{"entity": "researcher", "timestamp": "2026-07-17T09:02:41.027Z", "family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "affiliations": ["Molecular Medicine and Gene Therapy, Lund Stem Cell Centre, Lund University, BMC A12, 221 84 Lund, Sweden.", "Wallenberg Centre for Molecular Medicine, Lund University, BMC A12, 221 84 Lund, Sweden.", "Centre for Neuroscience and Cell Biology, University of Coimbra, Largo Marqu\u00eas do Pombal 3004-517 Coimbra, Portugal."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515"}}, "publications": [{"entity": "publication", "iuid": "7754d49a002a45ea96c366c1cf61c7fb", "links": {"self": {"href": "https://publications.scilifelab.se/publication/7754d49a002a45ea96c366c1cf61c7fb.json"}, "display": {"href": "https://publications.scilifelab.se/publication/7754d49a002a45ea96c366c1cf61c7fb"}}, "title": "A combinatorial transcription factor screening platform for immune cell reprogramming.", "authors": [{"family": "Kurochkin", "given": "Ilia", "initials": "I", "orcid": "0000-0003-3100-0903", "researcher": {"href": "https://publications.scilifelab.se/researcher/215e3195c7a943578f6fc51e367fb3af.json"}}, {"family": "Altman", "given": "Abigail R", "initials": "AR"}, {"family": "Caiado", "given": "In\u00eas", "initials": "I", "orcid": "0000-0001-5015-2705", "researcher": {"href": "https://publications.scilifelab.se/researcher/cef853aaa15943f7ac12a225fc590d84.json"}}, {"family": "P\u00e9rtiga-Cabral", "given": "Diogo", "initials": "D"}, {"family": "Halitzki", "given": "Evelyn", "initials": "E"}, {"family": "Minaeva", "given": "Mariia", "initials": "M"}, {"family": "Zimmermannov\u00e1", "given": "Olga", "initials": "O", "orcid": "0000-0002-5706-8124", "researcher": {"href": "https://publications.scilifelab.se/researcher/19ffa427694b45e4800bf54cc457bd3d.json"}}, {"family": "Henriques-Oliveira", "given": "Lu\u00eds", "initials": "L"}, {"family": "Klein", "given": "Dominik", "initials": "D"}, {"family": "Nair", "given": "Malavika", "initials": "M"}, {"family": "Oliveira", "given": "Daniel", "initials": "D", "orcid": "0000-0003-0622-2934", "researcher": {"href": "https://publications.scilifelab.se/researcher/9a7d211d1bfb41c28c667db817d8a7fb.json"}}, {"family": "Cajal", "given": "Laura Rabanal", "initials": "LR"}, {"family": "Knittel", "given": "Ramin", "initials": "R"}, {"family": "Feick", "given": "Cora", "initials": "C"}, {"family": "Ringn\u00e9r", "given": "Markus", "initials": "M", "orcid": "0000-0001-5469-8940", "researcher": {"href": "https://publications.scilifelab.se/researcher/c0308e6d9c534033b431d2552cfe2af6.json"}}, {"family": "Martin", "given": "Marcel", "initials": "M"}, {"family": "Cirovic", "given": "Branko", "initials": "B"}, {"family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "researcher": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}}, {"family": "Rosa", "given": "Fabio F", "initials": "FF", "orcid": "0000-0002-7714-5852", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d6242040a284b6c9a2ee37f773e9adb.json"}}, {"family": "Sitnicka", "given": "Ewa", "initials": "E"}, {"family": "Theis", "given": "Fabian J", "initials": "FJ", "orcid": "0000-0002-2419-1943", "researcher": {"href": "https://publications.scilifelab.se/researcher/15139e290953411590201d9bb402da1f.json"}}, {"family": "Pereira", "given": "Carlos-Filipe", "initials": "CF", "orcid": "0000-0002-9724-1382", "researcher": {"href": "https://publications.scilifelab.se/researcher/2b298bb485b744fdb87f51ad579d0a79.json"}}], "type": "journal article", "published": "2026-01-14", "journal": {"title": "Cell Syst", "issn": "2639-5460", "pages": "101457", "issn-l": "2405-4712"}, "abstract": "Direct reprogramming of immune cells holds promise for immunotherapy but is constrained by limited