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  • ComplexNGS2016 - Center for Statistical Genetics
    data association testing framework for quantitative and qualitative traits fixed effects random effects and mixed models rare variant association methods estimating power and sample size for rare variant association studies imputation of rare variants and their analysis evaluating variant functionality The instructors for the course are Suzanne Leal Baylor College of Medicine and Michael Nothnagel University of Cologne The cost of the 5 day course is 975 EUR for researchers from an academic institution and 1 950 EUR for individuals from private for profit companies This fee covers tuition Monday evening wine and cheese party and course related expenses handouts etc but not room board or meals Inexpensive housing is available for course participants at the MDC and nearby hotels The maximum number of participants is 40 For additional information on the course please contact Suzanne Leal Application Deadline April 22 2016 email sleal bcm edu Tel 1 713 798 4011 Fax 1 713 798 4012 Click here for course schedule Click here for the application form Click here for course flyer please post and distribute Click here for maps and directions to the MDC Click here for the information on MDC Housing Click here for Berlin tourist information Click here for photos and datasets from the Analysis of Next Generation Sequence Data Mendelian Traits Berlin September 2015 Click here for photos and datasets from the Genetic Association Course Berlin June 2015 Click here for photos and datasets from the Analysis of Next Generation Sequence Data Complex Traits Berlin March 2015 Click here for photos and datasets from the Next Generation Sequence Data Analysis Course Berlin June 2014 Click here for photos and datasets from the Genetic Association Course Berlin March 2014 Click here for photos and datasets from the Genetic Association Course Berlin June 2013 Click here for photos

    Original URL path: https://statgen.research.bcm.edu/index.php/ComplexNGS2016 (2016-04-27)
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  • Advgenemap2016 - Center for Statistical Genetics
    mixed models eQTL mapping prediction models using RNAseq and array data inferences for heritability estimation and prediction functional predication of variant sites variant annotation variant calling controlling for population substructure admixture principal components analysis multidimensionality scaling data quality control of genotype and sequence data meta analysis gene x gene interaction sample size estimation and evaluating power for common and rare variants Course Instructors The instructors for the course are Gonçalo 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 More Information The maximum number of participants is 30 The course will take place in the Great Hall in Welch at The Rockefeller University which is equipped with PCs running under LINUX The course is wheel chair accessible All disabilities will be accommodated Handicapped individuals are encouraged to apply Four travel stipends of up to 1 000 each are available Eligibility requirements are 1 sufficient background and practical experience in statistical analysis of genetic data and 2 demonstrated financial need Preference for stipends will be given to pre doctoral students and postdoctoral researchers To apply for such a stipend please attach a letter of request and enclose a letter of reference and proof of student or postdoctoral status Knowledge genetic association analysis genetic epidemiology and or statistical genetics are screening criteria for selection of participants Please describe your experience in detail in your application We may contact you personally to discuss your application Although experience of using LINUX is not necessary it is highly beneficial to have basic knowledge of this operating system before the start of the course For additional information please contact Katherine Montague email montagk rockefeller edu Tel 1 212 327 7979 For additional information on scientific program contact the

    Original URL path: https://statgen.research.bcm.edu/index.php/Advgenemap2016 (2016-04-27)
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  • 2015SeptMDC - Center for Statistical Genetics
    classroom 1 2 Course Instructors 1 3 Pictures from the Course 1 4 Downloads for Course 1 5 Commands for Computer Exercises 1 6 Exercise Output 1 7 Course Slides 1 8 Data Sets 1 9 Software Links 1 10 Databases 1 11 Bioinformatic Tools Identifying Genes for Mendelian Traits using Next Generation Sequence Data Sept 28 Oct 2 2015 Max Delbrück Center MDC for Molecular Medicine Berlin Germany General Information Emphasis in this course is on strategies for gene mapping and variant gene identification for Mendelian Traits It will include theory as well as practical exercises The exercises will be carried out using a variety of computer programs e g Gemini GeneHunter GERP Homozygosity Mapper Integrative Genome Viewer MERLIN PhyloP PolyPhen SEQLinkage Variant Mendelian Tools and with pencil and paper TOPICS include study design linkage analysis and homozygosity mapping using genotype array and next generation sequence data exome and whole genome haplotype reconstruction evaluating pedigree informativeness and power to detect linkage identification of causal variants using filter approaches variant annotation evaluation of deleterious effects of variants and their functionality Course Schedule Link to Berlin hotel tax exemption form Direction to the MDC Campus Direction to the classroom Location MDC communication center Building C83 on the Campus Map Room Axion 2 The building is red and stands across the street from the campus bus stop and the blue bear Course Instructors The organizers and instructors for the course are Suzanne Leal Baylor College of Medicine and Michael Nothnagel University of Cologne Pictures from the Course Downloads for Course Alohomora Linux Windows Data Set IGV jar BAM File Commands for Computer Exercises Functional Annotation Gemini RarePedSim SEQLinkage Variant Assocaition Tools Variant Mendelian Tools Exercise Output Variant Mendelian Tools Course Slides download Data Sets Alohomora Functional Annotation Gemini GeneHunter IGV BAM Linkage

