Statistical Analysis I - Penn State...
Transcript of Statistical Analysis I - Penn State...
Statistical Analysis I
Lan Kong, PhD Associate Professor
Department of Public Health Sciences
December 22, 2014
CTSI BERD Research Methods Seminar Series
Biostatistics, Epidemiology, Research Design(BERD)
BERD Goals: Match the needs of investigators to the
appropriate biostatisticians/epidemiologists/methodologists
Provide BERD support to investigators Offer BERD education to students and
investigators via in-person, videoconferenced, and on-line classes
http://ctsi.psu.edu/ctsi-programs/biostatisticsepidemiologyresearch-design/
BERD Seminar Series Date Title Presenter
Sept. 8 Intro to Clinical Research Designs & Cross-sectional Study
Duanping Liao
Sept. 22 Cohort Study Duanping Liao
Oct. 6 Case Control Study Duanping Liao
Oct. 20 Matched Case Control Study Duanping Liao
Nov. 3 Clinical Trials Vern Chinchilli
Nov. 17 Power and Sample Size Allen Kunselman
Dec. 8 Data Management Rosanne Pogash
Dec. 22 Statistical Analysis 1 (HY only) Lan Kong
Jan. 5 Statistical Analysis 2 (HY only) Mosuk Chow
Jan. 19 Putting it all together in a research proposal/protocol
Duanping Liao
Feb. 2 Meta-Analysis Vern Chinchilli
Statistics Encompasses Study design Selection of efficient design (cohort study/case-control
study) Sample size Randomization
Data collection Summarizing data
Important first step in understanding the data collected Analyzing data to draw conclusions Communicating the results of analyses
Keys to Successful Collaboration Between Statistician and Investigator: A Two-Way Street
Involve statistician at beginning of project (planning/design phase)
Specific objectives
Communication
avoid jargon
willingness to explain details
Keys to Successful Collaboration: A Two-Way Street
Respect Knowledge Skills Experience Time
Embrace statistician as a member of the research team
Fund statistician on grant application for best collaboration Most statisticians are supported by grants, not by
Institutional funds
Statistical Analysis
Describing data Numeric or graphic
Statistical Inference Estimation of parameters of interest Hypothesis testing Regression modeling
Interpretation and presentation of the results
Describing data: Basic Terms
Measurement – assignment of a number to something
Data – collection of measurements Sample – collected data Population – all possible data Variable – a property or characteristic of the
population/sample – e.g., gender, weight, blood pressure.
Example of data set/sample
Data on albumin and bilirubin levels before and after treatment with a study drug
ID DRUG BILI ALBUMIN BASE_BIL BASE_ALB 6 0 0.7 4.2 0.8 3.98 7 0 1.2 3.59 1 4.09 8 0 1.3 3.08 0.3 4
11 0 2.1 3.58 1.4 4.16 13 0 1.1 3.39 0.7 3.85 16 0 0.6 3.8 0.7 3.66 21 0 1.7 3.22 0.6 3.83 2 1 3.6 2.92 1.1 4.14
15 1 1.2 3.72 0.8 3.87 19 1 0.4 3.92 0.7 3.56 24 1 3.6 3.66 2.1 4 34 1 0.8 3.85 0.8 3.7 43 1 0.7 3.78 1.1 3.64
Describing Data
Types of data Summary measures (numeric) Visually describing data (graphical)
Types of Variables Qualitative or Categorical
Binary (or dichotomous) True/False, Yes/No Nominal – no natural ordering Ethnicity Ordinal – Categories have natural ranks
Degree of agreement (strong, modest, weak) Size of tumor (small, medium, large)
Quantitative Ratio - Ordered, constant scale, natural zero (age, weight)
Interval-Ordered, constant scale, no natural zero
Differences make sense, but ratios do not Temperature in Celsius (30°-20°=20°-10°, but 20°/10°
is not twice as hot)
Types of Measurements for Quantitative Variables Continuous: Weight, Height, Age Discrete: a countable number of values
The number of births, Age in years Likert scale: “agree”, “strongly agree”, etc.
Somewhere between ordinal and discrete Scales with <= 4 possibilities are usually
considered to be ordinal. Scales with >=7 possibilities are usually considered
to be discrete.
Descriptive Statistics
Quantitative variable Measure(s) of central location/tendency
Mean Median Mode
Measure(s) of variability (dispersion) describe the spread of the distribution
Summary Measures of dispersion/variation Minimum and Maximum Range = Maximum – Minimum Sample variances (abbreviated s2) and
standard deviation (s or SD) with denominator=n-1
Descriptive Statistics (cont.)
Other Measures of Variation Interquartile range (IQR): 75th percentile – 25th percentile MAD: median absolute deviation CV: Coefficient of variation
Ratio of SD over sample mean Measure relative variability Independent of measurement units Useful for comparing two or more sets of data
Tell whole story of data, detect outliers Histogram Stem and Leaf Plot Box Plot
Describing data graphically
Histogram
Divide range of data into intervals (bins) of equal width. Count the number of observations in each class.
05
1015
20N
umbe
r of M
en
80 100 120 140 160Systolic BP (mmHg)
• 113 men
• Each bar spans a width of 5 mmHg.
