{"entity": "researcher", "timestamp": "2026-07-18T02:35:50.737Z", "family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "affiliations": ["Division of Affinity Proteomics, Department of Protein Science, KTH Royal Institute of Technology, SciLifeLab, Sweden."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79"}}, "publications": [{"entity": "publication", "iuid": "d7230d74309f4d7e9bc0c1654439db18", "links": {"self": {"href": "https://publications.scilifelab.se/publication/d7230d74309f4d7e9bc0c1654439db18.json"}, "display": {"href": "https://publications.scilifelab.se/publication/d7230d74309f4d7e9bc0c1654439db18"}}, "title": "Naturally acquired IgG responses to Plasmodium falciparum do not target the conserved termini of the malaria vaccine candidate Merozoite Surface Protein 2.", "authors": [{"family": "Zerebinski", "given": "Julia", "initials": "J"}, {"family": "Margerie", "given": "Lucille", "initials": "L"}, {"family": "Han", "given": "Nan Sophia", "initials": "NS"}, {"family": "Moll", "given": "Maximilian", "initials": "M"}, {"family": "Ritvos", "given": "Matias", "initials": "M"}, {"family": "Jahnmatz", "given": "Peter", "initials": "P"}, {"family": "Ahlborg", "given": "Niklas", "initials": "N"}, {"family": "Ngasala", "given": "Billy", "initials": "B"}, {"family": "Rooth", "given": "Ingegerd", "initials": "I"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Sundling", "given": "Christopher", "initials": "C", "orcid": "0000-0002-6138-690X", "researcher": {"href": "https://publications.scilifelab.se/researcher/89c1e689a46b4b14adb0dc99e1c0a58c.json"}}, {"family": "Yman", "given": "Victor", "initials": "V", "orcid": "0000-0001-7267-0749", "researcher": {"href": "https://publications.scilifelab.se/researcher/c66cc2cb5f2c45cf903ca24d02ed3919.json"}}, {"family": "F\u00e4rnert", "given": "Anna", "initials": "A"}, {"family": "Plaza", "given": "David Fernando", "initials": "DF", "orcid": "0000-0003-0366-4112", "researcher": {"href": "https://publications.scilifelab.se/researcher/2f09e7d9876344728f881fbb61c136f4.json"}}], "type": "journal article", "published": "2024-12-09", "journal": {"title": "Front Immunol", "issn": "1664-3224", "volume": "15", "pages": "1501700", "issn-l": "1664-3224"}, "abstract": "Malaria remains a significant burden, and a fully protective vaccine against Plasmodium falciparum is critical for reducing morbidity and mortality. Antibody responses against the blood-stage antigen Merozoite Surface Protein 2 (MSP2) are associated with protection from P. falciparum malaria, but its extensive polymorphism is a barrier to its development as a vaccine candidate. New tools, such as long-read sequencing and accurate protein structure modelling allow us to study the genetic diversity and immune responses towards antigens from clinical isolates with unprecedented detail. This study sought to better understand naturally acquired MSP2-specific antibody responses.\n\nIgG responses against recombinantly expressed full-length, central polymorphic regions, and peptides derived from the conserved termini of MSP2 variants sequenced from patient isolates, were tested in plasma from travelers with recent, acute malaria and from individuals living in an endemic area of Tanzania.\n\nIgG responses towards full MSP2 and truncated MSP2 antigens were variant specific. IgG antibodies in the plasma of first-time infected or previously exposed travelers did not recognize the conserved termini of expressed MSP2 variants by ELISA, but they bound 13-amino acid long linear epitopes from the termini in a custom-made peptide array. Alphafold3 modelling suggests extensive structural heterogeneity in the conserved termini upon antigen oligomerization. IgG from individuals living in an endemic region, many who were asymptomatically infected, did not recognize the conserved termini by ELISA.\n\nOur results suggest that responses to the variable regions are critical for the development of naturally acquired immunity towards MSP2.", "doi": "10.3389/fimmu.2024.1501700", "pmid": "39717775", "labels": {"Autoimmunity and Serology Profiling": "Collaborative", "Bioinformatics Support for Computational Resources": "Service", "NGI Uppsala (Uppsala Genome Center)": "Service", "NGI Long read": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC11663719"}], "notes": [], "created": "2024-12-09T09:42:36.848Z", "modified": "2025-04-07T07:25:49.767Z"}, {"entity": "publication", "iuid": "2ba158e4da984af6a8835a79e148a316", "links": {"self": {"href": "https://publications.scilifelab.se/publication/2ba158e4da984af6a8835a79e148a316.json"}, "display": {"href": "https://publications.scilifelab.se/publication/2ba158e4da984af6a8835a79e148a316"}}, "title": "Prevalent and persistent new-onset autoantibodies in mild to severe COVID-19.", "authors": [{"family": "Jernbom", "given": "August F", "initials": "AF", "orcid": "0000-0002-7773-1851", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe6400bde68b46899515cef5bea05fca.json"}}, {"family": "Skoglund", "given": "Lovisa", "initials": "L", "orcid": "0009-0002-7863-1972", "researcher": {"href": "https://publications.scilifelab.se/researcher/e6bab6ea5e824b13ad5b77a6fa08523e.json"}}, {"family": "Pin", "given": "Elisa", "initials": "E", "orcid": "0000-0002-2158-2674", "researcher": {"href": "https://publications.scilifelab.se/researcher/ccb4db02b9784587b62020716ab87247.json"}}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Tegel", "given": "Hanna", "initials": "H", "orcid": "0000-0002-7067-9173", "researcher": {"href": "https://publications.scilifelab.se/researcher/d3d733dbd7b84a6b88f7f5fcff7165f6.json"}}, {"family": "Hober", "given": "Sophia", "initials": "S", "orcid": "0000-0003-0605-8417", "researcher": {"href": "https://publications.scilifelab.se/researcher/f8dd8ee4264d4e4b912dacad3106f40a.json"}}, {"family": "Rostami", "given": "Elham", "initials": "E", "orcid": "0000-0003-1218-6247", "researcher": {"href": "https://publications.scilifelab.se/researcher/a4e5d32d3023425c9940f1eb1ed876b4.json"}}, {"family": "Rasmusson", "given": "Annica", "initials": "A", "orcid": "0000-0002-7228-7755", "researcher": {"href": "https://publications.scilifelab.se/researcher/7ef833f6dd204c189586fba5c33d1d58.json"}}, {"family": "Cunningham", "given": "Janet L", "initials": "JL", "orcid": "0000-0001-7876-7779", "researcher": {"href": "https://publications.scilifelab.se/researcher/3ab30dd6c6874bc7a227a8699c4a7085.json"}}, {"family": "Havervall", "given": "Sebastian", "initials": "S"}, {"family": "Th\u00e5lin", "given": "Charlotte", "initials": "C", "orcid": "0000-0002-1345-6491", "researcher": {"href": "https://publications.scilifelab.se/researcher/130fb6ef6b774613a767e98f9f9b2eb4.json"}}, {"family": "M\u00e5nberg", "given": "Anna", "initials": "A", "orcid": "0000-0002-0056-1313", "researcher": {"href": "https://publications.scilifelab.se/researcher/6d155273b5b54e61b773f263e4f2ce9b.