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We hypothesized that transcription levels of<jats:italic>EBNA1<\/jats:italic>, the gene essential for EBV persistence within an infected cell, are similar in BL cell lines.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>To compare quantitative gene transcription in the BL cell lines Namalwa, Raji, Akata, Jijoye, and P3HR1, we developed an oligonucleotide microarray chip, including 17 housekeeping genes, six latent EBV genes (<jats:italic>EBNA1<\/jats:italic>,<jats:italic>EBNA2<\/jats:italic>,<jats:italic>EBNA3A<\/jats:italic>,<jats:italic>EBNA3C<\/jats:italic>,<jats:italic>LMP1<\/jats:italic>,<jats:italic>LMP2<\/jats:italic>), and four lytic EBV genes (<jats:italic>BZLF1<\/jats:italic>,<jats:italic>BXLF2<\/jats:italic>,<jats:italic>BKRF2<\/jats:italic>,<jats:italic>BZLF2<\/jats:italic>), and used the cell line B95.8 as a reference for EBV gene transcription. Quantitative polymerase chain reaction assays were used to validate microarray results. We found that transcription levels of housekeeping genes differed considerably among BL cell lines. Using a selection of housekeeping genes with similar quantitative transcription in the tested cell lines to normalize EBV gene transcription data, we showed that transcription levels of<jats:italic>EBNA1<\/jats:italic>were quite similar in very different BL cell lines, in contrast to transcription levels of other EBV genes. As demonstrated with Akata cells, the chip allowed us to accurately measure EBV gene transcription changes triggered by treatment interventions.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusion<\/jats:title><jats:p>Our results suggest uniform<jats:italic>EBNA1<\/jats:italic>transcription levels in BL and that microarray profiling can reveal novel insights on quantitative EBV gene transcription and its impact on lymphocyte biology.<\/jats:p><\/jats:sec>","DOI":"10.1186\/1743-422x-3-43","type":"journal-article","created":{"date-parts":[[2006,6,6]],"date-time":"2006-06-06T18:31:10Z","timestamp":1149618670000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":33,"title":["Quantitative profiling of housekeeping and Epstein-Barr virus gene transcription in Burkitt lymphoma cell lines using an oligonucleotide microarray"],"prefix":"10.1186","volume":"3","author":[{"given":"Michele","family":"Bernasconi","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christoph","family":"Berger","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"J\u00fcrg A","family":"Sigrist","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Athos","family":"Bonanomi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jens","family":"Sobek","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Felix K","family":"Niggli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Nadal","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2006,6,6]]},"reference":[{"issue":"7","key":"150_CR1","doi-asserted-by":"publisher","first-page":"481","DOI":"10.1056\/NEJM200008173430707","volume":"343","author":"JI Cohen","year":"2000","unstructured":"Cohen JI: Epstein-Barr virus infection. 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