term 4, 2006bio656--multilevel models1 140.656 multi-level statistical models if you did not receive...
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Term 4, 2006 BIO656--Multilevel Models 1
140.656 140.656 Multi-Level Statistical ModelsMulti-Level Statistical Models
If you did not receive the welcome email from me, email me at: ([email protected])
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Term 4, 2006 BIO656--Multilevel Models 2
ROOM CHANGE, AGAIN!ROOM CHANGE, AGAIN!
• Starting Thursday, March 30th and henceforth, lectures will be in W2030
• Labs will still be in W2009
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Term 4, 2006 BIO656--Multilevel Models 3
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Term 4, 2006 BIO656--Multilevel Models 4
Prerequisites, resources and GradingPrerequisites, resources and Grading
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Term 4, 2006 BIO656--Multilevel Models 5
Learning ObjectivesLearning Objectives
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Content & ApproachContent & Approach
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Approach Approach
• Lectures include basic illustrations and case studies, structuring an approach and interpreting results– Labs address computing and amplify on the
foregoing
• My approach is formal, but not “mathematical”
• To understand MLMs, you need a very good understanding on single-level models– If you understand these, you are ready to
multi-level!
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Term 4, 2006 BIO656--Multilevel Models 8
StructureStructure
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Term 4, 2006 BIO656--Multilevel Models 9
RULES FOR HOMEWORK,RULES FOR HOMEWORK,MID-TERM AND PROJECTMID-TERM AND PROJECT
Homework • Must be individually prepared, but you can get help• Homework due dates should be honored.• Turn in hard copy for grading
The in-class, midterm• Must be prepared absolutely independently • During the exam, no advice or information can be obtained from others• You can use your notes and reference materials
The term project• Must be individually prepared, but you can get help• Must be electronically submitted
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Handouts and the WebHandouts and the Web• Virtually all course materials will be on the web• Check frequently for updates
• I’ve provided hard copy of the general information sheet
• However, other lectures will be on the web in powerpoint format and won’t be handed out
• Download to your computer so you have an electronic version each part
• Print if you need hard copy, but do it 4 or 6 to a page to save paper• More generally, try to “go electronic” printing sparingly
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COMPUTING & DATACOMPUTING & DATA
• We will support WinBUGS, Stata
• We provide partial support for SAS, which should be used only by current SAS users; we aren’t teaching it from scratch
• Some homeworks require use of WinBUGS and another “traditional” program (STATA, SAS, R,...)
• We provide datasets, including some in the WinBUGS examples
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Term 4, 2006 BIO656--Multilevel Models 12
WHY BUGS?WHY BUGS?
• Freeware!
• In MLMs, it’s important to see distributions– e.g., Skewness of sampling distribution of variance component estimates
• It’s important to incorporate all uncertainties in estimating random effects
• Note that WinBugs isn’t very data input friendly
• And, it’s difficult to produce P-values
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Term 4, 2006 BIO656--Multilevel Models 13
STATISTICAL MODELSSTATISTICAL MODELS
• A statistical model is an approximation • Almost never is there a “correct” or “best” model, no holy grail
• A model is a tool for structuring a statistical approach and addressing a scientific question
• An effective model combines the data with prior information to address a question
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Term 4, 2006 BIO656--Multilevel Models 14
MULTI-LEVEL MODELSMULTI-LEVEL MODELS
• Biological, physical, psycho/social processes that influence health occur at many levels:– Cell Organ Person Family Nhbd
City Society ... Solar system– Crew VesselFleet ...
– Block Block Group Tract ...
– Visit Patient Phy Clinic HMO ...
• Covariates can be at each level• Many “units of analysis”
• More modern and flexible parlance and approach: “many variance components”
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Term 4, 2006 BIO656--Multilevel Models 15
Example: Alcohol AbuseExample: Alcohol Abuse
• Cell: neurochemistry
• Organ: ability to metabolize ethanol
• Person: genetic susceptibility to addiction
• Family: alcohol abuse in the home
• Neighborhood: availability of bars
• Society: regulations; organizations; social norms
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Term 4, 2006 BIO656--Multilevel Models 16
ALCOHOL ABUSE:ALCOHOL ABUSE:A multi-level, interaction model
• Interaction between existence of bars & state, drunk driving laws
• Alcohol abuse in a family & ability to metabolize ethanol
• Genetic predisposition to addiction & household environment
• State regulations about intoxication & job requirements
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Many names for similar, Many names for similar, but not identical but not identical
models, analyses and goalsmodels, analyses and goals
• Multi-Level Models• Random effects models
• Mixed models
• Random coefficient models
• Hierarchical models• Bayesian Models
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We don’t need MLMsWe don’t need MLMs
• If your question is about slopes on regressors, you can run a standard regression and (usually) get valid slope estimates
Y = 0 + 1(areal monitor) + 2(home monitor) + ...
