The Rockefeller University, New York<br />
Welch – The Great Hall<br />
Monday through Friday, January 22-26, 2018<
===General Information===
===Course Instructors===
The instructors for the course are: Goncalo Abecasis (University of Michigan), Heather Cordell (University of Newcastle), Nancy Cox (Vanderbilt University), Suzanne Leal (The Rockefeller University & Baylor College of Medicine), and Shamil Sunyaev (Harvard University).
For additional information, please contact Katherine Montague:<br />
email: [mailto: montagk@rockefeller.edumontagk@rockefeller.edu]<br />
Tel: +1 (212) 327-7979
For additional information on scientific program contact the course organizer Suzanne Leal:<br />email: [mailto:sleal@bcm.edu sleal@bcm.edu] or [mailto:suzannemleal@gmail.com suzannemleal@gmail.com]<br />
Tel: +1 (713) 798-4011
Application deadline is Monday===Course Photo===[[File:Rock_Course_Photo_2018.jpg|none|750x999px]] [https://statgen.research.bcm.edu/files/2018/01/info/Rockefeller_advanced_course_flyer_2018.pdf Click here for course flyer] – Please Post and Distribute [https://statgen.research.bcm.edu/files/2018/01/info/adv_gene_mapping_schedule_2018.pdf Click here for course schedule] ===Lecture Handouts & Practical Exercises=======Gonçalo Abecasis====* Presentations** [https://statgen.research.bcm.edu/files/2017/01/abecasis/presentation/Genome-wide_Analysis.pdf Genome-wide Analysis]** [https://statgen.research.bcm.edu/files/2017/01/abecasis/presentation/Genotype_Imputation.pdf Genotype Imputation]** [https://statgen.research.bcm.edu/files/2017/01/abecasis/presentation/Meta_Analysis.pdf Meta Analysis]** [https://statgen.research.bcm.edu/files/2017/01/abecasis/presentation/Sequence_Data.pdf Sequence Data]* Data Sets** [https://statgen.research.bcm.edu/files/2018/01/abecasis/exercises.tar.gz Download] ====Heather Cordell====* Presentations** [https://statgen.research.bcm.edu/files/2017/01/cordell/hjc-NY2016-GWAS-nopage.pdf Statistical Methods]** [https://statgen.research.bcm.edu/files/2017/01/cordell/HJC-interactions2017-nopage.pdf Interactions]* Exercises** [https://statgen.research.bcm.edu/files/2017/01/cordell/hjc-epistasis2015-ComputerPractical.pdf Interaction analysis using PLINK, November 6CASSI, 2017ORMDR and BEAM3]** [https://statgen.research.bcm.edu/files/2018/01/cordell/GxG_INTERACTION.tar.gz Download Dataset] ====Nancy Cox====* Presentations** [https://statgen.research.bcm.edu/files/2018/01/cox/GeneticArchitecture_Transcriptomics_Cox_2018.pdf Integrative Approaches for Genetic Studies of Common Human Disease - Genetic Architecture andTranscriptomics]** [https://statgen.research.bcm.edu/files/2018/01/cox/DataIntegration_Cox_2018.pdf Integrative Approaches for Genetic Studies of Common Human Disease - Data Integration: Genome x Transcriptome x EHR]
Click here ====Suzanne Leal====* Presentations** [https://statgen.research.bcm.edu/files/2018/01/leal/Analysis_rare_variants_3.pdf Complex Trait Association Analysis of Rare Variants Obtained from Sequence Data: Population-Based Data]** [https://statgen.research.bcm.edu/files/2018/01/leal/data_quality_control_1.pdf Data Quality Control]** [https://statgen.research.bcm.edu/files/2018/01/leal/Trio_and_Family_Based_Association_analysis_4.pdf Family Base Association Analysis]** [https://statgen.research.bcm.edu/files/2018/01/leal/NGS_variant_calling_QC_2.pdf NGS Quality Control]** [https://statgen.research.bcm.edu/files/2018/01/leal/SEQSpark_5.pdf SEQSpark]* Exercises** [https://statgen.research.bcm.edu/files/2018/01/leal/PLINK_data_QC_V2_1.pdf PLINK GWAS Data QC]** [https://statgen.research.bcm.edu/files/2018/01/leal/GWAS_Data_Controlling_for_Substructure_V2_2.pdf PLINK GWAS Association Analysis Controlling for application formPopulation Substructure]** [https://statgen.research.bcm.edu/files/2018/01/leal/GenABEL_with_PLINK1.9_3.pdf GenABEL]** [https://statgen.research.bcm.edu/files/2018/01/leal/rvtdt_exercise_v2.pdf RV-TDT]** [https://statgen.research.bcm.edu/files/2018/01/leal/FunctionalAnnotation_exercise_2018v2.pdf Functional Annotation]** [https://statgen.research.bcm.edu/files/2018/01/leal/SEQSpark_exercise_Final_v1.pdf SEQSpark]** [https://statgen.research.bcm.edu/files/2018/01/leal/VAT_exercise_revised_nographs.pdf VAT]* Commands** [[AdvGeneMap2018Commands|Exercise Commands]]* Exercise Datasets** [https://statgen.research.bcm.edu/files/2018/01/leal/exercises.tar.gz Download]
Click here for course flyer – Please Post ====Shamil Sunyaev====* Presentations** [https://statgen.research.bcm.edu/files/2018/01/sunyaev/Rockefeller_pop_gen_2018_1_color.pdf Intro to population genetics]** [https://statgen.research.bcm.edu/files/2018/01/sunyaev/Rockefeller_complex_traits_2018_2_color.pdf Evolution, maintenance and Distributeallelic architecture of complex traits]** [https://statgen.research.bcm.edu/files/2018/01/sunyaev/Rockefeller_function_2018_3_color.pdf Annotating gene sequence variation]** [https://statgen.research.bcm.edu/files/2018/01/sunyaev/Rockefeller_mutation_2018_4_color.pdf Understanding human mutation]
Click ===Course Image===[https://statgen.research.bcm.edu/files/2018/01/AdvancedGeneMapping.ova Download here for course schedule]
This course is supported by a grant from the National Institute of Health (NIH) - National Human Genome Research Institute (NHGRI).