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal article", "published": "2024-10-17", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "15", "issue": "1", "pages": "8941", "issn-l": "2041-1723"}, "abstract": "Autoantibodies have been shown to be implied in COVID-19 but the emerging autoantibody repertoire remains largely unexplored. We investigated the new-onset autoantibody repertoire in 525 healthcare workers and hospitalized COVID-19 patients at five time points over a 16-month period in 2020 and 2021 using proteome-wide and targeted protein and peptide arrays. Our results show that prevalent new-onset autoantibodies against a wide range of antigens emerged following SARS-CoV-2 infection in relation to pre-infectious baseline samples and remained elevated for at least 12 months. We found an increased prevalence of new-onset autoantibodies after severe COVID-19 and demonstrated associations between distinct new-onset autoantibodies and neuropsychiatric symptoms post-COVID-19. Using epitope mapping, we determined the main epitopes of selected new-onset autoantibodies, validated them in independent cohorts of neuro-COVID and pre-pandemic healthy controls, and identified sequence similarities suggestive of molecular mimicry between main epitopes and the conserved fusion peptide of the SARS-CoV-2 Spike glycoprotein. Our work describes the complexity and dynamics of the autoantibody repertoire emerging with COVID-19 and supports the need for continued analysis of the new-onset autoantibody repertoire to elucidate the mechanisms of the post-COVID-19 condition.", "doi": "10.1038/s41467-024-53356-5", "pmid": "39414823", "labels": {"Autoimmunity and Serology Profiling": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC11484904"}, {"db": "pii", "key": "10.1038/s41467-024-53356-5"}], "notes": [], "created": "2024-10-21T13:07:04.870Z", "modified": "2024-10-21T13:07:05.227Z"}, {"entity": "publication", "iuid": "9d0f9b6ced5447dfab67df3380c65330", "links": {"self": {"href": "https://publications.scilifelab.se/publication/9d0f9b6ced5447dfab67df3380c65330.json"}, "display": {"href": "https://publications.scilifelab.se/publication/9d0f9b6ced5447dfab67df3380c65330"}}, "title": "Systematic evaluation of SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.", "authors": [{"family": "Hober", "given": "Sophia", "initials": "S", "orcid": "0000-0003-0605-8417", "researcher": {"href": "https://publications.scilifelab.se/researcher/f8dd8ee4264d4e4b912dacad3106f40a.json"}}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Olofsson", "given": "Jennie", "initials": "J", "orcid": "0000-0002-8593-9089", "researcher": {"href": "https://publications.scilifelab.se/researcher/d2b59febdeec4df99bf3a0d5480df305.json"}}, {"family": "Andersson", "given": "Eni", "initials": "E", "orcid": "0000-0002-5115-0637", "researcher": {"href": "https://publications.scilifelab.se/researcher/ef94cf857c3746088cd01cee49242f24.json"}}, {"family": "Bergstr\u00f6m", "given": "Sofia", "initials": "S", "orcid": "0000-0003-2910-4754", "researcher": {"href": "https://publications.scilifelab.se/researcher/648c9ed3483a4eb8a1d228cf7e59f6a7.json"}}, {"family": "Jernbom Falk", "given": "August", "initials": "A", "orcid": "0000-0002-7773-1851", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe6400bde68b46899515cef5bea05fca.json"}}, {"family": "Bayati", "given": "Shaghayegh", "initials": "S"}, {"family": "Mravinacova", "given": "Sara", "initials": "S"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Yousef", "given": "Jamil", "initials": "J", "orcid": "0000-0001-5915-1258", "researcher": {"href": "https://publications.scilifelab.se/researcher/86be17c932614797a876bb55c7ce566e.json"}}, {"family": "Skoglund", "given": "Lovisa", "initials": "L"}, {"family": "Kanje", "given": "Sara", "initials": "S"}, {"family": "Berling", "given": "Anna", "initials": "A"}, {"family": "Svensson", "given": "Anne-Sophie", "initials": "AS"}, {"family": "Jensen", "given": "Gabriella", "initials": "G"}, {"family": "Enstedt", "given": "Henric", "initials": "H"}, {"family": "Afshari", "given": "Delaram", "initials": "D"}, {"family": "Xu", "given": "Lan Lan", "initials": "LL"}, {"family": "Zwahlen", "given": "Martin", "initials": "M"}, {"family": "von Feilitzen", "given": "Kalle", "initials": "K"}, {"family": "Hanke", "given": "Leo", "initials": "L"}, {"family": "Murrell", "given": "Ben", "initials": "B"}, {"family": "McInerney", "given": "Gerald", "initials": "G"}, {"family": "Karlsson Hedestam", "given": "Gunilla B", "initials": "GB"}, {"family": "Lendel", "given": "Christofer", "initials": "C"}, {"family": "Roth", "given": "Robert G", "initials": "RG"}, {"family": "Skoog", "given": "Ingmar", "initials": "I"}, {"family": "Svenungsson", "given": "Elisabet", "initials": "E"}, {"family": "Olsson", "given": "Tomas", "initials": "T"}, {"family": "Fogdell-Hahn", "given": "Anna", "initials": "A"}, {"family": "Lindroth", "given": "Ylva", "initials": "Y"}, {"family": "Lundgren", "given": "Maria", "initials": "M"}, {"family": "Maleki", "given": "Kimia T", "initials": "KT"}, {"family": "Lagerqvist", "given": "Nina", "initials": "N"}, {"family": "Klingstr\u00f6m", "given": "Jonas", "initials": "J", "orcid": "0000-0001-9076-1441", "researcher": {"href": "https://publications.scilifelab.se/researcher/95c1b345ae434fb383b7fe6a1d053c80.json"}}, {"family": "Da Silva Rodrigues", "given": "Rui", "initials": "R"}, {"family": "Muschiol", "given": "Sandra", "initials": "S"}, {"family": "Bogdanovic", "given": "Gordana", "initials": "G"}, {"family": "Arroyo M\u00fchr", "given": "Laila Sara", "initials": "LS"}, {"family": "Eklund", "given": "Carina", "initials": "C"}, {"family": "Lagheden", "given": "Camilla", "initials": "C"}, {"family": "Dillner", "given": "Joakim", "initials": "J"}, {"family": "Sivertsson", "given": "\u00c5sa", "initials": "\u00c5"}, {"family": "Havervall", "given": "Sebastian", "initials": "S", "orcid": "0000-0003-1671-8183", "researcher": {"href": "https://publications.scilifelab.se/researcher/dbd194b3cef64f9f9341fd163a035235.json"}}, {"family": "Th\u00e5lin", "given": "Charlotte", "initials": "C", "orcid": "0000-0002-1345-6491", "researcher": {"href": "https://publications.scilifelab.se/researcher/130fb6ef6b774613a767e98f9f9b2eb4.json"}}, {"family": "Tegel", "given": "Hanna", "initials": "H", "orcid": "0000-0002-7067-9173", "researcher": {"href": "https://publications.scilifelab.se/researcher/d3d733dbd7b84a6b88f7f5fcff7165f6.json"}}, {"family": "Pin", "given": "Elisa", "initials": "E", "orcid": "0000-0002-2158-2674", "researcher": {"href": "https://publications.scilifelab.se/researcher/ccb4db02b9784587b62020716ab87247.json"}}, {"family": "M\u00e5nberg", "given": "Anna", "initials": "A", "orcid": "0000-0002-0056-1313", "researcher": {"href": "https://publications.scilifelab.se/researcher/6d155273b5b54e61b773f263e4f2ce9b.json"}}, {"family": "Hedhammar", "given": "My", "initials": "M", "orcid": "0000-0003-0140-419X", "researcher": {"href": "https://publications.scilifelab.se/researcher/061cceecaf0e4bed8efabca146e5b235.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal article", "published": "2021-07-19", "journal": {"title": "Clin Transl Immunology", "issn": "2050-0068", "volume": "10", "issue": "7", "pages": "e1312", "issn-l": null}, "abstract": "The COVID-19 pandemic poses an immense need for accurate, sensitive and high-throughput clinical tests, and serological assays are needed for both overarching epidemiological studies and evaluating vaccines. Here, we present the development and validation of a high-throughput multiplex bead-based serological assay.