{"entity": "journal", "iuid": "3bd34499814845f4b4430a4046a435f9", "timestamp": "2026-08-14T12:06:57.132Z", "links": {"self": {"href": "https://publications.scilifelab.se/journal/Kidney%20Int..json"}, "display": {"href": "https://publications.scilifelab.se/journal/Kidney%20Int."}}, "title": "Kidney Int.", "issn": "1523-1755", "issn-l": "0085-2538", "publications_count": 7, "publications": [{"entity": "publication", "iuid": "37c388eaa85a440183a77a72f1ceaa6d", "links": {"self": {"href": "https://publications.scilifelab.se/publication/37c388eaa85a440183a77a72f1ceaa6d.json"}, "display": {"href": "https://publications.scilifelab.se/publication/37c388eaa85a440183a77a72f1ceaa6d"}}, "title": "Advanced optical imaging reveals preferred spatial orientation of podocyte processes along the axis of glomerular capillaries.", "authors": [{"family": "Unnersj\u00f6-Jess", "given": "David", "initials": "D"}, {"family": "Ramdedovic", "given": "Amer", "initials": "A"}, {"family": "Butt", "given": "Linus", "initials": "L"}, {"family": "Plagmann", "given": "Ingo", "initials": "I"}, {"family": "H\u00f6hne", "given": "Martin", "initials": "M"}, {"family": "Hackl", "given": "Agnes", "initials": "A"}, {"family": "Brismar", "given": "Hjalmar", "initials": "H"}, {"family": "Blom", "given": "Hans", "initials": "H"}, {"family": "Schermer", "given": "Bernhard", "initials": "B"}, {"family": "Benzing", "given": "Thomas", "initials": "T"}], "type": "journal article", "published": "2023-12-00", "journal": {"title": "Kidney Int.", "issn": "1523-1755", "volume": "104", "issue": "6", "pages": "1164-1169", "issn-l": "0085-2538"}, "abstract": "Mammalian kidneys filter enormous volumes of water and small solutes, a filtration driven by the hydrostatic pressure in glomerular capillaries, which is considerably higher than in most other tissues. Interdigitating cellular processes of podocytes form the slits for fluid filtration connected by the membrane-like slit diaphragm cell junction containing a mechanosensitive ion channel complex and allow filtration while counteracting hydrostatic pressure. Several previous publications speculated that podocyte processes may display a preferable orientation on glomerular capillaries instead of a random distribution. However, for decades, the controversy over spatially oriented filtration slits could not be resolved due to technical limitations of imaging technologies. Here, we used advanced high-resolution, three-dimensional microscopy with high data throughput to assess spatial orientation of podocyte processes and filtration slits quantitatively. Filtration-slit-generating secondary processes preferentially align along the capillaries' longitudinal axis while primary processes are preferably perpendicular to the longitudinal direction. This preferential orientation required maturation in development of the mice but was lost in mice with kidney disease due to treatment with nephrotoxic serum or with underlying heterologous mutations in the podocyte foot process protein podocin. Thus, the observation that podocytes maintain a preferred spatial orientation of their processes on glomerular capillaries goes well in line with the role of podocyte foot processes as mechanical buttresses to counteract mechanical forces resulting from pressurized capillaries. Future studies are needed to establish how podocytes establish and maintain their orientation and why orientation is lost under pathological conditions.", "doi": "10.1016/j.kint.2023.08.024", "pmid": "37774923", "labels": {"Integrated Microscopy Technologies Stockholm": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S0085-2538(23)00673-7"}], "notes": [], "created": "2023-10-10T10:21:26.959Z", "modified": "2023-11-20T14:08:11.537Z"}, {"entity": "publication", "iuid": "e253cf0441bf4b14aee25c34566f2546", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e253cf0441bf4b14aee25c34566f2546.