Y = 0 + 1(zipcode income) + 2(personal income) + ...
logit(P) = ......
• Analysis can be followed by computing a “robust” SE to get valid inferences
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We do need MLMsWe do need MLMs
• If your question is about variance components, you need to build the multi-level model
Yijkl = 0 + 1X1 + 2 X2 + ... + ijkl
Var(Yijkl) = Var(ijkl) =
= VHospital + VClinic + VPhysician + VPatient + Vunexplained
• These variances depend on what Xs are in the model
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We do need MLMsWe do need MLMs
• To create a broad class of correlation structures– Longitudinal correlations– Nested correlations
• To structure improving unit-level estimates (latent effects) and to make unit-level predictions
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Term 4, 2006 BIO656--Multilevel Models 21
MLMs are effective in producing MLMs are effective in producing “working models” that “working models” that
incorporate stochastic realitiesincorporate stochastic realities
• Producing efficient population estimates• Broadening the inference beyond “these units”• Protecting against some types of informative missing data processes• Producing correlation structures• Generating “overdispersed” versions of standard models• Structuring estimation of latent effects
But, MLMs can be fragile and care is neededBut, MLMs can be fragile and care is needed
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MLMs are not and should not beMLMs are not and should not be
• A religion
• A truth
• The only way to model multi-level data!
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Improving individual-level estimatesImproving individual-level estimatesSimilar to the BUGS rat data
• Dependent variable (Yij) is weight for rat “i” at age Xij
i = 1, ..., I (=10); j = 1, ..., J (=5)
Xij = Xj = (-14, -7, 0, 7, 14) = (8-22, 15-22, 22-22, 29-22 36-22)
Yij = bi0 + bi1 Xj + ij
– As usual, the intercept depends on the centering
• Analyses– Each rat has its own line – All rats follow the same line: bi0 = 0 , bi1 = 1 – A compromise between these two
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Each rat has its own (LSE, MLE) lineEach rat has its own (LSE, MLE) line(with the population line)
Pop line
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A multi-level model:A multi-level model: Each rat has its own line,
but the lines come from the same distribution
• The bi0 are independent Normal(0, 02)
• The bi1 are independent N(1, 12)
Overdispersion• Sample variance of the OLS estimated intercepts: 345 = SEint
2 + 02 = 320 + 0
2 02 = 25, 0 = 5
• Sample variance of the OLS estimated slopes 4.25 = SEslope
2 + 12 = 3.25 + 1
2 12 = 1.00, 1 = 1.00
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A compromise: each rat has its own line,A compromise: each rat has its own line, butbut the lines come from the same distribution the lines come from the same distribution
Pop line
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ONE-WAY RANDOM EFFECTS ANOVAONE-WAY RANDOM EFFECTS ANOVA
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Simulated “Neighborhood Clustering”Simulated “Neighborhood Clustering”• Random mean for each of 10 neighborhoods (J=10) b1, b2, ..., b10 (iid) N(10, 9)
• Random deviation from neighborhood mean for each of 10 persons in each neighborhood (n=10) Yij = bj + eij, eij (iid) N(0, 4)
Conditional Independence Over-dispersion: Variance of each point is 13 (= 4 + 9)Correlation: Measurements within each cluster are correlated
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Intra-class Correlation (ICC)Intra-class Correlation (ICC)
• Correlation of two observations in the same cluster:
ICC = Var(Between)/ Var(Total)
= 1 – Var(Within)/Var(Total)
Estimated ICC: 0.67 = (9.8-3.2)/9.8
True ICC: 0.69 = 9/(9 + 4) = 9/13
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V(b)
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regressionline
Pop line
45o line
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WEIGHTED MEANSWEIGHTED MEANS
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INFERENCE SPACEINFERENCE SPACE(Sanders)(Sanders)
• The choice between fixed and random effects depends in part on the reference population (the inference space)
–These studies or people
– Studies or people like these– .........
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Random Effects Random Effects should replace “unit of analysis”should replace “unit of analysis”
• Models contain Fixed-effects, Random effects (via Variance Components) and other correlation-inducers
• There are many “units” and so in effect no single set of units
• Random Effects induce unexplained (co)variance• Some of the unexplained may be explicable by
including additional covariates• MLMs are one way to induce a structure and
estimate the REs
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PLEASE DO THISPLEASE DO THIS
If you did not receive the welcome email from me, email me at: ([email protected])
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ROOM CHANGE, AGAIN!ROOM CHANGE, AGAIN!
• Starting Thursday, March 30th and henceforth, lectures will be in W2030
• Labs will still be in W2009
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END OF PART IEND OF PART I