\n\nMore than 100 representations of SARS-CoV-2 proteins were included for initial evaluation, including antigens produced in bacterial and mammalian hosts as well as synthetic peptides. The five best-performing antigens, three representing the spike glycoprotein and two representing the nucleocapsid protein, were further evaluated for detection of IgG antibodies in samples from 331 COVID-19 patients and convalescents, and in 2090 negative controls sampled before 2020.\n\nThree antigens were finally selected, represented by a soluble trimeric form and the S1-domain of the spike glycoprotein as well as by the C-terminal domain of the nucleocapsid. The sensitivity for these three antigens individually was found to be 99.7%, 99.1% and 99.7%, and the specificity was found to be 98.1%, 98.7% and 95.7%. The best assay performance was although achieved when utilising two antigens in combination, enabling a sensitivity of up to 99.7% combined with a specificity of 100%. Requiring any two of the three antigens resulted in a sensitivity of 99.7% and a specificity of 99.4%.\n\nThese observations demonstrate that a serological test based on a combination of several SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.", "doi": "10.1002/cti2.1312", "pmid": "34295471", "labels": {"Autoimmunity and Serology Profiling": "Technology development"}, "xrefs": [{"db": "pii", "key": "CTI21312"}, {"db": "pmc", "key": "PMC8288725"}], "notes": [], "created": "2021-07-25T21:30:22.465Z", "modified": "2021-11-10T12:23:19.192Z"}, {"entity": "publication", "iuid": "9e59e7c86b544a77ad2dcb68a7cfad1b", "links": {"self": {"href": "https://publications.scilifelab.se/publication/9e59e7c86b544a77ad2dcb68a7cfad1b.json"}, "display": {"href": "https://publications.scilifelab.se/publication/9e59e7c86b544a77ad2dcb68a7cfad1b"}}, "title": "Serine Protease HTRA1 as a Novel Target Antigen in Primary Membranous Nephropathy.", "authors": [{"family": "Al-Rabadi", "given": "Laith Farah", "initials": "LF"}, {"family": "Caza", "given": "Tiffany", "initials": "T"}, {"family": "Trivin-Avillach", "given": "Claire", "initials": "C"}, {"family": "Rodan", "given": "Aylin R", "initials": "AR", "orcid": "0000-0001-9202-2378", "researcher": {"href": "https://publications.scilifelab.se/researcher/c61468ba35da4701beba5615857d05c9.json"}}, {"family": "Andeen", "given": "Nicole", "initials": "N", "orcid": "0000-0002-4882-6640", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e9cad6c9fac42c9a2f81b0b258f7e5a.json"}}, {"family": "Hayashi", "given": "Norifumi", "initials": "N"}, {"family": "Williams", "given": "Brandi", "initials": "B"}, {"family": "Revelo", "given": "Monica P", "initials": "MP"}, {"family": "Clayton", "given": "Fred", "initials": "F"}, {"family": "Abraham", "given": "Jo", "initials": "J"}, {"family": "Lin", "given": "Edwin", "initials": "E"}, {"family": "Liou", "given": "Willisa", "initials": "W", "orcid": "0000-0002-3280-9635", "researcher": {"href": "https://publications.scilifelab.se/researcher/cc5f36e54ef749d8ad87447c9363897e.json"}}, {"family": "Zou", "given": "Chang-Jiang", "initials": "CJ"}, {"family": "Ramkumar", "given": "Nirupama", "initials": "N"}, {"family": "Cummins", "given": "Tim", "initials": "T"}, {"family": "Wilkey", "given": "Daniel W", "initials": "DW"}, {"family": "Kawalit", "given": "Issa", "initials": "I"}, {"family": "Herzog", "given": "Christian", "initials": "C"}, {"family": "Storey", "given": "Aaron", "initials": "A"}, {"family": "Edmondson", "given": "Rick", "initials": "R"}, {"family": "Sjoberg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Yang", "given": "Tianxin", "initials": "T"}, {"family": "Chien", "given": "Jeremy", "initials": "J"}, {"family": "Merchant", "given": "Michael", "initials": "M", "orcid": "0000-0003-4128-4057", "researcher": {"href": "https://publications.scilifelab.se/researcher/46a22dcea21d4a8781a1cd44473af131.json"}}, {"family": "Arthur", "given": "John", "initials": "J"}, {"family": "Klein", "given": "Jon", "initials": "J"}, {"family": "Larsen", "given": "Chris", "initials": "C"}, {"family": "Beck", "given": "Laurence H", "initials": "LH"}], "type": "journal article", "published": "2021-05-05", "journal": {"title": "J. Am. Soc. Nephrol.", "issn": "1533-3450", "volume": "32", "issue": "7", "pages": "1666-1681", "issn-l": "1046-6673"}, "abstract": "Identification of target antigens PLA2R, THSD7A, NELL1, or Semaphorin-3B can explain the majority of cases of primary membranous nephropathy (MN). However, target antigens remain unidentified in 15%-20% of patients.\n\nA multipronged approach, using traditional and modern technologies, converged on a novel target antigen, and capitalized on the temporal variation in autoantibody titer for biomarker discovery. Immunoblotting of human glomerular proteins followed by differential immunoprecipitation and mass spectrometric analysis was complemented by laser-capture microdissection followed by mass spectrometry, elution of immune complexes from renal biopsy specimen tissue, and autoimmune profiling on a protein fragment microarray.\n\nThese approaches identified serine protease HTRA1 as a novel podocyte antigen in a subset of patients with primary MN. Sera from two patients reacted by immunoblotting with a 51-kD protein within glomerular extract and with recombinant human HTRA1, under reducing and nonreducing conditions. Longitudinal serum samples from these patients seemed to correlate with clinical disease activity. As in PLA2R- and THSD7A- associated MN, anti-HTRA1 antibodies were predominantly IgG4, suggesting a primary etiology. Analysis of sera collected during active disease versus remission on protein fragment microarrays detected significantly higher titers of anti-HTRA1 antibody in active disease. HTRA1 was specifically detected within immune deposits of HTRA1-associated MN in 14 patients identified among three cohorts. Screening of 118 \"quadruple-negative\" (PLA2R-, THSD7A-, NELL1-, EXT2-negative) patients in a large repository of MN biopsy specimens revealed a prevalence of 4.2%.\n\nConventional and more modern techniques converged to identify serine protease HTRA1 as a target antigen in MN.", "doi": "10.1681/ASN.2020101395", "pmid": "33952630", "labels": {"Autoimmunity and Serology Profiling": "Service"}, "xrefs": [{"db": "pii", "key": "ASN.2020101395"}], "notes": [], "created": "2021-05-19T07:33:08.735Z", "modified": "2021-11-10T12:25:06.464Z"}, {"entity": "publication", "iuid": "ee18e674971a4b5f89d31d1203a60cda", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ee18e674971a4b5f89d31d1203a60cda.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ee18e674971a4b5f89d31d1203a60cda"}}, "title": "Allergome-wide peptide microarrays enable epitope deconvolution in allergen-specific immunotherapy", "authors": [{"family": "Mikus", "given": "Maria", "initials": "M"}, {"family": "Zandian", "given": "Arash", "initials": "A"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Hamsten", "given": "Carl", "initials": "C"}, {"family": "Forsstr\u00f6m", "given": "Bj\u00f6rn", "initials": "B"}, {"family": "Andersson", "given": "Morgan", "initials": "M"}, {"family": "Greiff", "given": "Lennart", "initials": "L"}, {"family": "Uhl\u00e9n", "given": "Mathias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Levin", "given": "Mattias", "initials": "M"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "van Hage", "given": "Marianne", "initials": "M"}, {"family": "Ohlin", "given": "Mats", "initials": "M", "orcid": "0000-0002-5105-1938", "researcher": {"href": "https://publications.scilifelab.se/researcher/fda1d1ed0b074a04a69b0c8b036dd001.json"}}], "type": "journal-article", "published": "2021-03-00", "journal": {"title": "Journal of Allergy and Clinical Immunology", "issn": "1085-8725", "issn-l": "0091-6749", "volume": "147", "issue": "3", "pages": "1077-1086"}, "abstract": "The interaction of allergens and allergen-specific IgE initiates the allergic cascade after crosslinking of receptors on effector cells. Antibodies of other isotypes may modulate such a reaction. Receptor crosslinking requires binding of antibodies to multiple epitopes on the allergen. Limited information is available on the complexity of the epitope structure of most allergens.