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e253cf0441bf4b14aee25c34566f2546"}}, "title": "Deep learning-based segmentation and quantification of podocyte foot process morphology suggests differential patterns of foot process effacement across kidney pathologies.", "authors": [{"family": "Unnersj\u00f6-Jess", "given": "David", "initials": "D"}, {"family": "Butt", "given": "Linus", "initials": "L"}, {"family": "H\u00f6hne", "given": "Martin", "initials": "M"}, {"family": "Sergei", "given": "German", "initials": "G"}, {"family": "Fatehi", "given": "Arash", "initials": "A"}, {"family": "Witasp", "given": "Anna", "initials": "A"}, {"family": "Wernerson", "given": "Annika", "initials": "A"}, {"family": "Patrakka", "given": "Jaakko", "initials": "J"}, {"family": "Hoyer", "given": "Peter F", "initials": "PF"}, {"family": "Blom", "given": "Hans", "initials": "H"}, {"family": "Schermer", "given": "Bernhard", "initials": "B"}, {"family": "Bozek", "given": "Katarzyna", "initials": "K"}, {"family": "Benzing", "given": "Thomas", "initials": "T"}], "type": "journal article", "published": "2023-03-27", "journal": {"title": "Kidney Int.", "issn": "1523-1755", "issn-l": "0085-2538"}, "abstract": "Morphological alterations at the kidney filtration barrier increase intrinsic capillary wall permeability resulting in albuminuria. However, automated, quantitative assessment of these morphological changes has not been possible with electron or light microscopy. Here we present a deep learning-based approach for segmentation and quantitative analysis of foot processes in images acquired with confocal and super-resolution fluorescence microscopy. Our method, Automatic Morphological Analysis of Podocytes (AMAP), accurately segments podocyte foot processes and quantifies their morphology. AMAP applied to a set of kidney diseases in patient biopsies and a mouse model of focal segmental glomerulosclerosis allowed for accurate and comprehensive quantification of various morphometric features. With the use of AMAP, detailed morphology of podocyte foot process effacement was found to differ between categories of kidney pathologies, showed detailed variability between diverse patients with the same clinical diagnosis, and correlated with levels of proteinuria. AMAP could potentially complement other readouts such as various omics, standard histologic/electron microscopy and blood/urine assays for future personalized diagnosis and treatment of kidney disease. Thus, our novel finding could have implications to afford an understanding of early phases of kidney disease progression and may provide supplemental information in precision diagnostics.", "doi": "10.1016/j.kint.2023.03.013", "pmid": "36990215", "labels": {"Integrated Microscopy Technologies Stockholm": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S0085-2538(23)00180-1"}], "notes": [], "created": "2023-04-10T11:46:31.463Z", "modified": "2023-04-10T11:46:31.466Z"}, {"entity": "publication", "iuid": "02116106bceb47e79fce7b41053a01d8", "links": {"self": {"href": "https://publications.scilifelab.se/publication/02116106bceb47e79fce7b41053a01d8.json"}, "display": {"href": "https://publications.scilifelab.se/publication/02116106bceb47e79fce7b41053a01d8"}}, "title": "Genetic loci and prioritization of genes for kidney function decline derived from a meta-analysis of 62 longitudinal genome-wide association studies.", "authors": [{"family": "Gorski", "given": "Mathias", "initials": "M"}, {"family": "Rasheed", "given": "Humaira", "initials": "H"}, {"family": "Teumer", "given": "Alexander", "initials": "A"}, {"family": "Thomas", "given": "Laurent F", "initials": "LF"}, {"family": "Graham", "given": "Sarah E", "initials": "SE"}, {"family": "Sveinbjornsson", "given": "Gardar", "initials": "G"}, {"family": "Winkler", "given": "Thomas W", "initials": "TW"}, {"family": "G\u00fcnther", "given": "Felix", "initials": "F"}, {"family": "Stark", "given": "Klaus J", "initials": "KJ"}, {"family": "Chai", "given": "Jin-Fang", "initials": "JF"}, {"family": "Tayo", "given": "Bamidele O", "initials": "BO"}, {"family": "Wuttke", "given": "Matthias", "initials": "M"}, {"family": "Li", "given": "Yong", "initials": "Y"}, {"family": "Tin", "given": "Adrienne", "initials": "A"}, {"family": "Ahluwalia", "given": "Tarunveer