{"entity": "researcher", "timestamp": "2026-06-17T03:09:52.057Z", "family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "affiliations": ["Department of Medicine Huddinge Center for Infectious Medicine Karolinska Institutet Karolinska University Hospital Stockholm Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d"}}, "publications": [{"entity": "publication", "iuid": "853fcd087cf147129106a699a63b80ef", "links": {"self": {"href": "https://publications.scilifelab.se/publication/853fcd087cf147129106a699a63b80ef.json"}, "display": {"href": "https://publications.scilifelab.se/publication/853fcd087cf147129106a699a63b80ef"}}, "title": "Tumor-infiltrating immature innate lymphoid cells in colorectal cancer are biased toward ILC1/tissue-resident NK cell differentiation.", "authors": [{"family": "Marchalot", "given": "Anne", "initials": "A", "orcid": "0000-0002-3042-8206", "researcher": {"href": "https://publications.scilifelab.se/researcher/95b674db5dc349eaa4438563f2256290.json"}}, {"family": "Ljunggren", "given": "Malin", "initials": "M"}, {"family": "Stamper", "given": "Christopher", "initials": "C"}, {"family": "Weigel", "given": "Whitney", "initials": "W"}, {"family": "Tibbitt", "given": "Christopher Andrew", "initials": "CA"}, {"family": "Meininger", "given": "Isabel", "initials": "I"}, {"family": "Pandey", "given": "Ram Vinay", "initials": "RV"}, {"family": "Franklin", "given": "Miriam", "initials": "M", "orcid": "0000-0002-9402-9976", "researcher": {"href": "https://publications.scilifelab.se/researcher/b64100c086a644b8b1b7dd56f4f09da5.json"}}, {"family": "Bassett", "given": "John Washington", "initials": "JW"}, {"family": "Wirth", "given": "Lorenz", "initials": "L"}, {"family": "Colorectal Study Group", "given": "", "initials": ""}, {"family": "Lindforss", "given": "Ulrik", "initials": "U"}, {"family": "Jansson-Palmer", "given": "Gabriella", "initials": "G"}, {"family": "Nordenvall", "given": "Caroline", "initials": "C"}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}], "type": "journal article", "published": "2026-03-27", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "17", "issue": "1", "issn-l": "2041-1723"}, "abstract": "Peritoneal metastases (PM) occur in 10% of patients with colorectal cancer (CRC) and are linked to poor outcomes. Although dysregulated innate lymphoid cells (ILC) have been described in CRC, their function in CRC-PM remains unclear. Here, we analyze tumor samples from CRC and CRC-PM patients using single-cell RNA sequencing (11 patients), flow cytometry (8 patients) and differentiation assays (24 patients). Healthy colon, primary CRC and CRC-PM tumors are infiltrated by heterogeneous populations of ILC3, ILC2, ILC1, tissue resident (tr)NK cells and conventional (c)NK cells. Compared to healthy colons, primary CRC and CRC-PM tumors are depleted of ILC3 but enriched for ILC1, trNK cells and cNK cells. CRC and CRC-PM tumors harbor two immature ILC populations, early NK and na\u00efve (n)ILC, with nILCs being transcriptionally skewed toward ILC1 and trNK cells. Indeed, co-culture of isolated nILCs with OP9-DL1 cells induces intratumoral nILC differentiation into ILC1/trNK-like cells. These findings help understand the immune pathogenesis of CRC and CRC-PM and provide insights for future ILC1 and NK cell-based therapies.", "doi": "10.1038/s41467-026-71085-9", "pmid": "41896575", "labels": {"NGI Short read": "Service", "NGI Stockholm (Genomics Production)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC13035902"}, {"db": "pii", "key": "10.1038/s41467-026-71085-9"}], "notes": [], "created": "2026-04-10T12:22:32.013Z", "modified": "2026-04-10T12:22:32.241Z"}, {"entity": "publication", "iuid": "09be553050f342ae982025de836a0afd", "links": {"self": {"href": "https://publications.scilifelab.se/publication/09be553050f342ae982025de836a0afd.json"}, "display": {"href": "https://publications.scilifelab.se/publication/09be553050f342ae982025de836a0afd"}}, "title": "Tissue