knowledge of transcription factor (TF) networks. Here, we developed REPROcode, a combinatorial single-cell screening platform to identify TF combinations for immune cell reprogramming. We first validated REPROcode by inducing type-1 conventional dendritic cells (cDC1s) with multiplexed sets of 9, 22, and 42 factors. With cDC1-enriched TFs, REPROcode enabled identification of optimal TF stoichiometry, fidelity enhancers, and regulators of cDC1 states. We then constructed an arrayed lentiviral library of 408 barcoded immune TFs to explore broader reprogramming capacity. Screening 48 TFs enriched in dendritic cell subsets yielded myeloid and lymphoid phenotypes and enabled the construction of a TF hierarchy map to guide immune reprogramming. Finally, we validated REPROcode's discovery power by inducing natural killer (NK)-like cells. This study deepens our understanding of immune transcriptional control and provides a versatile toolbox for engineering immune cells to advance immunotherapy.", "doi": "10.1016/j.cels.2025.101457", "pmid": "41539305", "labels": {"Bioinformatics (NBIS)": "Collaborative", "Bioinformatics Long-term Support WABI": "Collaborative", "Bioinformatics Support, Infrastructure and Training": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S2405-4712(25)00290-X"}], "notes": [], "created": "2026-01-15T13:40:34.207Z", "modified": "2026-01-20T07:55:14.966Z"}, {"entity": "publication", "iuid": "63c1591154c34b159b1b0df1c7b4f5c5", "links": {"self": {"href": "https://publications.scilifelab.se/publication/63c1591154c34b159b1b0df1c7b4f5c5.json"}, "display": {"href": "https://publications.scilifelab.se/publication/63c1591154c34b159b1b0df1c7b4f5c5"}}, "title": "In vivo dendritic cell reprogramming for cancer immunotherapy.", "authors": [{"family": "Ascic", "given": "Ervin", "initials": "E", "orcid": "0000-0002-3839-0572", "researcher": {"href": "https://publications.scilifelab.se/researcher/e36eb12383264c38ba4c0c945a22abb2.json"}}, {"family": "\u00c5kerstr\u00f6m", "given": "Fritiof", "initials": "F", "orcid": "0009-0005-4071-3771", "researcher": {"href": "https://publications.scilifelab.se/researcher/a59b28a350e949d3860d027744cf119b.json"}}, {"family": "Sreekumar Nair", "given": "Malavika", "initials": "M", "orcid": "0000-0003-1378-7247", "researcher": {"href": "https://publications.scilifelab.se/researcher/253e82ec1a5d4907b6a73cb36c5caaed.json"}}, {"family": "Rosa", "given": "Andr\u00e9", "initials": "A", "orcid": "0000-0002-3179-4160", "researcher": {"href": "https://publications.scilifelab.se/researcher/2d418004376f46909c9a363323ca3195.json"}}, {"family": "Kurochkin", "given": "Ilia", "initials": "I", "orcid": "0000-0003-3100-0903", "researcher": {"href": "https://publications.scilifelab.se/researcher/215e3195c7a943578f6fc51e367fb3af.json"}}, {"family": "Zimmermannova", "given": "Olga", "initials": "O", "orcid": "0000-0002-5706-8124", "researcher": {"href": "https://publications.scilifelab.se/researcher/19ffa427694b45e4800bf54cc457bd3d.json"}}, {"family": "Catena", "given": "Xavier", "initials": "X", "orcid": "0000-0001-7885-2447", "researcher": {"href": "https://publications.scilifelab.se/researcher/26b6a173bb584f12ace6cd153d96df01.json"}}, {"family": "Rotankova", "given": "Nadezhda", "initials": "N"}, {"family": "Veser", "given": "Charlotte", "initials": "C", "orcid": "0009-0001-5807-9407", "researcher": {"href": "https://publications.scilifelab.se/researcher/1689da93344c46f8b6913c25d413fb99.json"}}, {"family": "Rudnik", "given": "Michal", "initials": "M", "orcid": "0000-0002-8716-6729", "researcher": {"href": "https://publications.scilifelab.se/researcher/06eb8cb93ca24cf09d3b918a805265ce.json"}}, {"family": "Ballocci", "given": "Tommaso", "initials": "T", "orcid": "0009-0004-1312-5539", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e8ad4790a1a455685505786da284df9.json"}}, {"family": "Sch\u00e4rer", "given": "Tiffany", "initials": "T", "orcid": "0009-0007-8008-9939", "researcher": {"href": "https://publications.scilifelab.se/researcher/e3bae26f46ed4377bfad8681ccc510c4.json"}}, {"family": "Huang", "given": "Xiaoli", "initials": "X", "orcid": "0009-0004-3853-0020", "researcher": {"href": "https://publications.scilifelab.se/researcher/acc03717478442198880fb44b4217790.json"}}, {"family": "de