 repeated measures.doc (203 KB) lab 1 repeated measures.pdf (226 KB) oai.dta (44 KB)

STATA Files: GAbabies9.dta (15 KB) oai9.dta (44 KB)

C McCullochCB 6704
Tues 5/5/2009
10:30 AM-12:00 PM		Lecture

Repeated Measures, Part 2

Fixed and random factors, Stata's XTMIXED and XTGEE.

Required Reading:

  1. Chapter 8, VGSM

Note/Slide Files: Repeated measures lecture 2 handouts.pdf (122 KB) Repeated measures lecture 2.ppt (200 KB)

Assignment:
Homework #4, due 5/19/09

Assignment Files: hers_subset_nodm.dta (431 KB) mousewght.dta (12 KB) Repeated measures hwk.doc (28 KB) Repeated measures hwk.pdf (6 KB) selby et al var in angio in Kaiser.pdf (109 KB)

STATA Files: hers_subset_nodm9.dta (431 KB) mousewght9.dta (12 KB)

C McCullochCB 6702
Thurs 5/7/2009
10:30 AM-12:30 PM		Lab

Repeated Measures, Part 2

Assignment Files: fecfat.dta (1 KB) lab 2 repeated measures.doc (110 KB) lab 2 repeated measures.pdf (113 KB) mousewght.dta (12 KB) oai thru 18 months.dta (68 KB)

STATA Files: fecfat9.dta (1 KB) mousewght9.dta (12 KB) oai thru 18 months9.dta (68 KB)

C McCullochCB 6704
Tues 5/12/2009
10:30 AM-12:00 PM		Lecture

Repeated Measures, Part 3

Generalized linear models; non-normal outcomes; robust standard errors; use of nonlinear link functions.

Required Reading:

  1. Chapter 9, VGSM

Note/Slide Files: Repeated measures lecture 3 handouts.pdf (188 KB) Repeated measures lecture 3.ppt (198 KB)

C McCullochCB 6702
Thurs 5/14/2009
10:30 AM-12:30 PM		Lab

Repeated Measures, Part 3

Assignment Files: backpain.dta (34 KB) GAbabies.dta (15 KB) lab 3 repeated measures.doc (224 KB) lab 3 repeated measures.pdf (244 KB)

STATA Files: backpain9.dta (34 KB) GAbabies9.dta (15 KB)

C McCullochCB 6704
Tues 5/19/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 1: Mentored individual work finishing written data analysis projects

S ChengCB 6702
Thurs 5/21/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 2: Mentored individual work finishing written data analysis projects

S ChengCB 6702
Tues 5/26/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 3: Oral presentation of projects

S ChengCB 6702
Thurs 5/28/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 4: Oral presentation of projects

S ChengCB 6702
Tues 6/2/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 5: Oral presentation of projects

S ChengCB 6702
Thurs 6/4/2009
10:30 AM-12:00 PM		Lecture

Projects, Session 6: Oral presentation of projects

S ChengCB 6702