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Published online before print October 15, 2002, 10.1101/gr.334302
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Vol. 12, Issue 11, 1739-1748, November 2002

LETTER
Identification of New Herpesvirus Gene Homologs in the Human Genome

Ria Holzerlandt,1 Christine Orengo,2 Paul Kellam,1,4 and M. Mar Albà1,3

1 Wohl Virion Centre, Department of Immunology and Molecular Pathology, and 2 Biomolecular Structure and Modelling Unit, Department of Biochemistry, University College London, London W1T 4JF, United Kingdom

Viruses are intracellular parasites that use many cellular pathways during their replication. Large DNA viruses, such as herpesviruses, have captured a repertoire of cellular genes to block or mimic host immune responses, apoptosis regulation, and cell-cycle control mechanisms. We have conducted a systematic search for all homologs of herpesvirus proteins in the human genome using position-specific scoring matrices representing herpesvirus protein sequence domains, and pair-wise sequence comparisons. The analysis shows that ~13% of the herpesvirus proteins have clear sequence similarity to products of the human genome. Different human herpesviruses vary in their numbers of human homologs, indicating distinct rates of gene acquisition in different lineages. Our analysis has identified new families of herpesvirus/human homologs from viruses including human herpesvirus 5 (human cytomegalovirus; HCMV) and human herpesvirus 8 (Kaposi's sarcoma-associated herpesvirus; KSHV), which may play important roles in host-virus interactions.

3 Present address: Grup de Recerca en Informàtica Biomèdica, Institut Municipal d'Investigació Mèdica, Universitat Pompeu Fabra, 08003 Barcelona, Spain.

4 Corresponding author.

12:1739-1748 ©2002 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/02 $5.00
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