Rosa Torres", "given": "Maria", "initials": "M", "orcid": "0009-0009-0005-7860", "researcher": {"href": "https://publications.scilifelab.se/researcher/6ad5a93f5c84443cbedafa1801eac586.json"}}, {"family": "Renaud", "given": "Emilie", "initials": "E", "orcid": "0000-0003-4747-1195", "researcher": {"href": "https://publications.scilifelab.se/researcher/f8c6b5f3558e40d0a602b222e8acb89c.json"}}, {"family": "Velasco Santiago", "given": "Marta", "initials": "M", "orcid": "0000-0002-3322-3513", "researcher": {"href": "https://publications.scilifelab.se/researcher/07d7bbbf18cf49c5aeeb8dbd73490582.json"}}, {"family": "Met", "given": "\u00d6zcan", "initials": "\u00d6", "orcid": "0000-0002-3256-7592", "researcher": {"href": "https://publications.scilifelab.se/researcher/b4389dca3bd24be187fec732f2d73367.json"}}, {"family": "Askmyr", "given": "David", "initials": "D", "orcid": "0000-0003-1312-8524", "researcher": {"href": "https://publications.scilifelab.se/researcher/0249a39d931d4f5198312aa3125a105d.json"}}, {"family": "Lindstedt", "given": "Malin", "initials": "M", "orcid": "0000-0001-9136-1087", "researcher": {"href": "https://publications.scilifelab.se/researcher/dc58fdfd7f0a40e2bf2fa21c2d2bea36.json"}}, {"family": "Greiff", "given": "Lennart", "initials": "L", "orcid": "0000-0002-7004-1989", "researcher": {"href": "https://publications.scilifelab.se/researcher/1a6c63fee50b446da172ddbb30f69fb2.json"}}, {"family": "Ligeon", "given": "Laure-Anne", "initials": "LA"}, {"family": "Agarkova", "given": "Irina", "initials": "I", "orcid": "0009-0005-9518-087X", "researcher": {"href": "https://publications.scilifelab.se/researcher/0fa917dc3d36481db03dcb37f037543d.json"}}, {"family": "Svane", "given": "Inge Marie", "initials": "IM", "orcid": "0000-0002-9451-6037", "researcher": {"href": "https://publications.scilifelab.se/researcher/c83b2b9332ba40fd90e1bce8eafa4c40.json"}}, {"family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "researcher": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}}, {"family": "Rosa", "given": "F\u00e1bio F", "initials": "FF", "orcid": "0000-0002-7714-5852", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d6242040a284b6c9a2ee37f773e9adb.json"}}, {"family": "Pereira", "given": "Carlos-Filipe", "initials": "CF", "orcid": "0000-0002-9724-1382", "researcher": {"href": "https://publications.scilifelab.se/researcher/2b298bb485b744fdb87f51ad579d0a79.json"}}], "type": "journal article", "published": "2024-10-18", "journal": {"title": "Science", "issn": "1095-9203", "volume": "386", "issue": "6719", "pages": "eadn9083", "issn-l": "0036-8075"}, "abstract": "Immunotherapy can lead to long-term survival for some cancer patients, yet generalized success has been hampered by insufficient antigen presentation and exclusion of immunogenic cells from the tumor microenvironment. Here, we developed an approach to reprogram tumor cells in vivo by adenoviral delivery of the transcription factors PU.1, IRF8, and BATF3, which enabled them to present antigens as type 1 conventional dendritic cells. Reprogrammed tumor cells remodeled their tumor microenvironment, recruited, and expanded polyclonal cytotoxic T cells; induced tumor regressions; and established long-term