AGES Workshop – Oct. 18-22, 2010

Multivariate Phenotyping

TimeSpeakerTopicPresentationNotes/Examples
09:00 – 10:30Kenneth KendlerStatistical Genetics of Substance UseIntroduction
11:00 – 12:30Hermine Maes / Roseann PetersonReview Multivariate Genetic Analysis ReviewOpenMx Helper Functions
Causes of CoVariation
Gen Epi Helper Functions
MultiTwinRawCon.R
usski.rec
MultiTwinRawOrdEx.R
selVATSPSUD.dat
MultiTwinRawOrd.output
BivCCCTwinRawOrdEx.R
selVA30.dat
01:30 – 02:30Michael Neale / Ryne EstrabrookGenetic Factor Analysis vs Item Response ModelFactorScoreConSim.R
iqnl.rec
MultiTwinRawConFScore.R
03:00 – 04:00Michae Neale / Shaunna ClarkMeasurement Invariance/ UnderreportingMeasurement Invarianceoctomult_10aug2010.rdata
MeasurementInvarianceExample.R

Genes, Environment & Development

TimeSpeakerTopicPresentationNotes/Examples
08:00 – 09:00Timothy YorkR ReviewFunctions4StatisticalAnalysis.R
disease.csv
09:00 – 10:30Lindon EavesDevelopmental Genetic ModelsDevelopment Change
Development Change PPTX
Generate.R
11:00 – 12:30Nathan GillespieGenetic Growth Mixture Models & Time SeriesLongitudinal Modeling
Presentation
LongitudinalTwinAnalysisCon.R
jepq_con.dat
LongitudinalTwinAnalysisOrd.R
jepq_ord.txt
Practical.R
01:30 – 03:00Shaunna Clark / Ryne EstabrookMixture Modeling/ Multi-Level ModelsMixture & Multilevel Modeling
Multilevel Modeling PPTX
Programming Growth Mixture Models in OpenMx
gmm.R
03:30 – 05:00Daniel Dick / Timothy YorkGenotype Environment Interaction & CorrelationGene-Environment Interaction & Correlation
Gene-Environment Interaction & Correlation Presentation PPT
VCxEnvSimulated STUDENT.R
GxEdata.csv

SEM & Measured Genes

TimeSpeakerTopicPresentationNotes/Examples
09:00 – 10:30Steven Boker / Timothy BrickDynamical ModelsIntroduction to Dynamical Systems AnalysisGOLDfunctions.R
1stOrderUnivariateLDE.R
2ndOrderUnivariateLDE.R
LDEUnivariateExample.dat
LDE1stOrderUnivariate.csv
11:00 – 12:00Hermine MaesSEM with Measured GenesSEM with Measured GenotypesUnivTwinACEGRawOrdEx.R
selVATS.dat
12:00 – 12:30Hao WuIssues with Likelihood Ratio TestsNonstandard Likelihood Ratio Test in ACE ModelsEvsACEsimulation.R
CEvsACEsimulation.R
01:30 – 03:00Amy AdkinsBLUPS: Best Linear Unbiased PredictionBLUPs for omicsnida_maus_examp_blups.R
03:30 – 05:00Michael BowersAnimal ModelsAddiction Animal “Models”

Integrative Approaches

TimeSpeakerTopicPresentationNotes/Examples
09:00 – 09:30Edwin van den OordStatistical Molecular Genetic ApproachesIntroduction to Molecular Part NIDA workshop
09:30 – 10:30Michael Neale / Benjamin NealeAssociation & PlinkWhole genome association software tutorial
Association & Plink PPT
11:00 – 12:30Jozsef BukszarControlling False Discoveries & Data IntegrationIntegrating heterogeneous genetic data sets based on rigorous mathematical foundation
Controlling False Discoveries & Data Integration Presentation PPT
01:30 – 03:00Joseph McClayBehavioral MetabolomicsBehavioral Metabolomics
Behavioral Metabolomics Presentation PPT
03:30 – 05:00Edwin van den OordPharmacogenomics & Personalized MedicineBiomarkers and Personalized Medicine

Next-Generation Sequencing

Extended Pedigree Program – Part 01

TimeSpeakerTopicPresentationNotes/Examples
09:00 – 10:30Lindon EavesTwin-Family and Extended Pedigrees IntroExtended Twin-Kinship Designs
Extended Twin-Kinship Designs Presentation PPTX
Some references
11:00 – 01:00Hermine MaesML Correlations in Extended PedigreesML CorrelationsETC5x.R
ETC10x.R
ETC88x.R
MZM
DZM
MZF
DZF
DZOS
htusmzm.rec
htusdzm.rec
htusmzf.rec
htusdzf.rec
htusdzo.rec
02:00 – 03:00Hermine MaesET DesignsET DesignsTruett et al. 1994
Eaves et al. 1999
Maes et al. 1999
Eaves et al. 2005
Maes et al. 2006
Maes et al. 2007
Keller et al. 2009
Maes et al. 2009
03:30 – 05:00Hermine MaesET Designs PracticalET10x.R

Extended Pedigree Program – Part 02

TimeSpeakerTopicPresentationNotes/Examples
09:00 – 10:30Hermine MaesExtended PedigreesExtended PedigreesET88x2pa.R
11:00 – 12:30Hermine MaesPractical
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