\n\nWe sought to allow description of the complexity of IgE, IgG4, and IgG epitope recognition at a global, allergome-wide level during allergen-specific immunotherapy (AIT).\n\nWe generated an allergome-wide microarray comprising 731 allergens in the form of more than 172,000 overlapping 16-mer peptides. Allergen recognition by IgE, IgG4, and IgG was examined in serum samples collected from subjects undergoing AIT against pollen allergy.\n\nExtensive induction of linear peptide-specific Phl p 1- and Bet v 1-specific humoral immunity was demonstrated in subjects undergoing a 3-year-long AIT against grass and birch pollen allergy, respectively. Epitope profiles differed between subjects but were largely established already after 1 year of AIT, suggesting that dominant allergen-specific antibody clones remained as important contributors to humoral immunity following their initial establishment during the early phase of AIT. Complex, subject-specific patterns of allergen isoform and group cross-reactivities in the repertoires were observed, patterns that may indicate different levels of protection against different allergen sources.\n\nThe study highlights the complexity and subject-specific nature of allergen epitopes recognized following AIT. We envisage that epitope deconvolution will be an important aspect of future efforts to describe and analyze the outcomes of AIT in a personalized manner.", "doi": "10.1016/j.jaci.2020.08.002", "pmid": "32791163", "labels": {"Autoimmunity and Serology Profiling": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S0091-6749(20)31108-8"}], "notes": [], "created": "2020-08-20T06:07:25.147Z", "modified": "2023-06-19T11:55:27.568Z"}, {"entity": "publication", "iuid": "db71f369517e425cac0b1c66d3c937e0", "links": {"self": {"href": "https://publications.scilifelab.se/publication/db71f369517e425cac0b1c66d3c937e0.json"}, "display": {"href": "https://publications.scilifelab.se/publication/db71f369517e425cac0b1c66d3c937e0"}}, "title": "SARS-CoV-2 exposure, symptoms and seroprevalence in healthcare workers in Sweden.", "authors": [{"family": "Rudberg", "given": "Ann-Sofie", "initials": "AS", "orcid": "0000-0003-3616-9943", "researcher": {"href": "https://publications.scilifelab.se/researcher/4e81215bbec8467388ec0592d4110169.json"}}, {"family": "Havervall", "given": "Sebastian", "initials": "S"}, {"family": "M\u00e5nberg", "given": "Anna", "initials": "A", "orcid": "0000-0002-0056-1313", "researcher": {"href": "https://publications.scilifelab.se/researcher/6d155273b5b54e61b773f263e4f2ce9b.json"}}, {"family": "Jernbom Falk", "given": "August", "initials": "A", "orcid": "0000-0002-7773-1851", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe6400bde68b46899515cef5bea05fca.json"}}, {"family": "Aguilera", "given": "Katherina", "initials": "K"}, {"family": "Ng", "given": "Henry", "initials": "H", "orcid": "0000-0003-2873-9088", "researcher": {"href": "https://publications.scilifelab.se/researcher/5fcb12c664a64724b5cd42a1267a5bea.json"}}, {"family": "Gabrielsson", "given": "Lena", "initials": "L"}, {"family": "Salomonsson", "given": "Ann-Christin", "initials": "AC"}, {"family": "Hanke", "given": "Leo", "initials": "L", "orcid": "0000-0001-5514-2418", "researcher": {"href": "https://publications.scilifelab.se/researcher/ece050a286f946f6807170cffc9320e7.json"}}, {"family": "Murrell", "given": "Ben", "initials": "B"}, {"family": "McInerney", "given": "Gerald", "initials": "G", "orcid": "0000-0003-2257-7241", "researcher": {"href": "https://publications.scilifelab.se/researcher/5ac2f68095fe4426b97ec070865e5091.json"}}, {"family": "Olofsson", "given": "Jennie", "initials": "J"}, {"family": "Andersson", "given": "Eni", "initials": "E", "orcid": "0000-0002-5115-0637", "researcher": {"href": "https://publications.scilifelab.se/researcher/ef94cf857c3746088cd01cee49242f24.json"}}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C", "orcid": "0000-0003-0880-5375", "researcher": {"href": "https://publications.scilifelab.se/researcher/dbf3f75938f0442a9b1ae5c98565f44a.json"}}, {"family": "Bayati", "given": "Shaghayegh", "initials": "S"}, {"family": "Bergstr\u00f6m", "given": "Sofia", "initials": "S"}, {"family": "Pin", "given": "Elisa", "initials": "E"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Tegel", "given": "Hanna", "initials": "H"}, {"family": "Hedhammar", "given": "My", "initials": "M"}, {"family": "Phillipson", "given": "Mia", "initials": "M"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "Hober", "given": "Sophia", "initials": "S", "orcid": "0000-0003-0605-8417", "researcher": {"href": "https://publications.scilifelab.se/researcher/f8dd8ee4264d4e4b912dacad3106f40a.json"}}, {"family": "Th\u00e5lin", "given": "Charlotte", "initials": "C", "orcid": "0000-0002-1345-6491", "researcher": {"href": "https://publications.scilifelab.se/researcher/130fb6ef6b774613a767e98f9f9b2eb4.json"}}], "type": "journal article", "published": "2020-10-08", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "11", "issue": "1", "pages": "5064", "issn-l": "2041-1723"}, "abstract": "SARS-CoV-2 may pose an occupational health risk to healthcare workers. Here, we report the seroprevalence of SARS-CoV-2 antibodies, self-reported symptoms and occupational exposure to SARS-CoV-2 among healthcare workers at a large acute care hospital in Sweden. The seroprevalence of IgG antibodies against SARS-CoV-2 was 19.1% among the 2149 healthcare workers recruited between April 14th and May 8th 2020, which was higher than the reported regional seroprevalence during the same time period. Symptoms associated with seroprevalence were anosmia (odds ratio (OR) 28.4, 95% CI 20.6-39.5) and ageusia (OR 19.2, 95% CI 14.3-26.1). Seroprevalence was also associated with patient contact (OR 2.9, 95% CI 1.9-4.5) and covid-19 patient contact (OR 3.3, 95% CI 2.2-5.3). These findings imply an occupational risk for SARS-CoV-2 infection among healthcare workers. Continued measures are warranted to assure healthcare workers safety and reduce transmission from healthcare workers to patients and to the community.", "doi": "10.1038/s41467-020-18848-0", "pmid": "33033249", "labels": {"Autoimmunity and Serology