Journal: bioRxiv

Article Title: Circadian regulation of human immunodeficiency virus type 1 replication

doi: 10.1101/2022.11.30.518024

Figure Lengend Snippet: (a) Expression of 90 HIV-1 host proteins was analysed using the CircaDatabase and 43% of genes identified as cycling in humans. (b) BMAL1 regulated genes , REV-ERB regulated genes and RORC regulated genes were compared with host factors known to alter HIV-1 replication . (c) HOMER (Hypergeometric Optimization of Motif EnRichment tool ) was used to analyse −1kb promoter regions of HIV-1 host factors and identified gene promoters encoding E-box motifs or ROR response elements (RORE). (d) Jurkat cells were treated with GSK2981278 (40 μM) or GSK805 (20 μM) for 24 h, cells were lysed, RNA was extracted, and gene expression analysed via qPCR (mean ± S.E.M., n=4, Mann-Whitney test). (e) Gene ontology (GO) cellular components analysis where each node represents an enriched GO term. Related GO terms are connected by lines, where thickness reflects the percentage of overlapping genes. See related Supplementary Figure 6.

Article Snippet: Samples were precleared with Protein A agarose beads (Millipore), immunoprecipitated with anti-REV-ERBα (NRIDI) antibody (Proteintech, 14506-I-AP), anti-BMAL1 antibody (abcam, Ab3350) or rabbit IgG (Sigma, NI01) and precipitated with Protein A agarose beads.

Techniques: Expressing, Gene Expression, MANN-WHITNEY