    Original URL path: https://statgen.research.bcm.edu/index.php/2015SeptMDC (2016-04-27)
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  • 2015JuneMDC - Center for Statistical Genetics
    1 2 Course Instructors 1 3 Commands for Computer Exercises 1 4 Course Slides 1 5 Data Sets Used During the Course 1 6 Software Links Genetic Association Course with Application to Sequence and Genotype Data June 22 26 2015 Max Delbrück Center MDC for Molecular Medicine Berlin Germany General Information The goal of the course is to teach the course participants both theory and application of methods for population based association analysis with a concentration on the analysis of exome and whole genome sequence and genotype data Emphasis in this course is on strategies for genetic mapping of complex human traits It will include theory as well as practical exercises The exercises will be carried out using a variety of computer programs PLINK GenABEL MACH UNPHASED EIGENSTRAT Variant Association Tools VAT SEQPower and R etc and with pencil and paper The emphasis of this course is analysis of population based whole genome and exome data including genotype and sequence data TOPICS include Association analysis of qualitative and quantitative traits single marker and haplotype analysis analysis of whole genome association study data complex trait rare variant association analysis of next generation sequence data data quality control for genotype and next generation sequence data haplotype reconstruction tagSNPselection controlling population admixture genomic control principal components analysis etc imputing genotype data from sequence and genotype data detecting gene x gene and gene x environmental interactions power and sample size estimation for both genotype and rare variant data permutation estimating empirical p values and false discovery rate FDR Link to Berlin hotel tax exemption form Direction to the MDC Campus 0Direction to the classroom Location MDC communication center Building C83 on the Campus Map Room Axion 2 The building is red and stands across the street from the campus bus stop and the blue

    Original URL path: https://statgen.research.bcm.edu/index.php/2015JuneMDC (2016-04-27)
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  • CourseExerciseScripts - Center for Statistical Genetics
    Ruby Tools What links here Related changes Special pages Printable version Permanent link Page information All pages CourseExerciseScripts From Center for Statistical Genetics Jump to navigation search Print Computer exercise commands for gene mapping courses 2015 March Berlin computer exercise commands 2015 June Berlin computer exercise commands 2016 March Kyoto computer exercise commands Archived Retrieved from https statgen research bcm edu index php title CourseExerciseScripts oldid 524 Navigation menu Navigation

    Original URL path: https://statgen.research.bcm.edu/index.php/CourseExerciseScripts (2016-04-27)
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  • Center for Statistical Genetics
    Generation Sequence Data Sept 28 Oct 2 2015 Max Delbrück Center MDC for Molecular Medicine Berlin Germany Genetic Association Course With Application to Sequence and Genotype Data June 22 26 2015 Max Delbrück Center for Molecular Medicine Berlin Germany Complex Trait Analysis of Next Generation Sequence Data March 23 27 2015 Max Delbrück Center for Molecular Medicine Berlin Germany Advanced Gene Mapping Course Feb 9 13 2015 The Rockefeller University New York Analysis of Next Generation Sequence Data Course June 23 27 2014 Max Delbrück Center for Molecular Medicine Berlin Germany Genetic Association Course March 3 7 2014 Max Delbrück Center for Molecular Medicine Berlin Germany Advanced Gene Mapping Course Jan 27 31 2014 The Rockefeller University New York NY Genetic Association Course June 3 7 2013 With Application to Analysis of Sequence and Genotype Data Max Delbrück Center for Molecular Medicine Berlin Germany Advanced Gene Mapping Course Jan 28 Feb 1 2013 The Rockefeller University New York NY Basic Gene Mapping Course Nov 26 30 2012 Max Delbrück Center for Molecular Medicine Berlin Germany Genetic Association Course July 23 27 2012 Max Delbrück Center for Molecular Medicine Berlin Germany Advanced Gene Mapping Course Jan 16 20 2012 The Rockefeller

    Original URL path: https://statgen.research.bcm.edu/index.php?title=Main_Page&mobileaction=toggle_view_mobile (2016-04-27)
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  • Log in - Center for Statistical Genetics
    Association NGS Analysis of Complex Traits Course Exercise Commands KBAC PhenoMan RarePedSim RV TDT SEQLinkage SEQPower SimPed SimRare Variant Association Tools Variant Mendelian Tools About BlueSpice Special pages Watchlist Uploads Settings Log in About Center for Statistical Genetics Disclaimers Sign

    Original URL path: https://statgen.research.bcm.edu/index.php?title=Special:UserLogin&returnto=Special%3AAboutBlueSpice (2016-04-27)
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  • About BlueSpice - Center for Statistical Genetics
    Mapping NGS Analysis of Mendelian Traits Genetic Association NGS Analysis of Complex Traits Course Exercise Commands KBAC PhenoMan RarePedSim RV TDT SEQLinkage SEQPower SimPed SimRare Variant Association Tools Variant Mendelian Tools About BlueSpice Special pages Watchlist Uploads Settings Log in

    Original URL path: https://statgen.research.bcm.edu/index.php?title=Special:AboutBlueSpice&printable=yes (2016-04-27)
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