systemic immunity in multiple mouse melanoma models. In human tumor spheroids and xenografts, reprogramming to immunogenic dendritic-like cells progressed independently of immunosuppression, which usually limits immunotherapy. Our study paves the way for human clinical trials of in vivo immune cell reprogramming for cancer immunotherapy.", "doi": "10.1126/science.adn9083", "pmid": "39236156", "labels": {"Clinical Genomics Lund": "Service"}, "xrefs": [{"db": "mid", "key": "EMS198548"}, {"db": "pmc", "key": "PMC7616765"}], "notes": [], "created": "2024-11-14T09:37:51.094Z", "modified": "2025-11-17T07:39:29.285Z"}, {"entity": "publication", "iuid": "5bfa787e725744feaa92a89872beb702", "links": {"self": {"href": "https://publications.scilifelab.se/publication/5bfa787e725744feaa92a89872beb702.json"}, "display": {"href": "https://publications.scilifelab.se/publication/5bfa787e725744feaa92a89872beb702"}}, "title": "A cancer immunotherapy modality based on dendritic cell reprogrammingin vivo", "authors": [{"family": "Ascic", "given": "Ervin", "initials": "E", "orcid": "0000-0002-3839-0572", "researcher": {"href": "https://publications.scilifelab.se/researcher/e36eb12383264c38ba4c0c945a22abb2.json"}}, {"family": "\u00c5kerstr\u00f6m", "given": "Fritiof", "initials": "F", "orcid": "0009-0005-4071-3771", "researcher": {"href": "https://publications.scilifelab.se/researcher/a59b28a350e949d3860d027744cf119b.json"}}, {"family": "Sreekumar Nair", "given": "Malavika", "initials": "M", "orcid": "0000-0003-1378-7247", "researcher": {"href": "https://publications.scilifelab.se/researcher/253e82ec1a5d4907b6a73cb36c5caaed.json"}}, {"family": "Rosa", "given": "Andr\u00e9", "initials": "A", "orcid": "0000-0002-3179-4160", "researcher": {"href": "https://publications.scilifelab.se/researcher/2d418004376f46909c9a363323ca3195.json"}}, {"family": "Kurochkin", "given": "Ilia", "initials": "I", "orcid": "0000-0003-3100-0903", "researcher": {"href": "https://publications.scilifelab.se/researcher/215e3195c7a943578f6fc51e367fb3af.json"}}, {"family": "Zimmermannova", "given": "Olga", "initials": "O", "orcid": "0000-0002-5706-8124", "researcher": {"href": "https://publications.scilifelab.se/researcher/19ffa427694b45e4800bf54cc457bd3d.json"}}, {"family": "Catena", "given": "Xavier", "initials": "X", "orcid": "0000-0001-7885-2447", "researcher": {"href": "https://publications.scilifelab.se/researcher/26b6a173bb584f12ace6cd153d96df01.json"}}, {"family": "Rotankova", "given": "Nadezhda", "initials": "N"}, {"family": "Veser", "given": "Charlotte", "initials": "C", "orcid": "0009-0001-5807-9407", "researcher": {"href": "https://publications.scilifelab.se/researcher/1689da93344c46f8b6913c25d413fb99.json"}}, {"family": "Rudnik", "given": "Michal", "initials": "M", "orcid": "0000-0002-8716-6729", "researcher": {"href": "https://publications.scilifelab.se/researcher/06eb8cb93ca24cf09d3b918a805265ce.json"}}, {"family": "Ballocci", "given": "Tommaso", "initials": "T", "orcid": "0009-0004-1312-5539", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e8ad4790a1a455685505786da284df9.json"}}, {"family": "Sch\u00e4rer", "given": "Tiffany", "initials": "T", "orcid": "0009-0007-8008-9939", "researcher": {"href": "https://publications.scilifelab.se/researcher/e3bae26f46ed4377bfad8681ccc510c4.json"}}, {"family": "Huang", "given": "Xiaoli", "initials": "X", "orcid": "0009-0004-3853-0020", "researcher": {"href": "https://publications.scilifelab.se/researcher/acc03717478442198880fb44b4217790.json"}}, {"family": "de Rosa Torres", "given": "Maria", "initials": "M", "orcid": "0009-0009-0005-7860", "researcher": {"href": "https://publications.scilifelab.se/researcher/6ad5a93f5c84443cbedafa1801eac586.json"}}, {"family": "Renaud", "given": "Emilie", "initials": "E", "orcid": "0000-0003-4747-1195", "researcher": {"href": "https://publications.scilifelab.se/researcher/f8c6b5f3558e40d0a602b222e8acb89c.json"}}, {"family": "Velasco