origin and virus specificity shape human CD8+ T cell cytotoxicity.", "authors": [{"family": "Niessl", "given": "Julia", "initials": "J", "orcid": "0000-0001-8852-1924", "researcher": {"href": "https://publications.scilifelab.se/researcher/710f1dd1e63e45d39a11d52eb21a5e88.json"}}, {"family": "M\u00fcller", "given": "Thomas R", "initials": "TR", "orcid": "0000-0001-5331-5522", "researcher": {"href": "https://publications.scilifelab.se/researcher/b411684ce1eb401fb8917def9c2a75a0.json"}}, {"family": "Constantz", "given": "Christian", "initials": "C"}, {"family": "Cai", "given": "Curtis", "initials": "C", "orcid": "0000-0002-3490-4361", "researcher": {"href": "https://publications.scilifelab.se/researcher/0ea25e71e96246d89437270a12cc9e47.json"}}, {"family": "Nils\u00e9n", "given": "Vera", "initials": "V"}, {"family": "Rivera Ballesteros", "given": "Olga", "initials": "O", "orcid": "0000-0001-6949-4270", "researcher": {"href": "https://publications.scilifelab.se/researcher/8b48f38b946d4fbc9d687da130f2e661.json"}}, {"family": "Adamo", "given": "Sarah", "initials": "S", "orcid": "0000-0002-6161-3156", "researcher": {"href": "https://publications.scilifelab.se/researcher/dbdfb6f121014c29a448232b60f32585.json"}}, {"family": "Kammann", "given": "Tobias", "initials": "T", "orcid": "0000-0002-8433-036X", "researcher": {"href": "https://publications.scilifelab.se/researcher/ead9a21a35e34fd092774ae13a211255.json"}}, {"family": "Mouchtaridi", "given": "Elli", "initials": "E"}, {"family": "Gao", "given": "Yu", "initials": "Y"}, {"family": "Akhirunnesa", "given": "Mily", "initials": "M", "orcid": "0000-0003-3136-9284", "researcher": {"href": "https://publications.scilifelab.se/researcher/fbce6754eaea4ebfa2437f9572f180ae.json"}}, {"family": "Raineri", "given": "Elisa J M", "initials": "EJM", "orcid": "0000-0002-5468-276X", "researcher": {"href": "https://publications.scilifelab.se/researcher/6fe9b94230d5498f8550c7ad897254e9.json"}}, {"family": "Weigel", "given": "Whitney", "initials": "W"}, {"family": "Kokkinou", "given": "Efthymia", "initials": "E"}, {"family": "Stamper", "given": "Christopher", "initials": "C", "orcid": "0000-0002-5568-8880", "researcher": {"href": "https://publications.scilifelab.se/researcher/19710b0b30ca436ca1d29bc89a376ddc.json"}}, {"family": "Marchalot", "given": "Anne", "initials": "A", "orcid": "0000-0002-3042-8206", "researcher": {"href": "https://publications.scilifelab.se/researcher/95b674db5dc349eaa4438563f2256290.json"}}, {"family": "Bassett", "given": "John", "initials": "J", "orcid": "0009-0002-5785-5088", "researcher": {"href": "https://publications.scilifelab.se/researcher/5cc9841bc436476492288239d3bb0fff.json"}}, {"family": "Ferreira", "given": "Sabrina", "initials": "S"}, {"family": "Rodahl", "given": "Inga", "initials": "I"}, {"family": "Wild", "given": "Nicole", "initials": "N", "orcid": "0000-0002-4009-473X", "researcher": {"href": "https://publications.scilifelab.se/researcher/17325f3df80248f7a1b4985094a86d7c.json"}}, {"family": "Stellaccio", "given": "Teresa", "initials": "T", "orcid": "0009-0002-5224-0893", "researcher": {"href": "https://publications.scilifelab.se/researcher/ddfda0141dd948a6b1cd6289b2c5e7f2.json"}}, {"family": "Brownlie", "given": "Demi", "initials": "D", "orcid": "0000-0001-5932-6425", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e879a6ef8ff45bea049986707480e99.json"}}, {"family": "Ringqvist", "given": "Emma", "initials": "E", "orcid": "0000-0001-6303-6076", "researcher": {"href": "https://publications.scilifelab.se/researcher/cfad17442063471cb570d5be1c4dbc48.json"}}, {"family": "Flodstr\u00f6m-Tullberg", "given": "Malin", "initials": "M", "orcid": "0000-0003-2685-2052", "researcher": {"href": "https://publications.scilifelab.se/researcher/bb6d04afbe8141c2b9297854de64dab8.json"}}, {"family