Profiling": "Collaborative"}, "xrefs": [{"db": "pii", "key": "10.1038/s41467-020-18848-0"}, {"db": "pmc", "key": "PMC7544689"}], "notes": [], "created": "2020-10-10T20:52:35.390Z", "modified": "2021-11-10T12:46:29.669Z"}, {"entity": "publication", "iuid": "bb0b805b5429464ab0bddbb9a6f7787e", "links": {"self": {"href": "https://publications.scilifelab.se/publication/bb0b805b5429464ab0bddbb9a6f7787e.json"}, "display": {"href": "https://publications.scilifelab.se/publication/bb0b805b5429464ab0bddbb9a6f7787e"}}, "title": "Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortality.", "authors": [{"family": "Hong", "given": "Mun-Gwan", "initials": "MG", "orcid": "0000-0001-8603-8293", "researcher": {"href": "https://publications.scilifelab.se/researcher/5d66c199ece143a6ab15222d8b55e3ea.json"}}, {"family": "Dodig-Crnkovi\u0107", "given": "Tea", "initials": "T", "orcid": "0000-0002-2875-896X", "researcher": {"href": "https://publications.scilifelab.se/researcher/cf18af5b676b449693945249fc1767e4.json"}}, {"family": "Chen", "given": "Xu", "initials": "X"}, {"family": "Drobin", "given": "Kimi", "initials": "K"}, {"family": "Lee", "given": "Woojoo", "initials": "W"}, {"family": "Wang", "given": "Yunzhang", "initials": "Y"}, {"family": "Edfors", "given": "Fredrik", "initials": "F"}, {"family": "Kotol", "given": "David", "initials": "D", "orcid": "0000-0002-5388-3826", "researcher": {"href": "https://publications.scilifelab.se/researcher/085cca6e87fb4639b720b0e5c8c1da2a.json"}}, {"family": "Thomas", "given": "Cecilia Engel", "initials": "CE", "orcid": "0000-0001-6201-6380", "researcher": {"href": "https://publications.scilifelab.se/researcher/3a1156f987764218af202efbd76c31fd.json"}}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Odeberg", "given": "Jacob", "initials": "J", "orcid": "0000-0003-0996-1644", "researcher": {"href": "https://publications.scilifelab.se/researcher/d1f04395fea84d898a8fe2a9875e79c4.json"}}, {"family": "Hamsten", "given": "Anders", "initials": "A"}, {"family": "Silveira", "given": "Angela", "initials": "A", "orcid": "0000-0003-2063-4935", "researcher": {"href": "https://publications.scilifelab.se/researcher/6fd1197769804dd48b9de86f11340ef2.json"}}, {"family": "Hall", "given": "Per", "initials": "P", "orcid": "0000-0002-5640-9126", "researcher": {"href": "https://publications.scilifelab.se/researcher/5e177f5d95f34b148064662f34ef6660.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "Pawitan", "given": "Yudi", "initials": "Y"}, {"family": "Uhl\u00e9n", "given": "Mathias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Pedersen", "given": "Nancy L", "initials": "NL"}, {"family": "H\u00e4gg", "given": "Sara", "initials": "S"}, {"family": "Magnusson", "given": "Patrik Ke", "initials": "PK"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}], "type": "journal article", "published": "2020-10-00", "journal": {"title": "Life Sci. Alliance", "issn": "2575-1077", "issn-l": "2575-1077", "volume": "3", "issue": "10", "pages": "e202000817"}, "abstract": "Despite recognizing aging as a common risk factor of many human diseases, little is known about its molecular traits. To identify age-associated proteins circulating in human blood, we screened 156 individuals aged 50-92 using exploratory and multiplexed affinity proteomics assays. Profiling eight additional study sets (N = 3,987), performing antibody validation, and conducting a meta-analysis revealed a consistent age association (P = 6.61 \u00d7 10-6) for circulating histidine-rich glycoprotein (HRG). Sequence variants of HRG influenced how the protein was recognized in the immunoassays. Indeed, only the HRG profiles affected by rs9898 were associated with age and predicted the risk of mortality (HR = 1.25 per SD; 95% CI = 1.12-1.39; P = 6.45 \u00d7 10-5) during a follow-up period of 8.5 yr after blood sampling (IQR = 7.7-9.3 yr). Our affinity proteomics analysis found associations between the particular molecular traits of circulating HRG with age and all-cause mortality. The distinct profiles of this multipurpose protein could serve as an accessible and informative indicator of the physiological processes related to biological aging.", "doi": "10.26508/lsa.202000817", "pmid": "32737166", "labels": {"Autoimmunity and Serology Profiling": "Service", "Affinity Proteomics Stockholm": "Collaborative", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "3/10/e202000817"}, {"db": "pmc", "key": "PMC7409555"}], "notes": [], "created": "2020-08-21T08:30:48.217Z", "modified": "2024-01-16T13:48:41.646Z"}, {"entity": "publication", "iuid": "d7fdfd620a754dffb5455e4782d7c3ec", "links": {"self": {"href": "https://publications.scilifelab.se/publication/d7fdfd620a754dffb5455e4782d7c3ec.json"}, "display": {"href": "https://publications.scilifelab.se/publication/d7fdfd620a754dffb5455e4782d7c3ec"}}, "title": "Array-Based Profiling of Proteins and Autoantibody Repertoires in CSF.", "authors": [{"family": "Pin", "given": "Elisa", "initials": "E"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Andersson", "given": "Eni", "initials": "E"}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Olofsson", "given": "Jennie", "initials": "J"}, {"family": "Jernbom Falk", "given": "August", "initials": "A"}, {"family": "Bergstr\u00f6m", "given": "Sofia", "initials": "S"}, {"family": "Remnest\u00e5l", "given": "Julia", "initials": "J"}, {"family": "Just", "given": "David", "initials": "D"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "M\u00e5nberg", "given": "Anna", "initials": "A"}], "type": "journal article", "published": "2019-08-23", "journal": {"volume": "2044", "issn": "1940-6029", "issue": null, "pages": "303-318", "title": "Methods Mol. Biol.", "issn-l": "1064-3745"}, "abstract": "Protein profiling enabled through affinity proteomics represents a powerful strategy for analysis of complex samples such as human body fluids. Cerebrospinal fluid (CSF) is the proximal fluid of the central nervous system and is commonly analyzed in the context of neurological diseases. Through the presence of brain-derived proteins, this fluid can offer insight into the physiological state of the brain. Here, we describe multiplex and flexible protein and autoantibody profiling approaches using suspension bead arrays. Through minimal sample processing, these methods enable high-throughput analysis of hundreds of samples and proteins in one single assay and thereby provide powerful approaches for discovery of disease-associated proteins and autoantigens.", "doi": "10.1007/978-1-4939-9706-0_19", "pmid": "31432421", "labels": {"Autoimmunity and Serology Profiling": "Technology development"}, "xrefs": [], "notes": [], "created": "2019-11-06T15:11:34.083Z", "modified": "2021-07-07T15:55:21.138Z"}, {"entity": "publication", "iuid": "fbf86430359d4c0da55f59a2a1c70d6a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/fbf86430359d4c0da55f59a2a1c70d6a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/fbf86430359d4c0da55f59a2a1c70d6a"}}, "title": "High-Density Antigen Microarrays for the Assessment of Antibody Selectivity and Off-Target Binding.", "authors": [{"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Andersson", "given": "Eni", "initials": "E"}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Mattsson", "given": "Cecilia", "initials": "C"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "Ayoglu", "given": "Burcu", "initials": "B"}], "type": "journal article", "published": "2018-05-02", "journal": {"volume": "1785", "issn": "1940-6029", "issue": null, "pages": "231-238", "title": "Methods Mol. Biol.", "issn-l": "1064-3745"}, "abstract": "With the increasing availability of collections of antibodies, their evaluation in terms of binding selectivity becomes an important but challenging task. Planar antigen microarrays are very suitable tools to