Santiago", "given": "Marta", "initials": "M", "orcid": "0000-0002-3322-3513", "researcher": {"href": "https://publications.scilifelab.se/researcher/07d7bbbf18cf49c5aeeb8dbd73490582.json"}}, {"family": "Met", "given": "\u00d6zcan", "initials": "\u00d6", "orcid": "0000-0002-3256-7592", "researcher": {"href": "https://publications.scilifelab.se/researcher/b4389dca3bd24be187fec732f2d73367.json"}}, {"family": "Askmyr", "given": "David", "initials": "D", "orcid": "0000-0003-1312-8524", "researcher": {"href": "https://publications.scilifelab.se/researcher/0249a39d931d4f5198312aa3125a105d.json"}}, {"family": "Lindstedt", "given": "Malin", "initials": "M", "orcid": "0000-0001-9136-1087", "researcher": {"href": "https://publications.scilifelab.se/researcher/dc58fdfd7f0a40e2bf2fa21c2d2bea36.json"}}, {"family": "Greiff", "given": "Lennart", "initials": "L", "orcid": "0000-0002-7004-1989", "researcher": {"href": "https://publications.scilifelab.se/researcher/1a6c63fee50b446da172ddbb30f69fb2.json"}}, {"family": "Ligeon", "given": "Laure Anne", "initials": "LA", "orcid": "0000-0002-4522-5807", "researcher": {"href": "https://publications.scilifelab.se/researcher/1e58523b8a8248e19f1cf541084526f9.json"}}, {"family": "Agarkova", "given": "Irina", "initials": "I", "orcid": "0000-0002-0930-8541", "researcher": {"href": "https://publications.scilifelab.se/researcher/6ec369543f454531b7b7ce556b6546e6.json"}}, {"family": "Svane", "given": "Inge Marie", "initials": "IM", "orcid": "0000-0002-9451-6037", "researcher": {"href": "https://publications.scilifelab.se/researcher/c83b2b9332ba40fd90e1bce8eafa4c40.json"}}, {"family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "researcher": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}}, {"family": "Rosa", "given": "F\u00e1bio F", "initials": "FF", "orcid": "0000-0002-7714-5852", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d6242040a284b6c9a2ee37f773e9adb.json"}}, {"family": "Pereira", "given": "Carlos Filipe", "initials": "CF", "orcid": "0000-0002-9724-1382", "researcher": {"href": "https://publications.scilifelab.se/researcher/2b298bb485b744fdb87f51ad579d0a79.json"}}], "type": "posted-content", "published": "2024-07-11", "journal": {"title": "biorxiv", "issn": null, "issn-l": null, "volume": null, "issue": null, "pages": null}, "abstract": null, "doi": "10.1101/2024.07.08.602356", "pmid": null, "labels": {"Clinical Genomics Lund": "Service", "Clinical Genomics": "Service"}, "xrefs": [], "notes": [], "created": "2024-11-14T09:37:27.611Z", "modified": "2025-12-18T19:27:15.324Z"}, {"entity": "publication", "iuid": "19c569ca1b00487188dc0d381ac353d1", "links": {"self": {"href": "https://publications.scilifelab.se/publication/19c569ca1b00487188dc0d381ac353d1.json"}, "display": {"href": "https://publications.scilifelab.se/publication/19c569ca1b00487188dc0d381ac353d1"}}, "title": "Restoring tumor immunogenicity with dendritic cell reprogramming.", "authors": [{"family": "Zimmermannova", "given": "Olga", "initials": "O", "orcid": "0000-0002-5706-8124", "researcher": {"href": "https://publications.scilifelab.se/researcher/19ffa427694b45e4800bf54cc457bd3d.json"}}, {"family": "Ferreira", "given": "Alexandra G", "initials": "AG", "orcid": "0000-0001-8918-1183", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec9f547e3c394728bbd4c87c63560d0c.json"}}, {"family": "Ascic", "given": "Ervin", "initials": "E", "orcid": "0000-0002-3839-0572", "researcher": {"href": "https://publications.scilifelab.se/researcher/e36eb12383264c38ba4c0c945a22abb2.json"}}, {"family": "Velasco