": "Llewellyn-Lacey", "given": "Sian", "initials": "S", "orcid": "0000-0002-4703-0413", "researcher": {"href": "https://publications.scilifelab.se/researcher/1a952db761ab4e66b251f69c00d14990.json"}}, {"family": "Tibbitt", "given": "Chris", "initials": "C", "orcid": "0000-0002-7730-7700", "researcher": {"href": "https://publications.scilifelab.se/researcher/6d8a6804b0be4aba9a9256dd2df71656.json"}}, {"family": "Hammer", "given": "Quirin", "initials": "Q", "orcid": "0000-0003-2968-6061", "researcher": {"href": "https://publications.scilifelab.se/researcher/3b6b2e5256c8401f83c3f89b5c5bb92f.json"}}, {"family": "Micha\u00eblsson", "given": "Jakob", "initials": "J"}, {"family": "Price", "given": "David A", "initials": "DA", "orcid": "0000-0001-9416-2737", "researcher": {"href": "https://publications.scilifelab.se/researcher/2dd5567af7984233b164e6906d4daaca.json"}}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}, {"family": "Marquardt", "given": "Nicole", "initials": "N", "orcid": "0000-0003-3186-4752", "researcher": {"href": "https://publications.scilifelab.se/researcher/b87ccad53d354bdd80af490dc8a0c019.json"}}, {"family": "Sandberg", "given": "Johan K", "initials": "JK", "orcid": "0000-0002-6275-0750", "researcher": {"href": "https://publications.scilifelab.se/researcher/7468c415a46645a3a4c3d28badcff954.json"}}, {"family": "Sekine", "given": "Takuya", "initials": "T", "orcid": "0000-0001-7649-0593", "researcher": {"href": "https://publications.scilifelab.se/researcher/42434c4f0f504dcd82e5830a727d5a04.json"}}, {"family": "Jorns", "given": "Carl", "initials": "C", "orcid": "0000-0001-7727-8113", "researcher": {"href": "https://publications.scilifelab.se/researcher/59d387bd893f45bdb3663a0ef3aae88a.json"}}, {"family": "Buggert", "given": "Marcus", "initials": "M", "orcid": "0000-0003-0633-1719", "researcher": {"href": "https://publications.scilifelab.se/researcher/9a54e4b5136642eeafa77ac5118a0c81.json"}}], "type": "journal article", "published": "2025-07-18", "journal": {"title": "Sci Immunol", "issn": "2470-9468", "volume": "10", "issue": "109", "pages": "eadq4881", "issn-l": null}, "abstract": "CD8+ T cells are classically defined by cytotoxic activity, but it has remained unclear whether cytotoxic programs are compartmentalized across tissues and memory subsets. Here, we established a human organ donor cohort and found that expression of conventional cytotoxic molecules-granulysin, perforin, and granzyme B-was most prominent among circulating memory CD8+ T cells and decreased progressively with tissue residency, inversely mirroring the expression of CD69 and CD103. Other cytotoxic molecules, including granzymes A, H, K, and M, were variably expressed across tissues, and memory CD8+ T cells targeting persistent viruses expressed multiple granzymes coordinately. In an in vitro tonsil system, transforming growth factor-\u03b2 induced discordant regulation of cytotoxic molecules and CD103. Combined with interleukin-15, this circuitry modulated proliferation and the acquisition of redirected killing activity via perforin and granzyme B. Our findings suggest that human memory CD8+ T cell cytotoxicity is intricately regulated by environmental cues reflecting tissue location and antigen specificity.", "doi": "10.1126/sciimmunol.adq4881", "pmid": "40680144", "labels": {"Affinity Proteomics Stockholm": "Service"}, "xrefs": [], "notes": [], "created": "2025-10-13T13:28:04.756Z", "modified": "2025-11-25T21:31:43.911Z"}, {"entity": "publication", "iuid": "789627b839e9496699453ecee2d8b1c1", "links": {"self": {"href": "https://publications.scilifelab.se/publication/789627b839e9496699453ecee2d8b1c1.json"}, "display": {"href": "https://publications.scilifelab.se/publication/789627b839e9496699453ecee2d8b1c1"}}, "title": "MAIT cell heterogeneity across paired human tissues reveals specialization of distinct regulatory and enhanced effector