address this task and provide a powerful proteomics platform for the characterization of the binding selectivity of antibodies toward thousands of antigens in parallel. In this chapter, we describe our in-house developed procedures for the generation of high-density planar antigen microarrays with over 21,000 features. We also provide the details of the assay protocol, which we routinely use for the assessment of binding selectivity of the polyclonal antibodies generated within the Human Protein Atlas.", "doi": "10.1007/978-1-4939-7841-0_15", "pmid": "29714022", "labels": {"Autoimmunity and Serology Profiling": "Technology development", "Affinity Proteomics Stockholm": "Technology development", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [], "notes": [], "created": "2018-09-11T08:04:14.919Z", "modified": "2024-01-16T13:48:46.345Z"}, {"entity": "publication", "iuid": "393b99fadee3457f861d2abb322eb0a1", "links": {"self": {"href": "https://publications.scilifelab.se/publication/393b99fadee3457f861d2abb322eb0a1.json"}, "display": {"href": "https://publications.scilifelab.se/publication/393b99fadee3457f861d2abb322eb0a1"}}, "title": "ILF2 and ILF3 are autoantigens in canine systemic autoimmune disease.", "authors": [{"family": "Bremer", "given": "Hanna D", "initials": "HD"}, {"family": "Landegren", "given": "Nils", "initials": "N"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Hallgren", "given": "\u00c5sa", "initials": "\u00c5"}, {"family": "Renneker", "given": "Stefanie", "initials": "S"}, {"family": "Lattwein", "given": "Erik", "initials": "E"}, {"family": "Leonard", "given": "Dag", "initials": "D"}, {"family": "Eloranta", "given": "Maija-Leena", "initials": "ML"}, {"family": "R\u00f6nnblom", "given": "Lars", "initials": "L"}, {"family": "Nordmark", "given": "Gunnel", "initials": "G"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "Andersson", "given": "G\u00f6ran", "initials": "G"}, {"family": "Lillieh\u00f6\u00f6k", "given": "Inger", "initials": "I"}, {"family": "Lindblad-Toh", "given": "Kerstin", "initials": "K", "orcid": "0000-0001-8338-0253", "researcher": {"href": "https://publications.scilifelab.se/researcher/e0063145f7d6476f80ab42f94833f4cf.json"}}, {"family": "K\u00e4mpe", "given": "Olle", "initials": "O"}, {"family": "Hansson-Hamlin", "given": "Helene", "initials": "H"}], "type": "journal article", "published": "2018-03-19", "journal": {"volume": "8", "issn": "2045-2322", "issue": "1", "pages": "4852", "title": "Sci Rep", "issn-l": "2045-2322"}, "abstract": "Dogs can spontaneously develop complex systemic autoimmune disorders, with similarities to human autoimmune disease. Autoantibodies directed at self-antigens are a key feature of these autoimmune diseases. Here we report the identification of interleukin enhancer-binding factors 2 and 3 (ILF2 and ILF3) as autoantigens in canine immune-mediated rheumatic disease. The ILF2 autoantibodies were discovered in a small, selected canine cohort through the use of human protein arrays; a method not previously described in dogs. Subsequently, ILF3 autoantibodies were also identified in the same cohort. The results were validated with an independent method in a larger cohort of dogs. ILF2 and ILF3 autoantibodies were found exclusively, and at a high frequency, in dogs that showed a speckled pattern of antinuclear antibodies on immunofluorescence. ILF2 and ILF3 autoantibodies were also found at low frequency in human patients with SLE and Sj\u00f6gren's syndrome. These autoantibodies have the potential to be used as diagnostic biomarkers for canine, and possibly also human, autoimmune disease.", "doi": "10.1038/s41598-018-23034-w", "pmid": "29556082", "labels": {"Autoimmunity and Serology Profiling": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41598-018-23034-w"}, {"db": "pmc", "key": "PMC5859008"}], "notes": [], "created": "2018-09-11T08:06:07.439Z", "modified": "2024-01-16T13:48:46.724Z"}, {"entity": "publication", "iuid": "34f2371179704c95b05bc42435907de7", "links": {"self": {"href": "https://publications.scilifelab.se/publication/34f2371179704c95b05bc42435907de7.json"}, "display": {"href": "https://publications.scilifelab.se/publication/34f2371179704c95b05bc42435907de7"}}, "title": "Thiol-ene-epoxy thermoset for low-temperature bonding to biofunctionalized microarray surfaces.", "authors": [{"family": "Zhou", "given": "Xiamo C", "initials": "XC"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Druet", "given": "Amaury", "initials": "A"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "van der Wijngaart", "given": "Wouter", "initials": "W"}, {"family": "Haraldsson", "given": "Tommy", "initials": "T"}, {"family": "Carlborg", "given": "Carl Fredrik", "initials": "CF"}], "type": "journal article", "published": "2017-10-25", "journal": {"volume": "17", "issn": "1473-0189", "issue": "21", "pages": "3672-3681", "title": "Lab Chip", "issn-l": null}, "abstract": "One way to improve the sensitivity and throughput of miniaturized biomolecular assays is to integrate microfluidics to enhance the transport efficiency of biomolecules to the reaction sites. Such microfluidic integration requires bonding of a prefabricated microfluidic gasket to an assay surface without destroying its biological activity. In this paper we address the largely unmet challenge to accomplish a proper seal between a microfluidic gasket and a protein surface, with maintained biological activity and without contaminating the surface or blocking the microfluidic channels. We introduce a novel dual cure polymer resin for the formation of microfluidic gaskets that can be room-temperature bonded to a range of substrates using only UVA light. This polymer is the first polymer that features over a month of shelf life between the structure formation and the bonding, moreover the fully cured polymer gaskets feature the following set of properties suitable for microfluidics: high stiffness, which prevents microfluidic channel collapse during handling; very limited absorption of biomolecules; and no significant leaching of uncured monomers. We describe the novel polymer resin and its characteristics, study through FT-IR, and demonstrate its use as microfluidic well-arrays bonded onto protein array slides at room temperature followed by multiplexed immunoassays. The results confirm maintained biological activity and show high repeatability between protein arrays. This new approach for integrating microfluidic gaskets to biofunctionalised surfaces has the potential to improve sample throughput and decrease manufacturing costs for miniaturized biomolecular systems.", "doi": "10.1039/c7lc00652g", "pmid": "28975170", "labels": {"Autoimmunity and Serology Profiling": "Technology development", "Affinity Proteomics Stockholm": "Technology development"}, "xrefs": [], "notes": [], "created": "2017-11-02T12:13:55.170Z", "modified": "2021-07-08T12:07:34.033Z"}, {"entity": "publication", "iuid": "1fbfeb18c3aa4a91b322f65e6504dbe5", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1fbfeb18c3aa4a91b322f65e6504dbe5.