{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"institution":[{"name":"bioRxiv"}],"indexed":{"date-parts":[[2026,10,23]],"date-time":"2026-10-23T20:10:21Z","timestamp":1792786221459,"version":"4.5.0"},"posted":{"date-parts":[[2025,10,16]]},"group-title":"Cancer Biology","reference-count":100,"publisher":"openRxiv","license":[{"start":{"date-parts":[[2025,10,16]],"date-time":"2025-10-16T00:00:00Z","timestamp":1760572800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"award":["U01CA275301"],"award-info":[{"award-number":["U01CA275301"]}],"id":[{"id":"https:\/\/ror.org\/01cwqze88","id-type":"ROR","asserted-by":"publisher"}]},{"award":["R01CA260691"],"award-info":[{"award-number":["R01CA260691"]}],"id":[{"id":"https:\/\/ror.org\/01cwqze88","id-type":"ROR","asserted-by":"publisher"}]},{"award":["R01CA250074"],"award-info":[{"award-number":["R01CA250074"]}],"id":[{"id":"https:\/\/ror.org\/01cwqze88","id-type":"ROR","asserted-by":"publisher"}]},{"award":["U01CA275306"],"award-info":[{"award-number":["U01CA275306"]}],"id":[{"id":"https:\/\/ror.org\/01cwqze88","id-type":"ROR","asserted-by":"publisher"}]},{"award":["5P30AI064518"],"award-info":[{"award-number":["5P30AI064518"]}],"id":[{"id":"https:\/\/ror.org\/01cwqze88","id-type":"ROR","asserted-by":"publisher"}]},{"name":"AIDS Malignancy Consortium"},{"award":["PF-21-084-01-DMC"],"award-info":[{"award-number":["PF-21-084-01-DMC"]}],"id":[{"id":"https:\/\/ror.org\/02e463172","id-type":"ROR","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2025,10,16]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                <jats:p>\n                  Non-Hodgkin Lymphoma (NHL) is the main cancer-related mortality for people living with HIV (PLWH). NHL genetic and molecular classifications have been intensely studied and correlated with clinical outcomes, but critical unanswered questions relevant to malignancy persist. For example, tumors positive for Epstein-Barr virus (EBV) are aggressive and account for 30-50% of HIV-associated NHLs, yet insights on the nature of EBV in NHL pathogenesis or potential therapeutic vulnerabilities have been limited. Here, we examined HIV-associated NHLs stratified by histopathologic classification, cell of origin (COO), molecular subtype, and EBV status using genome-wide spatial transcriptomic analyses. Tumor tissues in EBV\n                  <jats:sup>+<\/jats:sup>\n                  HIV-NHLs displayed enriched expression of mitochondrial respiration and purine metabolism signatures versus EBV\n                  <jats:sup>-<\/jats:sup>\n                  tumors. Immune infiltration of EBV\n                  <jats:sup>+<\/jats:sup>\n                  tumors was limited, and immune and stromal regions of EBV\n                  <jats:sup>+<\/jats:sup>\n                  HIV-NHLs displayed upregulation of the gene for the iron exporter ferroportin (\n                  <jats:italic>SLC40A1<\/jats:italic>\n                  ), indicating immunosuppressive macrophage polarization. An immunosuppressive\n                  <jats:italic>SPP1-CD44<\/jats:italic>\n                  axis and oncogenic\n                  <jats:italic>GAS6-AXL<\/jats:italic>\n                  interaction between tumor and stroma were specifically predicted for EBV\n                  <jats:sup>+<\/jats:sup>\n                  HIV-NHLs with plasmablastic features. Tumor microenvironment (TME) similarities to secondary lymphoid tissues such as inverse\n                  <jats:italic>CXCL12-CXCL13<\/jats:italic>\n                  gradients and evidence of matching between tumor B cell phenotypes and reticular cell signatures were also observed. Finally, we developed a simple yet flexible approach to quantify expression gradients and cell proximity to annotated regions. Thus, this study highlights potential avenues for NHL therapy tailored by EBV status and provides a unique resource to examine tumor-TME interactions in the HIV-immunocompromised context.\n                <\/jats:p>\n                <jats:sec>\n                  <jats:title>Key Points<\/jats:title>\n                  <jats:list list-type=\"bullet\">\n                    <jats:list-item>\n                      <jats:p>Spatial transcriptomic landscapes resolve cell-of-origin- and EBV-associated HIV-NHL heterogeneity including immunosuppressive myeloid responses to EBV+ tumors<\/jats:p>\n                    <\/jats:list-item>\n                    <jats:list-item>\n                      <jats:p>Spatial gradients including CXCL12 and CXCL13 indicate that tumor-stromal interactions mimic lymphoid tissue organization and depend on B cell development stage<\/jats:p>\n                    <\/jats:list-item>\n                    <jats:list-item>\n                      <jats:p>Development of a direction-agnostic method to calculate spatial expression gradients relative to annotated tissue and cell types of interest<\/jats:p>\n                    <\/jats:list-item>\n                    <jats:list-item>\n                      <jats:p>\n                        Predicted pharmacologic vulnerabilities in clinical samples are replicated\n                        <jats:italic>in vitro<\/jats:italic>\n                        and confirmed by small molecule screening\n                      <\/jats:p>\n                    <\/jats:list-item>\n                  <\/jats:list>\n                <\/jats:sec>","DOI":"10.1101\/2025.10.15.682084","type":"posted-content","created":{"date-parts":[[2025,10,16]],"date-time":"2025-10-16T23:10:11Z","timestamp":1760656211000},"source":"Crossref","is-referenced-by-count":3,"title":["HIV-associated non-Hodgkin lymphoma tumor-microenvironment axes differ by EBV status across cellular origins"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9499-8638","authenticated-orcid":false,"given":"Amy","family":"Chadburn","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8449-4359","authenticated-orcid":false,"given":"Maria Montserrat","family":"Aguilar Hernandez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9879-4704","authenticated-orcid":false,"given":"Joanne","family":"Dai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0003-6976-0120","authenticated-orcid":false,"given":"Mitra","family":"Harrison","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9769-3768","authenticated-orcid":false,"given":"Nicolas M.","family":"Reinoso-Vizcaino","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ashley P.","family":"Barry","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0976-5814","authenticated-orcid":false,"given":"Emily","family":"Hocke","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3504-5933","authenticated-orcid":false,"given":"Karen","family":"Abramson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vaibhav","family":"Jain","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5901-6806","authenticated-orcid":false,"given":"Cliburn","family":"Chan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3303-6299","authenticated-orcid":false,"given":"Ethel","family":"Cesarman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2964-1907","authenticated-orcid":false,"given":"Micah 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