profiles.", "authors": [{"family": "Kammann", "given": "Tobias", "initials": "T", "orcid": "0000-0002-8433-036X", "researcher": {"href": "https://publications.scilifelab.se/researcher/ead9a21a35e34fd092774ae13a211255.json"}}, {"family": "Cai", "given": "Curtis", "initials": "C", "orcid": "0000-0002-3490-4361", "researcher": {"href": "https://publications.scilifelab.se/researcher/0ea25e71e96246d89437270a12cc9e47.json"}}, {"family": "Sekine", "given": "Takuya", "initials": "T", "orcid": "0000-0001-7649-0593", "researcher": {"href": "https://publications.scilifelab.se/researcher/42434c4f0f504dcd82e5830a727d5a04.json"}}, {"family": "Mouchtaridi", "given": "Elli", "initials": "E"}, {"family": "Boulouis", "given": "Caroline", "initials": "C"}, {"family": "Nils\u00e9n", "given": "Vera", "initials": "V"}, {"family": "Ballesteros", "given": "Olga Rivera", "initials": "OR", "orcid": "0000-0001-6949-4270", "researcher": {"href": "https://publications.scilifelab.se/researcher/8b48f38b946d4fbc9d687da130f2e661.json"}}, {"family": "M\u00fcller", "given": "Thomas R", "initials": "TR", "orcid": "0000-0001-5331-5522", "researcher": {"href": "https://publications.scilifelab.se/researcher/b411684ce1eb401fb8917def9c2a75a0.json"}}, {"family": "Gao", "given": "Yu", "initials": "Y"}, {"family": "Raineri", "given": "Elisa J M", "initials": "EJM", "orcid": "0000-0002-5468-276X", "researcher": {"href": "https://publications.scilifelab.se/researcher/6fe9b94230d5498f8550c7ad897254e9.json"}}, {"family": "Mily", "given": "Akhirunnesa", "initials": "A", "orcid": "0000-0003-3136-9284", "researcher": {"href": "https://publications.scilifelab.se/researcher/fbce6754eaea4ebfa2437f9572f180ae.json"}}, {"family": "Adamo", "given": "Sarah", "initials": "S", "orcid": "0000-0002-6161-3156", "researcher": {"href": "https://publications.scilifelab.se/researcher/dbdfb6f121014c29a448232b60f32585.json"}}, {"family": "Constantz", "given": "Christian", "initials": "C"}, {"family": "Niessl", "given": "Julia", "initials": "J", "orcid": "0000-0001-8852-1924", "researcher": {"href": "https://publications.scilifelab.se/researcher/710f1dd1e63e45d39a11d52eb21a5e88.json"}}, {"family": "Weigel", "given": "Whitney", "initials": "W"}, {"family": "Kokkinou", "given": "Efthymia", "initials": "E"}, {"family": "Stamper", "given": "Christopher", "initials": "C", "orcid": "0000-0002-5568-8880", "researcher": {"href": "https://publications.scilifelab.se/researcher/19710b0b30ca436ca1d29bc89a376ddc.json"}}, {"family": "Marchalot", "given": "Anne", "initials": "A"}, {"family": "Bassett", "given": "John", "initials": "J"}, {"family": "Ferreira", "given": "Sabrina", "initials": "S"}, {"family": "R\u00f8dahl", "given": "Inga", "initials": "I"}, {"family": "Wild", "given": "Nicole", "initials": "N", "orcid": "0000-0002-4009-473X", "researcher": {"href": "https://publications.scilifelab.se/researcher/17325f3df80248f7a1b4985094a86d7c.json"}}, {"family": "Brownlie", "given": "Demi", "initials": "D", "orcid": "0000-0001-5932-6425", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e879a6ef8ff45bea049986707480e99.json"}}, {"family": "Tibbitt", "given": "Chris", "initials": "C", "orcid": "0000-0002-7730-7700", "researcher": {"href": "https://publications.scilifelab.se/researcher/6d8a6804b0be4aba9a9256dd2df71656.json"}}, {"family": "Mak", "given": "Jeffrey Y W", "initials": "JYW", "orcid": "0000-0002-8011-4539", "researcher": {"href": "https://publications.scilifelab.se/researcher/a3b541f7d3b043989ab612d5f2678ee0.json"}}, {"family": "Fairlie", "given": "David