Santiago", "given": "Marta", "initials": "M", "orcid": "0000-0002-3322-3513", "researcher": {"href": "https://publications.scilifelab.se/researcher/07d7bbbf18cf49c5aeeb8dbd73490582.json"}}, {"family": "Kurochkin", "given": "Ilia", "initials": "I", "orcid": "0000-0003-3100-0903", "researcher": {"href": "https://publications.scilifelab.se/researcher/215e3195c7a943578f6fc51e367fb3af.json"}}, {"family": "Hansen", "given": "Morten", "initials": "M", "orcid": "0000-0002-3738-3100", "researcher": {"href": "https://publications.scilifelab.se/researcher/5ce2dba67e654a38b5b16ef9dd3b28de.json"}}, {"family": "Met", "given": "\u00d6zcan", "initials": "\u00d6", "orcid": "0000-0002-3256-7592", "researcher": {"href": "https://publications.scilifelab.se/researcher/b4389dca3bd24be187fec732f2d73367.json"}}, {"family": "Caiado", "given": "In\u00eas", "initials": "I", "orcid": "0000-0001-5015-2705", "researcher": {"href": "https://publications.scilifelab.se/researcher/cef853aaa15943f7ac12a225fc590d84.json"}}, {"family": "Shapiro", "given": "Ilja E", "initials": "IE"}, {"family": "Michaux", "given": "Justine", "initials": "J"}, {"family": "Humbert", "given": "Marion", "initials": "M", "orcid": "0000-0002-1710-1479", "researcher": {"href": "https://publications.scilifelab.se/researcher/42dcf6634f27432992a75385c64223d6.json"}}, {"family": "Soto-Cabrera", "given": "Diego", "initials": "D", "orcid": "0000-0001-8023-0006", "researcher": {"href": "https://publications.scilifelab.se/researcher/cea1e59fd8b14f59b2e04bd0ffeb6e43.json"}}, {"family": "Benonisson", "given": "Hreinn", "initials": "H", "orcid": "0000-0002-2974-2038", "researcher": {"href": "https://publications.scilifelab.se/researcher/7fe1e92d75ff498aaa8561cd847046de.json"}}, {"family": "Silv\u00e9rio-Alves", "given": "Rita", "initials": "R"}, {"family": "Gomez-Jimenez", "given": "David", "initials": "D", "orcid": "0000-0002-9375-5263", "researcher": {"href": "https://publications.scilifelab.se/researcher/d72f24db353b4e18b633d4b62f9bbfe2.json"}}, {"family": "Bernardo", "given": "Carina", "initials": "C", "orcid": "0000-0002-1667-6510", "researcher": {"href": "https://publications.scilifelab.se/researcher/043a6e3eabb541b4bf79b31af3f7348e.json"}}, {"family": "Bauden", "given": "Monika", "initials": "M", "orcid": "0000-0001-6088-9268", "researcher": {"href": "https://publications.scilifelab.se/researcher/1307cb8f1d0e4ffdac195bf6dcc452a4.json"}}, {"family": "Andersson", "given": "Roland", "initials": "R", "orcid": "0000-0003-0778-8630", "researcher": {"href": "https://publications.scilifelab.se/researcher/1401f4778772435db7697d5944591574.json"}}, {"family": "H\u00f6glund", "given": "Mattias", "initials": "M"}, {"family": "Miharada", "given": "Kenichi", "initials": "K", "orcid": "0000-0001-8073-4001", "researcher": {"href": "https://publications.scilifelab.se/researcher/d43ac23d943043249f3d71c59dd829da.json"}}, {"family": "Nakamura", "given": "Yukio", "initials": "Y", "orcid": "0000-0001-6834-4123", "researcher": {"href": "https://publications.scilifelab.se/researcher/3dbd1687907242c69b69b8abe9bdbe8a.json"}}, {"family": "Hugues", "given": "Stephanie", "initials": "S", "orcid": "0000-0002-1031-5909", "researcher": {"href": "https://publications.scilifelab.se/researcher/0c4df4b540f444a396afa1c8d7948bf1.json"}}, {"family": "Greiff", "given": "Lennart", "initials": "L", "orcid": "0000-0002-7004-1989", "researcher": {"href": "https://publications.scilifelab.se/researcher/1a6c63fee50b446da172ddbb30f69fb2.json"}}, {"family": "Lindstedt", "given": "Malin", "initials": "M", "orcid": "0000-0001-9136-1087", "researcher": {"href": "https://publications.scilifelab.se/researcher/dc58fdfd7f0a40e2bf2fa21c2d2bea36.json"}}, {"family": "Rosa", "given": "F\u00e1bio