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  • Lab of Statistical Genetics, Rockefeller University
    of genetic analysis elsewhere last updated jun17 2012 Computer programs distributed by us FTP site the European mirror and downloading programs that require GPL license with online manual pages for name what it does LINKAGE pedigree linkage analysis user s guide help file for PC version EH estimate LD linkage disequilibrium user s guide HOMOG linkage analysis with genetic heterogeneity documentation LIPED first generation linkage analysis program documentation NOCOM estimating

    Original URL path: http://linkage.rockefeller.edu/ (2012-11-26)
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  • Jurg Ott Statistical Genetics
    are now graduate students at American universities Main Research Interests Developing new mathematical statistical methods for human gene mapping linkage mapping disequilibrium analysis Implementing these methods in computer programs To study interactions of multiple disease loci underlying complex traits methods of pattern recognition and classification are investigated Statistical analysis of genome wide case control association data and of microarray data Collaborating with other researchers on the analysis of their genetic data Maintaining a web ftp site for dissemination of information and computer programs For official U S time in New York click here this uses the US government time server which does not seem accessible in China Instead you may want to click here For current local time in Beijing click here 11th International Conference on Bioinformatics 3 5 October 2012 Bangkok Thailand Scientific Literature Program Guides Most of the manuals below contain links to programs for downloading For some of the programs listed below I have newer versions that are not yet on this webpage write to me if you are interested Also I can supply 64 bit versions of the Pascal programs Publications book corrections The FP test for genetic case control association studies Description of statistical Utility programs User s guide to EH program User s guide to HOMOG programs User s guide to LINKAGE programs pdf file User s guide to Linkage Support Programs pdf file LINKHELP file supplement to user s guide for LINKAGE programs User s guide to LIPED program User s guide to NOCOM program User s guide to SIMNUCLEAR program Documentation to SIMULATE program This program comes in three versions as described in the documentation simulate simulate2 and simulate3 Documentation to SLINK program User s guide to TLINKAGE programs Scan statistics in gene mapping Hoh and Ott PNAS 97 9615 9617 2000

    Original URL path: http://linkage.rockefeller.edu/ott/ (2012-11-26)
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  • the group
    org Suzanne M Leal http www bcm edu genetics pmid 10939 email sleal bcm tmc edu Thomas Lehner web http www nimh nih gov about organization dnbbs genomics research branch index shtml email tlehner mail nih gov Dawei Li Wentian Li web http www nslij genetics org wli email wli nslij genetics org Xin Liu web http www linkedin com pub xin liu 7 737 780 email xin liu csfb com Douglas Londono email londono biology rutgers edu Jacek Majewski web http www genomequebec mcgill ca majewski Tara C Matise web http compgen rutgers edu email matise biology rutgers edu Abigail Matthews web email amatthews emmes com Chantal Merette web http www vrr ulaval ca bd chercheur fiche 42436 html email chantal merette psa ulaval ca Dale Nyholt web http genepi qimr edu au general daleN email dalen qimr edu au Lodewijk Sandkuyl 1953 2002 Marcy Speer 1959 2007 Ayse Ulgen web http www linkedin com pub ayse ulgen a b04 286 email ulgen evry inserm fr Dan Weeks web http watson hgen pitt edu email dweeks watson hgen pitt edu Haiyan Xu web email haiyan xu gmail com Yaning Yang web http linkage rockefeller edu yyang http staff ustc edu cn ynyang email ynyang gmail com In memory of Lodewijk Sandkuijl from Erasmus symposium May 24 2003 from American Journal of Human Genetics from Human Heredity PDF In memory of Marcy Speer Nature Genetics PDF PLoS genetics from Duke University students Andrew DeWan web http medicine yale edu ysph people andrew dewan profile email andrew dewan yale edu RU Benchmark 2005 PDF Harald Göring web http www sfbr org Departments genetics staff bio aspx u 57 email hgoring darwin sfbr org Victoria Haghighi email fgh3 columbia edu Mark Levenstien email levenstm mskcc org RU Benchwork July 13 2007 Paul

    Original URL path: http://linkage.rockefeller.edu/group/ (2012-11-26)
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  • publications
    University books meeting abstracts book chapters Rockefeller 2011 2010 2009 2008 2007 2006 2005 2004 2003 2002 2001 2000 1999 1998 1997 1996 Columbia 1995 1994 1993 1992 1991 1990 1989 1988 1987 1986 1985 1984 1983 1982 1981 1980