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1fbfeb18c3aa4a91b322f65e6504dbe5"}}, "title": "High-Density Serum/Plasma Reverse Phase Protein Arrays.", "authors": [{"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Dodig-Crnkovi\u0107", "given": "Tea", "initials": "T"}, {"family": "Hong", "given": "Mun-Gwan", "initials": "MG"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}], "type": "journal article", "published": "2017-07-05", "journal": {"volume": "1619", "issn": "1940-6029", "issue": null, "pages": "229-238", "title": "Methods Mol. Biol.", "issn-l": "1064-3745"}, "abstract": "In-depth exploration and characterization of human serum and plasma proteomes is an attractive strategy for the identification of potential prognostic or diagnostic biomarkers. The possibility of analyzing larger numbers of samples in a high-throughput fashion has markedly increased with affinity-based microarrays, thus providing higher statistical power to these biomarker studies. Here, we describe a protocol for high-density serum and plasma reverse phase protein arrays (RPPAs). We demonstrate how a biobank of 12,392 samples was immobilized and analyzed on a single microarray slide, allowing high-quality profiling of abundant target proteins across all samples in one assay.", "doi": "10.1007/978-1-4939-7057-5_18", "pmid": "28674890", "labels": {"Autoimmunity and Serology Profiling": "Technology development", "Affinity Proteomics Stockholm": "Technology development"}, "xrefs": [], "notes": [], "created": "2017-11-02T11:36:59.288Z", "modified": "2021-07-08T12:07:33.995Z"}, {"entity": "publication", "iuid": "fa3ef484e6d748b4966432d39d1173e0", "links": {"self": {"href": "https://publications.scilifelab.se/publication/fa3ef484e6d748b4966432d39d1173e0.json"}, "display": {"href": "https://publications.scilifelab.se/publication/fa3ef484e6d748b4966432d39d1173e0"}}, "title": "Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.", "authors": [{"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Mattsson", "given": "Cecilia", "initials": "C"}, {"family": "Andersson", "given": "Eni", "initials": "E"}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Uhlen", "given": "Mathias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "Ayoglu", "given": "Burcu", "initials": "B"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal article", "published": "2016-09-25", "journal": {"volume": "33", "issn": "1876-4347", "issue": "5 Pt A", "pages": "582-592", "title": "N Biotechnol", "issn-l": "1871-6784"}, "abstract": "High-density protein microarrays of recombinant human protein fragments, representing 12,412 unique Ensembl Gene IDs, have here been produced and explored. These protein microarrays were used to analyse antibody off-target interactions, as well as for profiling the human autoantibody repertoire in plasma against the antigens represented by the protein fragments. Affinity-purified polyclonal antibodies produced within the Human Protein Atlas (HPA) were analysed on microarrays of three different sizes, ranging from 384 antigens to 21,120 antigens, for evaluation of the antibody validation criteria in the HPA. Plasma samples from secondary progressive multiple sclerosis patients were also screened in order to explore the feasibility of these arrays for broad-scale profiling of autoantibody reactivity. Furthermore, analysis on these near proteome-wide microarrays was complemented with analysis on HuProt\u2122 Human Proteome protein microarrays. The HPA recombinant protein microarray with 21,120 antigens and the HuProt\u2122 Human Proteome protein microarray are currently the largest protein microarray platforms available to date. The results on these arrays show that the Human Protein Atlas antibodies have few off-target interactions if the antibody validation criteria are kept stringent and demonstrate that the HPA-produced high-density recombinant protein fragment microarrays allow for a high-throughput analysis of plasma for identification of possible autoantibody targets in the context of various autoimmune conditions.", "doi": "10.1016/j.nbt.2015.09.002", "pmid": "26417875", "labels": {"Autoimmunity and Serology Profiling": "Technology development"}, "xrefs": [{"db": "pii", "key": "S1871-6784(15)00154-5"}], "notes": [], "created": "2017-05-02T12:58:25.314Z", "modified": "2021-07-08T13:44:33.755Z"}, {"entity": "publication", "iuid": "1fc2070f62c74b61866aa02ca06f973e", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1fc2070f62c74b61866aa02ca06f973e.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1fc2070f62c74b61866aa02ca06f973e"}}, "title": "Anoctamin 2 identified as an autoimmune target in multiple sclerosis.", "authors": [{"family": "Ayoglu", "given": "Burcu", "initials": "B"}, {"family": "Mitsios", "given": "Nicholas", "initials": "N"}, {"family": "Kockum", "given": "Ingrid", "initials": "I"}, {"family": "Khademi", "given": "Mohsen", "initials": "M"}, {"family": "Zandian", "given": "Arash", "initials": "A"}, {"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Forsstr\u00f6m", "given": "Bj\u00f6rn", "initials": "B"}, {"family": "Bredenberg", "given": "Johan", "initials": "J"}, {"family": "Lima Bomfim", "given": "Izaura", "initials": "I"}, {"family": "Holmgren", "given": "Erik", "initials": "E"}, {"family": "Gr\u00f6nlund", "given": "Hans", "initials": "H"}, {"family": "Guerreiro-Cacais", "given": "Andr\u00e9 Ortlieb", "initials": "AO"}, {"family": "Abdelmagid", "given": "Nada", "initials": "N"}, {"family": "Uhl\u00e9n", "given": "Mathias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Waterboer", "given": "Tim", "initials": "T"}, {"family": "Alfredsson", "given": "Lars", "initials": "L"}, {"family": "Mulder", "given": "Jan", "initials": "J"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "Olsson", "given": "Tomas", "initials": "T"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal article", "published": "2016-02-23", "journal": {"volume": "113", "issn": "1091-6490", "issue": "8", "pages": "2188-2193", "title": "Proc. Natl. Acad. Sci. U.S.A.", "issn-l": "0027-8424"}, "abstract": "Multiple sclerosis (MS) is the most common chronic inflammatory disease of the central nervous system and also is regarded as an autoimmune condition. However, the antigenic targets of the autoimmune response in MS have not yet been deciphered. In an effort to mine the autoantibody repertoire within MS, we profiled 2,169 plasma samples from MS cases and population-based controls using bead arrays built with 384 human protein fragments selected from an initial screening with 11,520 antigens. Our data revealed prominently increased autoantibody reactivity against the chloride-channel protein anoctamin 2 (ANO2) in MS cases compared with controls. This finding was corroborated in independent assays with alternative protein constructs and by epitope mapping with peptides covering the identified region of ANO2. Additionally, we found a strong interaction between the presence of ANO2 autoantibodies and the HLA complex MS-associated DRB1*15 allele, reinforcing a potential role for ANO2 autoreactivity in MS etiopathogenesis. Furthermore, immunofluorescence analysis in human MS brain tissue showed ANO2 expression as small cellular aggregates near and inside MS lesions. Thus this study represents one of the largest efforts to characterize the autoantibody repertoire within MS. The findings presented here demonstrate that an ANO2 autoimmune subphenotype may exist in MS and lay the groundwork for further studies focusing on the pathogenic role of ANO2 autoantibodies in MS.", "doi": "10.1073/pnas.1518553113", "pmid": "26862169", "labels": {"Fluorescence Tissue Profiling": "Collaborative", "Autoimmunity and Serology Profiling": "Collaborative"}, "xrefs": [{"db": "pii", "key": "1518553113"}, {"db": "pmc", "key": "PMC4776531"}], "notes": [], "created": "2017-05-03T12:59:10.751Z", "modified": "2021-07-08T13:44:33.077Z"}, {"entity": "publication", "iuid": "1c65428b58d9411b8a95e81e4cab18b5", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1c65428b58d9411b8a95e81e4cab18b5.