P", "initials": "DP", "orcid": "0000-0002-7856-8566", "researcher": {"href": "https://publications.scilifelab.se/researcher/35fe17dcf6bb494f9c95e2dfab5ada19.json"}}, {"family": "Leeansyah", "given": "Edwin", "initials": "E", "orcid": "0000-0003-0505-4967", "researcher": {"href": "https://publications.scilifelab.se/researcher/51b242a952354b35a15be094a7436ac2.json"}}, {"family": "Michaelsson", "given": "Jakob", "initials": "J"}, {"family": "Marquardt", "given": "Nicole", "initials": "N", "orcid": "0000-0003-3186-4752", "researcher": {"href": "https://publications.scilifelab.se/researcher/b87ccad53d354bdd80af490dc8a0c019.json"}}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}, {"family": "Jorns", "given": "Carl", "initials": "C", "orcid": "0000-0001-7727-8113", "researcher": {"href": "https://publications.scilifelab.se/researcher/59d387bd893f45bdb3663a0ef3aae88a.json"}}, {"family": "Buggert", "given": "Marcus", "initials": "M", "orcid": "0000-0003-0633-1719", "researcher": {"href": "https://publications.scilifelab.se/researcher/9a54e4b5136642eeafa77ac5118a0c81.json"}}, {"family": "Sandberg", "given": "Johan K", "initials": "JK", "orcid": "0000-0002-6275-0750", "researcher": {"href": "https://publications.scilifelab.se/researcher/7468c415a46645a3a4c3d28badcff954.json"}}], "type": "journal article", "published": "2024-09-06", "journal": {"title": "Sci Immunol", "issn": "2470-9468", "volume": "9", "issue": "99", "pages": "eadn2362", "issn-l": null}, "abstract": "Mucosal-associated invariant T (MAIT) cells are unconventional T cells that recognize microbial riboflavin pathway metabolites presented by evolutionarily conserved MR1 molecules. We explored the human MAIT cell compartment across organ donor-matched blood, barrier, and lymphoid tissues. MAIT cell population size was donor dependent with distinct tissue compartmentalization patterns and adaptations: Intestinal CD103+ resident MAIT cells presented an immunoregulatory CD39highCD27low profile, whereas MAIT cells expressing NCAM1/CD56 dominated in the liver and exhibited enhanced effector capacity with elevated response magnitude and polyfunctionality. Both intestinal CD39high and hepatic CD56+ adaptations accumulated with donor age. CD56+ MAIT cells displayed limited T cell receptor-repertoire breadth, elevated MR1 binding, and a transcriptional profile skewed toward innate activation pathways. Furthermore, CD56 was dynamically up-regulated to a persistent steady-state equilibrium after exposure to antigen or IL-7. In summary, we demonstrate functional heterogeneity and tissue site adaptation in resident MAIT cells across human barrier tissues with distinct regulatory and effector signatures.", "doi": "10.1126/sciimmunol.adn2362", "pmid": "39241054", "labels": {"Affinity Proteomics Stockholm": "Service"}, "xrefs": [], "notes": [], "created": "2024-11-14T22:47:27.625Z", "modified": "2024-11-14T22:47:29.014Z"}, {"entity": "publication", "iuid": "8873019f51964728adde8137f35bdc84", "links": {"self": {"href": "https://publications.scilifelab.se/publication/8873019f51964728adde8137f35bdc84.json"}, "display": {"href": "https://publications.scilifelab.se/publication/8873019f51964728adde8137f35bdc84"}}, "title": "Single-cell RNA sequencing of cells from fresh or frozen tissue reveals a signature of freezing marked by heightened stress and activation.", "authors": [{"family": "Stamper", "given": "Christopher T", "initials": "CT", "orcid": "0000-0002-5568-8880", "researcher": {"href": "https://publications.scilifelab.se/researcher/19710b0b30ca436ca1d29bc89a376ddc.json"}}, {"family": "Marchalot", "given": "Anne", "initials": "A"}, {"family": "Tibbitt", "given": "Christopher A", "initials": "CA"}, {"family": "Weigel", "given": "Whitney", "initials": "W"}, {"family": "Jangard", "given": "Mattias", "initials": "M"}, {"family": "Theorell", "given": "Jakob", "initials": "J"}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}], "type": "journal article", "published": "2024-04-00", "journal": {"title": "Eur. J. Immunol.", "issn": "1521-4141", "volume": "54", "issue": "4", "pages": "e2350660", "issn-l": "0014-2980"}, "abstract": "Thawing of viably frozen human tissue T cells, ILCs, and NK cells and subsequent single-cell