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Bioinformatics Vol. 19 no. 16 2003
pages 2147-2148
© 2003 Oxford University Press

Applications Note

LDA—a java-based linkage disequilibrium analyzer

Keyue Ding 1,3,§, Kaixin Zhou 2,3,{dagger}, Fuchu He 2,3,* and Yan Shen 1,3,*

1 Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences (CAMS) and Peking Union Medical College (PUMC), National Laboratory of Medical Molecular Biology, Beijing, 100005, People's Republic of China, 2 Beijing Institute of radiation medicine, Beijing 100039, People's Republic of China and 3 Chinese National Human Genome Center, Beijing 100176, People's Republic of China

Received on December 18, 2002 ; revised on April 20, 2003 ; accepted on May 3, 2003

Summary: We describe an integrated java-based program that provides elaborate graphic and plain-text output of pairwise linkage disequilibrium (LD) analysis of single nucleotide polymorphisms genotypic data. It is most suitable for molecular geneticists, who are focusing on LD measures estimation, statistical significance test and extent prediction.

Availability: The software is available at: http://www.chgb.org.cn/lda/lda.htm

Supplementary information: Detailed tutorials, LDA help system and examples are distributed within LDA software. For Macintosh OS X user, the Jre version 1.4 can be downloaded from http://connect.apple.com

Contact: sheny{at}ms.imicams.ac.cn

* To whom correspondence should be addressed.

§ The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.


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