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    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver

    Bryan J Matthews, David J Waxman
    Certain types of 3D chromatin loops are easy to predict from existing or easily obtainable 2D information, which benefits gene expression studies in tissues/cells/organisms without extensive pre-existing 3D information.
    1. Microbiology and Infectious Disease

    HIV-1 integrase tetramers are the antiviral target of pyridine-based allosteric integrase inhibitors

    Pratibha C Koneru et al.
    Pyridine-based allosteric inhibitors selectively target HIV-1 integrase tetramers and exhibit enhanced antiviral activity against a dolutegravir resistant mutant virus indicating potential clinical benefits for combining these two classes of inhibitors.
    1. Microbiology and Infectious Disease

    Phenotypic analysis of the unstimulated in vivo HIV CD4 T cell reservoir

    Jason Neidleman et al.
    An in-depth view of the in vivo blood and tissue HIV reservoir is presented highlighting shared phenotypic features between individuals, thus enabling marked ex vivo enrichment of replication-competent latent cells.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Thresholds for post-rebound SHIV control after CCR5 gene-edited autologous hematopoietic cell transplantation

    E Fabian Cardozo-Ojeda et al.
    Mathematical models reveal the conditions required for long-term HIV remission using autologous transplantation of hematopoietic stem cells.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    Functional proteomic atlas of HIV infection in primary human CD4+ T cells

    Adi Naamati et al.
    Identification and characterisation of proteins and processes regulated by HIV in primary human CD4+ T cells using an HIV reporter virus for one-step, antibody-free magnetic selection.
    1. Structural Biology and Molecular Biophysics
    2. Immunology and Inflammation

    Structural basis for germline antibody recognition of HIV-1 immunogens

    Louise Scharf et al.
    Structural and computational analyses of germline antibody/HIV-1 gp120 complexes provide both general principles relevant to the unusual evolution of potent CD4-binding site antibodies and guidelines for structure-based immunogen design.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    HID-1 is required for homotypic fusion of immature secretory granules during maturation

    Wen Du et al.
    HID-1 is a novel player mediating homotypic fusion of immature secretory granules.
    1. Immunology and Inflammation

    High-endothelial cell-derived S1P regulates dendritic cell localization and vascular integrity in the lymph node

    Szandor Simmons et al.
    Impairment of the autocrine S1PR1-Gi signaling on HEVs results in high-endothelial cell apoptosis, reduced CCL21-secretion from HEVs, and cessation of HEV-DC interactions and lymphocyte immigration across the high-endothelial barrier.
    1. Computational and Systems Biology

    Evolutionary dynamics of incubation periods

    Bertrand Ottino-Loffler et al.
    Evolutionary graph theory solves the longstanding puzzle of why diverse infectious diseases and cancers show similar (approximately lognormal) distributions of their incubation periods.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex

    Ursula Schulze-Gahmen et al.
    The crystal structure of the trans-activation response region (TAR) bound to HIV-1 Tat and an elongation factor, together with HDX, SHAPE, SAXS, and integrative modeling, shows how TAR binds this complex in two ways.