F", "initials": "FF", "orcid": "0000-0002-7714-5852", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d6242040a284b6c9a2ee37f773e9adb.json"}}, {"family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "researcher": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}}, {"family": "Bassani-Sternberg", "given": "Michal", "initials": "M", "orcid": "0000-0002-1934-954X", "researcher": {"href": "https://publications.scilifelab.se/researcher/bf687375d98d482e9f95e810a84b6be0.json"}}, {"family": "Svane", "given": "Inge Marie", "initials": "IM", "orcid": "0000-0002-9451-6037", "researcher": {"href": "https://publications.scilifelab.se/researcher/c83b2b9332ba40fd90e1bce8eafa4c40.json"}}, {"family": "Pereira", "given": "Carlos-Filipe", "initials": "CF", "orcid": "0000-0002-9724-1382", "researcher": {"href": "https://publications.scilifelab.se/researcher/2b298bb485b744fdb87f51ad579d0a79.json"}}], "type": "journal article", "published": "2023-07-14", "journal": {"title": "Sci Immunol", "issn": "2470-9468", "volume": "8", "issue": "85", "pages": "eadd4817", "issn-l": null}, "abstract": "Decreased antigen presentation contributes to the ability of cancer cells to evade the immune system. We used the minimal gene regulatory network of type 1 conventional dendritic cells (cDC1) to reprogram cancer cells into professional antigen-presenting cells (tumor-APCs). Enforced expression of the transcription factors PU.1, IRF8, and BATF3 (PIB) was sufficient to induce the cDC1 phenotype in 36 cell lines derived from human and mouse hematological and solid tumors. Within 9 days of reprogramming, tumor-APCs acquired transcriptional and epigenetic programs associated with cDC1 cells. Reprogramming restored the expression of antigen presentation complexes and costimulatory molecules on the surfaces of tumor cells, allowing the presentation of endogenous tumor antigens on MHC-I and facilitating targeted killing by CD8+ T cells. Functionally, tumor-APCs engulfed and processed proteins and dead cells, secreted inflammatory cytokines, and cross-presented antigens to na\u00efve CD8+ T cells. Human primary tumor cells could also be reprogrammed to increase their capability to present antigen and to activate patient-specific tumor-infiltrating lymphocytes. In addition to acquiring improved antigen presentation, tumor-APCs had impaired tumorigenicity in vitro and in vivo. Injection of in vitro generated melanoma-derived tumor-APCs into subcutaneous melanoma tumors delayed tumor growth and increased survival in mice. Antitumor immunity elicited by tumor-APCs was synergistic with immune checkpoint inhibitors. Our approach serves as a platform for the development of immunotherapies that endow cancer cells with the capability to process and present endogenous tumor antigens.", "doi": "10.1126/sciimmunol.add4817", "pmid": "37418548", "labels": {"Clinical Genomics Lund": "Service", "Clinical Genomics": "Service"}, "xrefs": [{"db": "mid", "key": "EMS180768"}, {"db": "pmc", "key": "PMC7614848"}], "notes": [], "created": "2023-11-21T18:58:43.438Z", "modified": "2024-11-26T09:13:02.951Z"}, {"entity": "publication", "iuid": "c158b2c99c7b4dbb9888b7ef189937f8", "links": {"self": {"href": "https://publications.scilifelab.se/publication/c158b2c99c7b4dbb9888b7ef189937f8.json"}, "display": {"href": "https://publications.scilifelab.se/publication/c158b2c99c7b4dbb9888b7ef189937f8"}}, "title": "Single-cell transcriptional profiling informs efficient reprogramming of human somatic cells to cross-presenting dendritic cells.", "authors": [{"family": "Rosa", "given": "F\u00e1bio F", "initials": "FF", "orcid": "0000-0002-7714-5852", "researcher": {"href": "https://publications.scilifelab.se/researcher/0d6242040a284b6c9a2ee37f773e9adb.json"}}, {"family": "Pires", "given": "Cristiana