Bioinformatics Applications TRANSMIT - Tests association of marker and disease

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TRANSMIT tests for association between genetic marker and disease by examining the transmission of markers from parents to affected offspring. The main features which differ from other similar programs are: It can deal with transmission of multi-locus haplotypes, even if phase is unknown, and parental genotypes may be unknown.

The tests are based on a score vector which is averaged over all possible configuations of parental haplotypes and transmissions consistent with the observed data. Data from unaffected siblings (or siblings whose disease status is unknown) may be used to narrow down the range of possible parental genotypes which need to be considered. The program produces the following asymptotic chi--squared tests:

1. For each haplotype or allele, a test on 1-df for excess transmission of that haplotype.
2. A global test for association on H-1 df, where H is the number of haplotypes for which transmission data are available.

There is a known bug in the analysis of chromosome X data.

A graphical interface to Transmit is now available in GLUE.

Detailed description of transmit