RNA sequencing reveals that recovery of cellular subclusters is variably impacted. While freeze-thawing does not alter the transcriptional profiles of cells, it upregulates genes and gene pathways associated with stress and activation.", "doi": "10.1002/eji.202350660", "pmid": "38304946", "labels": {"Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2024-11-25T10:10:09.548Z", "modified": "2025-02-28T14:10:05.350Z"}, {"entity": "publication", "iuid": "72c0bcbc6ed645e4a14dd4aa365fac7e", "links": {"self": {"href": "https://publications.scilifelab.se/publication/72c0bcbc6ed645e4a14dd4aa365fac7e.json"}, "display": {"href": "https://publications.scilifelab.se/publication/72c0bcbc6ed645e4a14dd4aa365fac7e"}}, "title": "Intestinal stroma guides monocyte differentiation to macrophages through GM-CSF.", "authors": [{"family": "Kvedaraite", "given": "Egle", "initials": "E", "orcid": "0000-0001-5308-092X", "researcher": {"href": "https://publications.scilifelab.se/researcher/78502177bad3453a8d3ed96d4ad334ac.json"}}, {"family": "Lourda", "given": "Magda", "initials": "M", "orcid": "0000-0003-3155-1123", "researcher": {"href": "https://publications.scilifelab.se/researcher/64d9a0bc6b5d4039af5bc308a97eaad6.json"}}, {"family": "Mouratidou", "given": "Natalia", "initials": "N"}, {"family": "D\u00fcking", "given": "Tim", "initials": "T", "orcid": "0000-0002-4347-7648", "researcher": {"href": "https://publications.scilifelab.se/researcher/6acbe8ae50d94479a37dda5f37336422.json"}}, {"family": "Padhi", "given": "Avinash", "initials": "A"}, {"family": "Moll", "given": "Kirsten", "initials": "K"}, {"family": "Czarnewski", "given": "Paulo", "initials": "P"}, {"family": "Sinha", "given": "Indranil", "initials": "I", "orcid": "0000-0002-2513-5927", "researcher": {"href": "https://publications.scilifelab.se/researcher/970cda1bb71d4ae1b36cc5628023f7d4.json"}}, {"family": "Xagoraris", "given": "Ioanna", "initials": "I"}, {"family": "Kokkinou", "given": "Efthymia", "initials": "E"}, {"family": "Damdimopoulos", "given": "Anastasios", "initials": "A"}, {"family": "Weigel", "given": "Whitney", "initials": "W"}, {"family": "Hartwig", "given": "Olga", "initials": "O", "orcid": "0000-0001-5016-5960", "researcher": {"href": "https://publications.scilifelab.se/researcher/1a50cebd9533432e80d2fd284c9137eb.json"}}, {"family": "Santos", "given": "Telma E", "initials": "TE"}, {"family": "Soini", "given": "Tea", "initials": "T"}, {"family": "Van Acker", "given": "Aline", "initials": "A"}, {"family": "Rahkonen", "given": "Nelly", "initials": "N"}, {"family": "Flodstr\u00f6m Tullberg", "given": "Malin", "initials": "M", "orcid": "0000-0003-2685-2052", "researcher": {"href": "https://publications.scilifelab.se/researcher/bb6d04afbe8141c2b9297854de64dab8.json"}}, {"family": "Ringqvist", "given": "Emma", "initials": "E"}, {"family": "Buggert", "given": "Marcus", "initials": "M", "orcid": "0000-0003-0633-1719", "researcher": {"href": "https://publications.scilifelab.se/researcher/9a54e4b5136642eeafa77ac5118a0c81.json"}}, {"family": "Jorns", "given": "Carl", "initials": "C", "orcid": "0000-0001-7727-8113", "researcher": {"href": "https://publications.scilifelab.se/researcher/59d387bd893f45bdb3663a0ef3aae88a.json"}}, {"family": "Lindforss", "given": "Ulrik", "initials": "U"}, {"family": "Nordenvall", "given": "Caroline", "initials": "C"}, {"family": "Stamper", "given": "Christopher T", "initials": "CT"}, {"family": "Unnersj\u00f6-Jess", "given": "David", "initials": "D", "orcid": "0000-0002-4162-0973", "researcher": {"href": "https://publications.scilifelab.se/researcher/9d475fc7a52a46e4abe984191c5b5b5f.json"}}, {"family": "Akber", "given": "Mira", "initials": "M"}, {"family": "Nadisauskaite", "given": "Ruta", "initials": "R"}, {"family": "Jansson", "given": "Jessica", "initials": "J"}, {"family": "Vandamme", "given": "Niels", "initials": "N"}, {"family": "Sorini", "given": "Chiara", "initials": "C", "orcid": "0000-0002-6803-8377", "researcher": {"href": "https://publications.scilifelab.se/researcher/975173f37f144f06b236817e224de7f0.json"}}, {"family": "Grundeken", "given": "Marijke