Research
MicroRNA miR-146a and further oncogenesis-related cellular microRNAs are dysregulated in HTLV-1-transformed T lymphocytes
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* Corresponding author: Klemens Pichler klemens.pichler@viro.med.uni-erlangen.de
Institute of Clinical and Molecular Virology, University Erlangen-Nuremberg, Schlossgarten 4, Erlangen, Germany
Retrovirology 2008, 5:100 doi:10.1186/1742-4690-5-100
Published: 12 November 2008Additional files
Additional file 1:
Correlation analysis of provirus copy number and microRNA expression levels. Provirus copy number (PL) in seven cell lines (Eva, Xpos, StEd, PaBe, JuaW, C91-PL, MT-2) was determined as described in materials and methods. Correlations between PL and microRNA expression levels were then evaluated using the Spearman-Rho test. Resulting correlation coefficients, P values and the number of analyzed samples are given in the table.
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Additional file 2:
Primers and probes. Supplementary table S1 lists primers used for cloning miR-146a promoter and its NF-κB deletion mutants. Furthermore, primers and probes used in RT-PCR and qPCR analyses are given unless obtained from commercial sources.
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Additional file 3:
Quantification and comparison of U44 expression in HTLV-1-/Tax-positive and -negative cells. In addition to RNU6B (U6) transcripts, RNU44 (U44) was quantified in the samples indicated. Quantification was performed as described in materials and methods. To assess variation of expression values, i.e., the usefulness of U6 and U44 as normalization controls, the mean and coefficient of variation (CV) was determined. The CV was calculated as standard deviation devided by the mean. Smaller CV values indicate higher overall expression stability.
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Additional file 4:
MicroRNA expression normalized to U6, U44 or U6/U44 geometric mean. MicroRNA expression was normalized to both U6, U44 and their geometric mean in the following samples: Abgho, Nilu, Eva, Xpos, ATL-3, JuaW, StEd, Champ, PaBe, HuT-102, C91-PL, MT-2, CEM, PBMC and CD4+ T cells. Afterwards, differences in expression levels in HTLV-/Tax-positive vs. -negative cells was evaluated using the Mann-Whitney test. Note that the sample set is not identical to the one in Figure 2 and, therefore, results may differ.
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