• The height represents the number of individuals in that range of SBP.
Histogram of SBP
020
4060
Num
ber
of M
en
80 100 120 140 160Systolic BP (mmHg)
Bin Width = 20 mmHg 0
24
6N
um
be
r o
f M
en
80 100 120 140 160Systolic BP (mmHg)
Bin Width = 1 mmHg
Stem and Leaf Plot
Provides a good summary of data structure Easy to construct and much less prone to error
than the tally method of finding a histogram 2 8 8 9
3 0 1 1 1 2 3 3 4 4 5 5 5 5 6 6 6 7 7 7 7 8 9 9 4 0 0 1 1 1 1 1 2 2 3 3 3 4 4 4 4 5 5 5 6 7 7 8 9 5 0 1 1 2 3 4
“stem”: the first digit or digits of the number. “leaf” : the trailing digit.
Box Plot: SBP for 113 Males
8010
012
014
016
0Sample of 113 Men
Boxplot of Systolic Blood Pressures
Sample Median Blood Pressure
75th Percentile
25th Percentile
Largest Observation
Smallest Observation
Descriptive Statistics (cont.)
Categorical variable Frequency (counts) distribution Relative frequency (percentages) Pie chart Bar graph
Describe relationship between two variables
One quantitative and one categorical Descriptive statistics within each category Side by side boxplots/histograms Both quantitative Scatter plot Both categorical Contingency table
A process of making inference (an estimate, prediction, or decision) about a population (parameters) based on a sample (statistics) drawn from that population.
Statistical Inference 0
.1.2
.3.4
Perc
enta
ge
80 100 120 140 160 180Systolic BP (mmHg)
05
1015
20N
umbe
r of M
en
80 100 120 140 160Systolic BP (mmHg)
Statistics (Vary from sample to sample) Parameters (Fixed, unknown)
Population
Sample
Inference
Statistical Inference
Questions to ask in selecting appropriate methods Are observation units independent? How many variables are of interest? Type and distribution of variable(s)? One-sample or two-sample problem? Are samples independent? Parameters of interest (mean, variance, proportion)? Sample size sufficient for the chosen method? (see decision making flow chart in the handout)
Estimation of population mean
We don’t know the population mean μ but would like to know it.
We draw a sample from the population. We calculate the sample mean X. How close is X to μ? Statistical theory will tell us how close X is to μ. Statistical inference is the process of trying to
draw conclusions about the population from the sample.
Key Statistical Concept Question: How close is the sample
mean to the population mean? Statistical Inference for sample mean
Sample mean will change from sample to sample
We need a statistical model to quantify the distribution of sample means (Sampling distribution)
Assume “normal distribution” for the population data
Normal Distribution Normal distribution, denoted by N(µ, σ2), is characterized by
two parameters µ: The mean is the center. σ: The standard deviation measures the spread
(variability).
Mean
Standard Deviation
Standard Deviation
Mean
Probability density function
Distribution of Blood Pressure in Men (population)
Y: Blood pressure Y~ N(µ, σ2)
Parameters: Mean, µ= 125 mmHg
SD, σ = 14 mmHg
83 97 111 125 139 153 1670
.1
.2
.3
.4
99.7%
95%
68%
The 68-95-99.7 rule for normal distribution applied to the distribution of systolic blood pressure in men.
Sampling Distribution
The sampling distribution refers to the distribution of the sample statistics (e.g. sample means) over all possible samples of size n that could have been selected from the study population.
If the population data follow normal distribution N(µ, σ2), then the sample means follow normal distribution N(µ, σ2/n).
What if the population data do not come from normal distribution?
Central Limit Theorem (CLT)
If the sample size is large, the distribution of sample means approximates a normal distribution.
~ N(µ, σ2/n) The Central Limit Theorem works even when the
population is not normally distributed (or even not continuous).http://onlinestatbook.com/stat_sim/sampling_dist/index.html
For sample means, the standard rule is n > 60 for the Central Limit Theorem to kick in, depending on how “abnormal” the population distribution is. 60 is a worst-case scenario.
X
Sampling Distribution
By CLT, about 95% of the time, the sample mean will be within two standard errors of the population mean. This tells us how “close” the sample statistic
should be to the population parameter. Standard errors (SE) measure the precision of
your sample statistic. A small SE means it is more precise. The SE is the standard deviation of the sampling
distribution of the statistic.
Standard Error of Sample Mean
The standard error of sample mean (SEM) is a measure of the precision of the sample mean. σ: standard deviation (SD) of population
distribution.
SEM = nσ
The standard deviation is not the standard error of a statistic!
Example
Measure systolic blood pressure on random sample of 100 students Sample size n = 100 Sample mean = 125 mm Hg Sample SD s = 14.0 mm Hg
Population SD (σ) can be replaced by sample SD for large sample
SEM = mmHg 1.410014
=
x
Confidence Interval for population mean An approximate 95% confidence interval for population mean
µ is: ± 2×SEM or precisely is a random variable (vary from sample to sample), so
confidence interval is random and it has 95% chance of covering µ before a sample is selected.
Once a sample is taken, we observe , then either µ is within the calculated interval or it is not.
The confidence interval gives the range of plausible values for µ.
X
x=X
X