Elise", "initials": "ME", "orcid": "0000-0001-6915-0339", "researcher": {"href": "https://publications.scilifelab.se/researcher/b64d9493eccd419d8c8908dea19602df.json"}}, {"family": "Rolandsdotter", "given": "Helena", "initials": "H"}, {"family": "Rassidakis", "given": "George", "initials": "G"}, {"family": "Villablanca", "given": "Eduardo J", "initials": "EJ", "orcid": "0000-0001-9522-9729", "researcher": {"href": "https://publications.scilifelab.se/researcher/6c6a2dde2d8f40ef82dfba0cf1b52c0d.json"}}, {"family": "Idestr\u00f6m", "given": "Maja", "initials": "M"}, {"family": "Eulitz", "given": "Stefan", "initials": "S"}, {"family": "Arnell", "given": "Henrik", "initials": "H"}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}, {"family": "Henter", "given": "Jan-Inge", "initials": "JI", "orcid": "0000-0002-0629-2126", "researcher": {"href": "https://publications.scilifelab.se/researcher/c1a0d663491c4665a32a612e423dff1b.json"}}, {"family": "Svensson", "given": "Mattias", "initials": "M", "orcid": "0000-0003-1695-7934", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e3185cf86534a96983b39dd93df454a.json"}}], "type": "journal article", "published": "2024-02-26", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "15", "issue": "1", "pages": "1752", "issn-l": "2041-1723"}, "abstract": "Stromal cells support epithelial cell and immune cell homeostasis and play an important role in inflammatory bowel disease (IBD) pathogenesis. Here, we quantify the stromal response to inflammation in pediatric IBD and reveal subset-specific inflammatory responses across colon segments and intestinal layers. Using data from a murine dynamic gut injury model and human ex vivo transcriptomic, protein and spatial analyses, we report that PDGFRA+CD142-/low fibroblasts and monocytes/macrophages co-localize in the intestine. In primary human fibroblast-monocyte co-cultures, intestinal PDGFRA+CD142-/low fibroblasts foster monocyte transition to CCR2+CD206+ macrophages through granulocyte-macrophage colony-stimulating factor (GM-CSF). Monocyte-derived CCR2+CD206+ cells from co-cultures have a phenotype similar to intestinal CCR2+CD206+ macrophages from newly diagnosed pediatric IBD patients, with high levels of PD-L1 and low levels of GM-CSF receptor. The study describes subset-specific changes in stromal responses to inflammation and suggests that the intestinal stroma guides intestinal macrophage differentiation.", "doi": "10.1038/s41467-024-46076-3", "pmid": "38409190", "labels": {"NGI Short read": "Service", "NGI Stockholm (Genomics Production)": "Service", "National Genomics Infrastructure": "Service", "Bioinformatics Support, Infrastructure and Training": "Collaborative", "Bioinformatics Long-term Support WABI": "Collaborative", "Bioinformatics (NBIS)": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC10897309"}, {"db": "pii", "key": "10.1038/s41467-024-46076-3"}], "notes": [], "created": "2024-03-14T11:08:33.238Z", "modified": "2024-10-31T10:36:41.256Z"}, {"entity": "publication", "iuid": "2d359ec6a7b244e8b37bcc38e6b84edc", "links": {"self": {"href": "https://publications.scilifelab.se/publication/2d359ec6a7b244e8b37bcc38e6b84edc.json"}, "display": {"href": "https://publications.scilifelab.se/publication/2d359ec6a7b244e8b37bcc38e6b84edc"}}, "title": "Innate lymphoid cell composition associates with COVID-19 disease severity.", "authors": [{"family": "Garc\u00eda", "given": "Marina", "initials": "M", "orcid": "0000-0002-9130-3933", "researcher": {"href": "https://publications.scilifelab.se/researcher/20fa6d5f40764b32a70f792f29d97e60.json"}}, {"family": "Kokkinou", "given": "Efthymia", "initials": "E", "orcid": "0000-0001-9248-4740", "researcher": {"href": "https://publications.scilifelab.se/researcher/d6b45f75457547bfa5326c42ce73e371.json"}}, {"family": "Carrasco