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1c65428b58d9411b8a95e81e4cab18b5"}}, "title": "Validation of affinity reagents using antigen microarrays.", "authors": [{"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Sundberg", "given": "M\u00e5rten", "initials": "M"}, {"family": "Gundberg", "given": "Anna", "initials": "A"}, {"family": "Sivertsson", "given": "Asa", "initials": "A"}, {"family": "Schwenk", "given": "Jochen M", "initials": "JM", "orcid": "0000-0001-8141-8449", "researcher": {"href": "https://publications.scilifelab.se/researcher/aba5822711b246b397fffacb7ae403b3.json"}}, {"family": "Uhl\u00e9n", "given": "Mathias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal article", "published": "2012-06-15", "journal": {"volume": "29", "issn": "1876-4347", "issue": "5", "pages": "555-563", "title": "N Biotechnol", "issn-l": "1871-6784"}, "abstract": "There is a need for standardised validation of affinity reagents to determine their binding selectivity and specificity. This is of particular importance for systematic efforts that aim to cover the human proteome with different types of binding reagents. One such international program is the SH2-consortium, which was formed to generate a complete set of renewable affinity reagents to the SH2-domain containing human proteins. Here, we describe a microarray strategy to validate various affinity reagents, such as recombinant single-chain antibodies, mouse monoclonal antibodies and antigen-purified polyclonal antibodies using a highly multiplexed approach. An SH2-specific antigen microarray was designed and generated, containing more than 6000 spots displayed by 14 identical subarrays each with 406 antigens, where 105 of them represented SH2-domain containing proteins. Approximately 400 different affinity reagents of various types were analysed on these antigen microarrays carrying antigens of different types. The microarrays revealed not only very detailed specificity profiles for all the binders, but also showed that overlapping target sequences of spotted antigens were detected by off-target interactions. The presented study illustrates the feasibility of using antigen microarrays for integrative, high-throughput validation of various types of binders and antigens.", "doi": "10.1016/j.nbt.2011.11.009", "pmid": "22134247", "labels": {"Autoimmunity and Serology Profiling": "Technology development"}, "xrefs": [{"db": "pii", "key": "S1871-6784(11)00257-3"}], "notes": [], "created": "2017-05-04T14:55:37.189Z", "modified": "2021-07-08T13:44:33.060Z"}, {"entity": "publication", "iuid": "5ee700805e74435b81a690144c426c34", "links": {"self": {"href": "https://publications.scilifelab.se/publication/5ee700805e74435b81a690144c426c34.json"}, "display": {"href": "https://publications.scilifelab.se/publication/5ee700805e74435b81a690144c426c34"}}, "title": "Biosensor Based Protein Profiling on Reverse Phase Serum Microarray", "authors": [{"family": "Sj\u00f6berg", "given": "Ronald", "initials": "R", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Hammarstr\u00f6m", "given": "Lennart", "initials": "L"}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications.scilifelab.se/researcher/799bcf1cf8cf451296f4535dd4ca9dc0.json"}}], "type": "journal-article", "published": "2012-00-00", "journal": {"title": "JPB", "issn": "0974-276X", "issn-l": "0974-276X", "volume": "05", "issue": "08", "pages": null}, "abstract": null, "doi": "10.4172/jpb.1000233", "pmid": null, "labels": {"Autoimmunity and Serology Profiling": "Technology development"}, "xrefs": [], "notes": [], "created": "2017-05-04T14:55:36.331Z", "modified": "2021-07-07T15:55:05.825Z"}, {"entity": "publication", "iuid": "63edf630527848e0b6ac076a603afb2a", "links": {"self": {"href": "https://publications.scilifelab.se/publication/63edf630527848e0b6ac076a603afb2a.json"}, "display": {"href": "https://publications.scilifelab.se/publication/63edf630527848e0b6ac076a603afb2a"}}, "title": "Identification of epigenetically regulated genes that predict patient outcome in neuroblastoma.", "authors": [{"family": "Car\u00e9n", "given": "Helena", "initials": "H"}, {"family": "Djos", "given": "Anna", "initials": "A"}, {"family": "Nethander", "given": "Maria", "initials": "M"}, {"family": "Sj\u00f6berg", "given": "Rose-Marie", "initials": "RM", "orcid": "0000-0003-1363-5796", "researcher": {"href": "https://publications.scilifelab.se/researcher/d08326da26da422ab445a26563843e79.json"}}, {"family": "Kogner", "given": "Per", "initials": "P"}, {"family": "Enstr\u00f6m", "given": "Camilla", "initials": "C"}, {"family": "Nilsson", "given": "Staffan", "initials": "S"}, {"family": "Martinsson", "given": "Tommy", "initials": "T"}], "type": "journal article", "published": "2011-02-11", "journal": {"volume": "11", "issn": "1471-2407", "issue": null, "pages": "66", "title": "BMC Cancer", "issn-l": "1471-2407"}, "abstract": "Epigenetic mechanisms such as DNA methylation and histone modifications are important regulators of gene expression and are frequently involved in silencing tumor suppressor genes.\n\nIn order to identify genes that are epigenetically regulated in neuroblastoma tumors, we treated four neuroblastoma cell lines with the demethylating agent 5-Aza-2'-deoxycytidine (5-Aza-dC) either separately or in conjunction with the histone deacetylase inhibitor trichostatin A (TSA). Expression was analyzed using whole-genome expression arrays to identify genes activated by the treatment. These data were then combined with data from genome-wide DNA methylation arrays to identify candidate genes silenced in neuroblastoma due to DNA methylation.\n\nWe present eight genes (KRT19, PRKCDBP, SCNN1A, POU2F2, TGFBI, COL1A2, DHRS3 and DUSP23) that are methylated in neuroblastoma, most of them not previously reported as such, some of which also distinguish between biological subsets of neuroblastoma tumors. Differential methylation was observed for the genes SCNN1A (p < 0.001), PRKCDBP (p < 0.001) and KRT19 (p < 0.01). Among these, the mRNA expression of KRT19 and PRKCDBP was significantly lower in patients that have died from the disease compared with patients with no evidence of disease (fold change -8.3, p = 0.01 for KRT19 and fold change -2.4, p = 0.04 for PRKCDBP).\n\nIn our study, a low methylation frequency of SCNN1A, PRKCDBP and KRT19 is significantly associated with favorable outcome in neuroblastoma. It is likely that analysis of specific DNA methylation will be one of several methods in future patient therapy stratification protocols for treatment of childhood neuroblastomas.", "doi": "10.1186/1471-2407-11-66", "pmid": "21314941", "labels": {"National Genomics Infrastructure": null, "NGI Uppsala (SNP&SEQ Technology Platform)": null}, "xrefs": [{"db": "pii", "key": "1471-2407-11-66"}, {"db": "pmc", "key": "PMC3045360"}], "notes": [], "created": "2017-05-04T15:00:40.779Z", "modified": "2021-07-07T15:55:21.173Z"}]}