F", "initials": "CF", "orcid": "0000-0003-2985-6323", "researcher": {"href": "https://publications.scilifelab.se/researcher/9dde1908f0e8470dbfac54d3202e0515.json"}}, {"family": "Kurochkin", "given": "Ilia", "initials": "I", "orcid": "0000-0003-3100-0903", "researcher": {"href": "https://publications.scilifelab.se/researcher/215e3195c7a943578f6fc51e367fb3af.json"}}, {"family": "Halitzki", "given": "Evelyn", "initials": "E"}, {"family": "Zahan", "given": "Tasnim", "initials": "T"}, {"family": "Arh", "given": "Nejc", "initials": "N", "orcid": "0000-0002-9058-5596", "researcher": {"href": "https://publications.scilifelab.se/researcher/427b4cbe491c4479ba3f4dba0543fc5c.json"}}, {"family": "Zimmermannov\u00e1", "given": "Olga", "initials": "O"}, {"family": "Ferreira", "given": "Alexandra G", "initials": "AG", "orcid": "0000-0001-8918-1183", "researcher": {"href": "https://publications.scilifelab.se/researcher/ec9f547e3c394728bbd4c87c63560d0c.json"}}, {"family": "Li", "given": "Hongzhe", "initials": "H"}, {"family": "Karlsson", "given": "Stefan", "initials": "S"}, {"family": "Scheding", "given": "Stefan", "initials": "S"}, {"family": "Pereira", "given": "Carlos-Filipe", "initials": "CF", "orcid": "0000-0002-9724-1382", "researcher": {"href": "https://publications.scilifelab.se/researcher/2b298bb485b744fdb87f51ad579d0a79.json"}}], "type": "journal article", "published": "2022-03-04", "journal": {"title": "Sci Immunol", "issn": "2470-9468", "volume": "7", "issue": "69", "pages": "eabg5539", "issn-l": null}, "abstract": "Type 1 conventional dendritic cells (cDC1s) are rare immune cells critical for the induction of antigen-specific cytotoxic CD8+ T cells, although the genetic program driving human cDC1 specification remains largely unexplored. We previously identified PU.1, IRF8, and BATF3 transcription factors as sufficient to induce cDC1 fate in mouse fibroblasts, but reprogramming of human somatic cells was limited by low efficiency. Here, we investigated single-cell transcriptional dynamics during human cDC1 reprogramming. Human induced cDC1s (hiDC1s) generated from embryonic fibroblasts gradually acquired a global cDC1 transcriptional profile and expressed antigen presentation signatures, whereas other DC subsets were not induced at the single-cell level during the reprogramming process. We extracted gene modules associated with successful reprogramming and identified inflammatory signaling and the cDC1-inducing transcription factor network as key drivers of the process. Combining IFN-\u03b3, IFN-\u03b2, and TNF-\u03b1 with constitutive expression of cDC1-inducing transcription factors led to improvement of reprogramming efficiency by 190-fold. hiDC1s engulfed dead cells, secreted inflammatory cytokines, and performed antigen cross-presentation, key cDC1 functions. This approach allowed efficient hiDC1 generation from adult fibroblasts and mesenchymal stromal cells. Mechanistically, PU.1 showed dominant and independent chromatin targeting at early phases of reprogramming, recruiting IRF8 and BATF3 to shared binding sites. The cooperative binding at open enhancers and promoters led to silencing of fibroblast genes and activation of a cDC1 program. These findings provide mechanistic insights into human cDC1 specification and reprogramming and represent a platform for generating patient-tailored cDC1s, a long-sought DC subset for vaccination strategies in cancer immunotherapy.", "doi": "10.1126/sciimmunol.abg5539", "pmid": "35245086", "labels": {"Clinical Genomics Lund": "Service", "Clinical Genomics": "Service"}, "xrefs": [{"db": "mid", "key": "EMS145501"}, {"db": "pmc", "key": "PMC7613284"}], "notes": [], "created": "2022-11-14T13:49:52.405Z", "modified": "2024-01-07T18:11:14.260Z"}]}