Garc\u00eda", "given": "Anna", "initials": "A"}, {"family": "Parrot", "given": "Tiphaine", "initials": "T"}, {"family": "Palma Medina", "given": "Laura M", "initials": "LM"}, {"family": "Maleki", "given": "Kimia T", "initials": "KT"}, {"family": "Christ", "given": "Wanda", "initials": "W"}, {"family": "Varnait\u0117", "given": "Renata", "initials": "R"}, {"family": "Filipovic", "given": "Iva", "initials": "I"}, {"family": "Ljunggren", "given": "Hans-Gustaf", "initials": "HG"}, {"family": "Bj\u00f6rkstr\u00f6m", "given": "Niklas K", "initials": "NK"}, {"family": "Folkesson", "given": "Elin", "initials": "E"}, {"family": "Rooyackers", "given": "Olav", "initials": "O"}, {"family": "Eriksson", "given": "Lars I", "initials": "LI"}, {"family": "S\u00f6nnerborg", "given": "Anders", "initials": "A"}, {"family": "Aleman", "given": "Soo", "initials": "S"}, {"family": "Str\u00e5lin", "given": "Kristoffer", "initials": "K"}, {"family": "Gredmark-Russ", "given": "Sara", "initials": "S"}, {"family": "Klingstr\u00f6m", "given": "Jonas", "initials": "J", "orcid": "0000-0001-9076-1441", "researcher": {"href": "https://publications.scilifelab.se/researcher/95c1b345ae434fb383b7fe6a1d053c80.json"}}, {"family": "Mj\u00f6sberg", "given": "Jenny", "initials": "J", "orcid": "0000-0002-1119-0976", "researcher": {"href": "https://publications.scilifelab.se/researcher/fcca878a7f314944bf1a4290cfd5d71d.json"}}, {"family": "Karolinska KI/K COVID\u201019 Study Group", "given": "", "initials": ""}], "type": "journal article", "published": "2020-12-14", "journal": {"title": "Clin Transl Immunology", "issn": "2050-0068", "volume": "9", "issue": "12", "pages": "e1224", "issn-l": null}, "abstract": "The role of innate lymphoid cells (ILCs) in coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is unknown. Understanding the immune response in COVID-19 could contribute to unravel the pathogenesis and identification of treatment targets. Here, we describe the phenotypic landscape of circulating ILCs in COVID-19 patients and identified ILC phenotypes correlated to serum biomarkers, clinical markers and laboratory parameters relevant in COVID-19.\n\nBlood samples collected from moderately (n = 11) and severely ill (n = 12) COVID-19 patients, as well as healthy control donors (n = 16), were analysed with 18-parameter flow cytometry. Using supervised and unsupervised approaches, we examined the ILC activation status and homing profile. Clinical and laboratory parameters were obtained from all COVID-19 patients, and serum biomarkers were analysed with multiplex immunoassays.\n\nInnate lymphoid cells were largely depleted from the circulation of COVID-19 patients compared with healthy controls. Remaining circulating ILCs revealed decreased frequencies of ILC2 in severe COVID-19, with a concomitant decrease of ILC precursors (ILCp) in all patients, compared with controls. ILC2 and ILCp showed an activated phenotype with increased CD69 expression, whereas expression levels of the chemokine receptors CXCR3 and CCR4 were significantly altered in ILC2 and ILCp, and ILC1, respectively. The activated ILC profile of COVID-19 patients was associated with soluble inflammatory markers, while frequencies of ILC subsets were correlated with laboratory parameters that reflect the disease severity.\n\nThis study provides insights into the potential role of ILCs in immune responses against SARS-CoV-2, particularly linked to the severity of COVID-19.", "doi": "10.1002/cti2.1224", "pmid": "33343897", "labels": {"Affinity Proteomics Stockholm": "Service"}, "xrefs": [{"db": "pii", "key": "CTI21224"}, {"db": "pmc", "key": "PMC7734472"}], "notes": [], "created": "2021-10-06T11:02:11.414Z", "modified": "2022-11-17T18:24:00.884Z"}]}