    Original URL path: http://linkage.rockefeller.edu/pub/ (2012-11-26)
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  • p r e s e n t l y n o s u p p o r t f o r t h i s c o u r s e f r o m s o u r c e s o t h e r t h a n t h e c o u r s e f e e n o r e d u c t i o n o f t h e c o s t t o a p p l i c a n t s i s p o s s i b l e T h i s f e e c o v e r s t u i t i o n a n d c o u r s e r e l a t e d e x p e n s e s h a n d o u t s e t c b u t n o t r o o m b o a r d o r m e a l s L i m i t e d a f f o r d a b l e h o u s i n g i s a v a i l a b l e a t t h e M D C c a m p u s T h e m a x i m u m n u m b e r o f p a r t i c i p a n t s i s 3 0 E m p h a s i s i n t h i s c o u r s e i s o n s t r a t e g i e s f o r g e n e t i c m a p p i n g o f c o m p l e x h u m a n t r a i t s I t w i l l i n c l u d e t h e o r y a s w e l l a s p r a c t i c a l e x e r c i s e s T h e e x e r c i s e s w i l l b e c a r r i e d o u t u s i n g a v a r i e t y o f c o m p u t e r p r o g r a m s P L I N K G e n A B E L M A C H U N P H A S E D E I G E N S T R A T a n d R e t c a n d w i t h p e n c i l a n d p a p e r T h e e m p h a s i s o f t h i s c o u r s e i s a n a l y s i s o f p o p u l a t i o n b a s e d w h o l e g e n o m e d a t a i n c l u d i n g g e n o t y p e a n d s e q u e n c e d a t a T O P I C S i n c l u d e A s s o c i a t i o n a n a l y s i s o f q u a l i t a t i v e a n d q u a n t i t a t i v e t r a i t s s i n g l e m a r k e r a n d h a p l o t y p e a n a l y s i s a n a l y s i s o f w h o l e g e n o m e a s s o c i a t i o n s t u d y d a t a c o m p l e x t r a i t r a r e v a r i a n t a s s o c i a t i o n a n a l y s i s o f n e x t g e n e r a t i o n s e q u e n c e d a t a d a t a q u a l i t y c o n t r o l f o r g e n o t y p e a n d n e x t g e n e r a t i o n s e q u e n c e d a t a h a p l o t y p e r e c o n s t r u c t i o n t a g S N P s e l e c t i o n c o n t r o l l i n g p o p u l a t i o n a d m i x t u r e g e n o m i c c o n t r o l p r i n c i p a l c o m p o n e n t s a n a l y s i s e t c i m p u t i n g g e n o t y p e d a t a d e

    Original URL path: http://linkage.rockefeller.edu/suzanne/Berlin_Genetic_Association_Course_2012.html (2012-11-26)
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  • p a n t s a t t h e M D C T h e c o s t o f t h e 5 d a y c o u r s e i s 8 0 0 E u r o f o r r e s e a r c h e r s f r o m a n a c a d e m i c i n s t i t u t i o n 1 4 0 0 E u r o f o r i n d i v i d u a l s f r o m p r i v a t e f o r p r o f i t c o m p a n i e s S e n d n o m o n e y n o w A p p l i c a n t s a c c e p t e d f o r t h e c o u r s e w i l l r e c e i v e p a y m e n t i n s t r u c t i o n s A s t h e r e i s p r e s e n t l y n o s u p p o r t f o r t h i s c o u r s e f r o m s o u r c e s o t h e r t h a n t h e c o u r s e f e e n o r e d u c t i o n o f t h e c o s t t o a p p l i c a n t s i s p o s s i b l e T h i s f e e c o v e r s t u i t i o n a n d c o u r s e r e l a t e d e x p e n s e s h a n d o u t s e t c b u t n o t r o o m b o a r d o r m e a l s L i m i t e d a f f o r d a b l e h o u s i n g i s a v a i l a b l e a t t h e M D C c a m p u s T h e m a x i m u m n u m b e r o f p a r t i c i p a n t s i s 3 0 E m p h a s i s i n t h i s c o u r s e i s o n s t r a t e g i e s f o r g e n e t i c m a p p i n g o f h u m a n M e n d e l i a n a n d c o m p l e x t r a i t s I t w i l l i n c l u d e t h e o r y a s w e l l a s p r a c t i c a l e x e r c i s e s T h e e x e r c i s e s w i l l b e c a r r i e d o u t u s i n g a v a r i e t y o f c o m p u t e r p r o g r a m s L I N K A G E G E N E H U N T E R M E R L I N A L L E G R O S I M W A L K 2 S L I N K P L I N K T A G G E R e t c a n d w i t h p e n c i l a n d p a p e r T O P I C S i n c l u d e p a r a m e t r i c m e t h o d s t w o p o i n t a n d m u l t i p o i n t a n a l y s i s a l l e l e s h a r i n g n o n p a r a m e t r i c m e t h o d s f o r s i b p a i r s a n d e x t e n d e d f a m i l i e s t w o p o i n t a n d m u l t i p o i n t a n a l y s i s l i n k a g e a d m i x t u r e h e t e r o g e n e i t y t a g S N P s e l e c t i o n h a p l o t y p e r e c o n s t r u c t i o n a s s o c i a t i o n s t u d i e s t r i o s a n d c a s e c o n t r

    Original URL path: http://linkage.rockefeller.edu/suzanne/Berlin_Basic_Gene_Mapping_Course_2012.htm (2012-11-26)
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  • advance_course01
    programs including R PLINK PSEQ MACH GenAbel RarePower VAT Polyphen 2 etc Topics include Analysis of whole genome association studies analysis of rare variants using next generation sequence and exome chip data analysis of qualitative and quantitative traits population and family based data functional predication of variant sites controlling for population substructure admixture principal components analysis multidimensionality scaling data quality control of genotype and sequence data imputation of genotype data from HapMap and 1000 Genomes meta analysis gene x gene interaction sample size estimation and evaluating power for common and rare variants The instructors for the course are Goncalo Abecasis University of Michigan Heather Cordell University of Newcastle Suzanne Leal Baylor College of Medicine The Rockefeller University Shaun Purcell Mount Sinai Harvard University and Shamil Sunyaev Harvard University The maximum number of participants is 30 The course will take place in the teaching room of the Weiss Building 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 Eight travel stipends of up to 1 300 each are available to eligible participants from U S institutions 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 of linkage analysis genetic association analysis genetic epidemiology and or statistical genetics is 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

    Original URL path: http://linkage.rockefeller.edu/suzanne/advanced_course_Jan_13 (2012-11-26)
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  • a list of short courses of genetic analysis

    (No additional info available in detailed archive for this subpage)
    Original URL path: /course/list.html (2012-11-26)




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