RT Journal
A1 Holzerlandt, Ria
A1 Orengo, Christine
A1 Kellam, Paul
A1 Albà, M. Mar
T1 Identification of New Herpesvirus Gene Homologs in the Human Genome
JF Genome Research 
JO Genome Research 
YR 2002 
FD November 01 
VO 12 
IS 11 
SP 1739 
OP 1748 
DO 10.1101/gr.334302 
UL http://genome.cshlp.org/content/12/11/1739.abstract 
AB 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.