Large-Scale Multilocus Haplotype Estimation over the Web

iHAP Beta is an online tool for multi-locus haplotype estimation based on the Haplo Stats package developed by Jason P. Sinnwell and Daniel J Schaid for R. The iHAP Beta tool performs rapid EM Haplotype estimation on large numbers of loci for large numbers of samples. iHAP Beta accepts a tab-delimited table of unphased multi-locus genotypes, and returns a space-delimited table of estimated haplotypes and their frequencies.

The iHap Beta tool was developed with the support of NIH grant U01AI067068.

Browser for Global Frequency Maps

The Global Frequency Map Browser offers an easy way to view and compare the global HLA allele frequency maps at www.pypop.org/popdata generated by Solberg et al. (2008).

The GFM Browser was developed with the support of NIH grant U01AI067068.

Allele Name Translation We have developed two applications that will translate non-colon-delimited HLA allele names (e.g., A*01010101) to their colon-delimited counterparts (e.g., A*01:01:01:01).

The Allele Name Translation Tool (ANTT) is a downloadable application that translates the allele names in entire datasets, and can be customized to translate allele names between any pair of naming conventions (inlcuding user-defined naming conventions). December 11, 2010 ANTT version 0.5.0 is now available for use.
Update NomenCLature (UNCL) is a web-based implementation of an R-script that translates the allele names in entire datasets. UNCL can be used by anyone with an internet connection and a modern web-browser.

These tools are both described in the following paper:

Mack SJ, Hollenbach JA.
Allele Name Translation Tool and Update NomenCLature: Software tools for the automated translation of HLA allele names between successive nomenclatures.
Tissue Antigens 2010: 75(5):457-461.
DOI 10.1111/j.1399-0039.2010.01477.x

Acknowledgements: The ANTT and UNCL tools were developed with the support of NIH grant U01AI067068.
We thank Glenys Thomson, Erik Sowa, Henry A. Erlich, Katrina R. Eaton, Jorge Oksenberg and Pierre-Antoine Gourraud, Pawinee Kupatawintu, Steven G. E. Marsh, James Robinson and Hazael Maldonado Torres, Mike Varney and the Australian Red Cross Blood Service, Rachel Yedlin, Martin Maiers, and Thomas Smith for testing of the ANTT and UNCL and helpful comments.