Biostatistics 2016

—-> Syllabus <—-

Recommend Text Books:

Measurements and their Uncertainties
Hughs and Hase, Oxford, 2010

OpenIntro Statistics 3rd Edition, Deiz et al

openintro-232x300

https://www.openintro.org/stat/textbook.php

Tables

z-table (Standard Normal Cumulative Probability Table DOWNLOAD

Week 2:

Lecture Material

Introduction to Probablity
Permutations and Combinations
Introduction to Discrete Distributions

Assignment

  1. Reading Assignment (OpenIntro Satistics)
    pages 104 to 107
    page 141 to 148

Place particular attention on going over the Guided Practice Exercises

2. Programming Exercises
Draw the following Binomial distributions:

n = 5, and p = 0.1, 0.2, 0.45, 0.8, and 0.9

n = 50, and p = 0.1, 0.2, 0.45, 0.8 and 0.9

This means there will be 10 graphs in all. Plot the graphs in a 2 by 5 grid so that they can be easily compared. Use lines that extend from the x axis to the probability value. For example:

linesplot

Week 3:

Quiz 3: Problems from the readings in Week 2.

Lecture Notes: Introduction to Continuous Distributions

Reading Material Assignment:

OpenIntro Stats book: Chapter 3: Pages 127 to 136; 156 to 157

Assignment Exercises: 3.2, 3.4, 3.10, 3.12 and the following:

The healthy range of boron concentrations in most plant leaves ranges from 25 to 200 ppm. Beyond this range, most plants become stunted or sick. A random sample of 100 plants yields a symmetric distribution of readings, centered at 40 ppm with a standard deviation of 10 ppm. From this sample, what percentage of plants likely suffers from a boron deficiency?

Error bars in experimental biology

Assignment for 1 November:

Write one page each (write 1/2 to 3/4 page for the bernoulli distribution) on the four discrete distributions we covered in the last three weeks. On the page write about the distribution’s properies and applications, give at least one example showing how the distribution can be used. DO NOT USE AN EXAMPLE THAT WAS GIVEN IN CLASS!

Week 4:

No class on Tuesday 25th Oct !

Thursday: Continutation of Week 3 on Continuous Distributions. Sampling and Standard Errors

Read the following pages in the OpenIntro Stats Book:
Pages 168 (Chapter 4) to page 180 section 4.2.5
The quiz will be on material related to
1) The normal distrubution
2) Standard errors
3) Confidence intervals
Lecture Notes: Confidence Limits
Lecture Notes: Sampling

Week 5:

Quiz on reading assignment in Week 4.

Lecture Notes: Hypothesis Testing

Week 6:

MidTerm 8 November!

Pages from OpenIntro Stat Required for Midterm:

Pages

15-17 (Populations and Samples)
32-34 (Variance and sd)
76-87 (Probability)
105-107 (Expectation)
127-136 (Distribution of random variables)
141-151 (Geometric distribution)
156-157 (Poisson distribution)
168-201 (Confidence intervals, Hypthesis testing)
219-227 (t-distribution)

Thursday Class:

Difference of two means
Intoduction to one-way ANOVA (comparing many means)

Assignment:

Reading assignment 228-251 (Not including: 5.4 special topic 239-245)

Q1 Two groups of lung cancer patients are treated. One gruop is given no treatment, the second group is given a new antibody mix. The following data were collected after 4 months of treatment, the numbers indicate the relative volume of the cancer. (#224)

Group 1: (No treatment): 91.5, 94.18, 92.18, 95.39, 91.79, 89.07, 94.72, 89.21
Group 2: (With treatment): 89.19, 90.95, 90.46, 93.21, 97.19, 97.04, 91.07, 92.75

Assume the populaton variances are equal. Is there any difference in the mean outcomes? Use alpha = 0.05

Q2: Students are given different drug treatments before preparing for an exam. Three groups were investigated. One group was given a memoty drug, another group a placebo and a third group no treatment at all. The exam scores in % are given below:

Group 1 (Memory Drug): 70, 77, 83, 90, 97
Group 2 (Placebo): 37, 43, 50, 57, 63
Group 3 (No treatment): 3, 10, 17, 23, 30

Carry out a one-way ANOVA yo test the hypothesis that the treatments will have different effects. SHOW YOUR WORKINGS

Q3: Bunnys from four different forests were captured and the diameter of their fluffy tails measured in cm. The following data was recorded:

Forest 1: 2.17, 1.85, 2.83, 1.69, 3.33
Forest 2: 2.63, 1.77, 3.25, 1.86, 2.21
Forest 3: 3.63, 3.78, 4.0, 3.55, 2.95
Forest 4: 3.79, 3.45, 3.08, 2.26, 3.18

Using a signifcant level of 1%, is there a difference in fluffy tail averages among the different forests dwellers?

Week 7:

No Quiz

Tuesday: Chi-Square and Goodness-of-Fit

Thursday: Introduction to Linear Regression

Week 8:

Quiz Tuesday 22nd November

Chi-square goodness of fit
Reading material for quiz:

page 285 Section 6.3 and 6.4 to page  302 (Not section 6.5)

Does not include ANOVA or linear regression.

Notes on Error Propagation and Linear Regression (updated Wed 30th Nov, 3.36pm)

Excel Spreadsheet Containing Examples

Week 9:

Nonlinear fitting

Final Assignment (Due 8th of December)

Week 10:

End of term exam: Thursday 8th, at 9.30.

Topics for final exam