MOESM2 of The role of antigen presenting cells in the induction of HIV-1 latency in resting CD4+ T-cells

Additional file 2: Table S1. Comparison of gene expression between latency inducing and non-inducing antigen presenting cell subpopulations using RNA-seq. Using the bioinformatics databases DAVID [80], GeneCards and GeneCodis, cell compartment gene function was determine of each gene. Genes expressed on antigen presenting cell (APC)-surface with the ability to signal to T-cells were shortlisted and their role in HIV-1 infection and DC-T-cell interaction was further determined using PubMed. Genes that were common to the RNA-seq and microarray generated gene lists are in italics and underlined in Table 1. Acronyms used: intracellular adhesion molecules (ICAM), C-type lectin (CLEC), immunoglobulin (Ig), T-cell immune-receptor with Ig and tyrosine-based inhibition motif (ITIM) domains (TIGIT), DNAX accessory molecule-1 (DNAM-1), cytotoxic and regulatory T-cell molecule (CRTAM), junction adhesion molecules (JAMs), blood brain barrier (BBB), leukocyte function antigen (LFA), dendritic cell-specific intercellular adhesion molecule-3-grabbing non-integrin (DC-SIGN), galectin-1 (Gal-1), cysteine-dependent aspartate-directed proteases (caspase), factor for adipocyte differentiation 158 (FAD158), extracellular matrix (ECM), lymph node (LN), nuclear factor-kappa-B (NFkB), vascular endothelial growth factor (VEGF), major histocompatibility complex (MHC), T-cell receptor (TcR), cytotoxic T-lymphocyte-associated protein 4 (CTLA-4), TYRO protein tyrosine kinase-binding protein (TYROBP), interleukin (IL-), nuclear factor of activated T-cells (NFAT), vasoactive intestinal polypeptide receptor 1 (VIPR1), T-cell immunoglobulin mucin-3 (Tim-3), monocyte derived dendritic cells (MDDC), natural killer cells (NK), human T-lymphotropic virus (HTLV-1), NFAT activating protein with immune-receptor tyrosine-based activation motif (NFAM1, CNAIP), cortical thymocyte-like protein (CTH, CTXC), B-cell receptor (BcR), HIV-associated neurocognitive disorder (HAND), antibody dependent cellular cytotoxicity (ADCC), Fc receptor (FcR), scavenger receptor class-A-1 (SRA-1), epidermal growth factor like domain, multiple/protein 5/9 (EGFL5).