S", "initials": "TS"}, {"family": "\u00c4rnl\u00f6v", "given": "Johan", "initials": "J"}, {"family": "\u00c5svold", "given": "Bj\u00f8rn Olav", "initials": "BO"}, {"family": "Bakker", "given": "Stephan J L", "initials": "SJL"}, {"family": "Banas", "given": "Bernhard", "initials": "B"}, {"family": "Bansal", "given": "Nisha", "initials": "N"}, {"family": "Biggs", "given": "Mary L", "initials": "ML"}, {"family": "Biino", "given": "Ginevra", "initials": "G"}, {"family": "B\u00f6hnke", "given": "Michael", "initials": "M"}, {"family": "Boerwinkle", "given": "Eric", "initials": "E"}, {"family": "Bottinger", "given": "Erwin P", "initials": "EP"}, {"family": "Brenner", "given": "Hermann", "initials": "H"}, {"family": "Brumpton", "given": "Ben", "initials": "B"}, {"family": "Carroll", "given": "Robert J", "initials": "RJ"}, {"family": "Chaker", "given": "Layal", "initials": "L"}, {"family": "Chalmers", "given": "John", "initials": "J"}, {"family": "Chee", "given": "Miao-Li", "initials": "ML"}, {"family": "Chee", "given": "Miao-Ling", "initials": "ML"}, {"family": "Cheng", "given": "Ching-Yu", "initials": "CY"}, {"family": "Chu", "given": "Audrey Y", "initials": "AY"}, {"family": "Ciullo", "given": "Marina", "initials": "M"}, {"family": "Cocca", "given": "Massimiliano", "initials": "M"}, {"family": "Cook", "given": "James P", "initials": "JP"}, {"family": "Coresh", "given": "Josef", "initials": "J"}, {"family": "Cusi", "given": "Daniele", "initials": "D"}, {"family": "de Borst", "given": "Martin H", "initials": "MH"}, {"family": "Degenhardt", "given": "Frauke", "initials": "F"}, {"family": "Eckardt", "given": "Kai-Uwe", "initials": "KU"}, {"family": "Endlich", "given": "Karlhans", "initials": "K"}, {"family": "Evans", "given": "Michele K", "initials": "MK"}, {"family": "Feitosa", "given": "Mary F", "initials": "MF"}, {"family": "Franke", "given": "Andre", "initials": "A"}, {"family": "Freitag-Wolf", "given": "Sandra", "initials": "S"}, {"family": "Fuchsberger", "given": "Christian", "initials": "C"}, {"family": "Gampawar", "given": "Piyush", "initials": "P"}, {"family": "Gansevoort", "given": "Ron T", "initials": "RT"}, {"family": "Ghanbari", "given": "Mohsen", "initials": "M"}, {"family": "Ghasemi", "given": "Sahar", "initials": "S"}, {"family": "Giedraitis", "given": "Vilmantas", "initials": "V"}, {"family": "Gieger", "given": "Christian", "initials": "C"}, {"family": "Gudbjartsson", "given": "Daniel F", "initials": "DF"}, {"family": "Hallan", "given": "Stein", "initials": "S"}, {"family": "Hamet", "given": "Pavel", "initials": "P"}, {"family": "Hishida", "given": "Asahi", "initials": "A"}, {"family": "Ho", "given": "Kevin", "initials": "K"}, {"family": "Hofer", "given": "Edith", "initials": "E"}, {"family": "Holleczek", "given": "Bernd", "initials": "B"}, {"family": "Holm", "given": "Hilma", "initials": "H"}, {"family": "Hoppmann", "given": "Anselm", "initials": "A"}, {"family": "Horn", "given": "Katrin", "initials": "K"}, {"family": "Hutri-K\u00e4h\u00f6nen", "given": "Nina", "initials": "N"}, {"family": "Hveem", "given": "Kristian", "initials": "K"}, {"family": "Hwang", "given": "Shih-Jen", "initials": "SJ"}, {"family": "Ikram", "given": "M Arfan", "initials": "MA"}, {"family": "Josyula", "given": "Navya Shilpa", "initials": "NS"}, {"family": "Jung", "given": "Bettina", "initials": "B"}, {"family": "K\u00e4h\u00f6nen", "given": "Mika", "initials": "M"}, {"family": "Karabegovi\u0107", "given": "Irma", "initials": "I"}, {"family": "Khor", "given": "Chiea-Chuen", "initials": "CC"}, {"family": "Koenig", "given": "Wolfgang", "initials": "W"}, {"family": "Kramer", "given": "Holly", "initials": "H"}, {"family": "Kr\u00e4mer", "given": "Bernhard K", "initials": "BK"}, {"family": "K\u00fchnel", "given": "Brigitte", "initials": "B"}, {"family": "Kuusisto", "given": "Johanna", "initials": "J"}, {"family": "Laakso", "given": "Markku", "initials": "M"}, {"family": "Lange", "given": "Leslie A", "initials": "LA"}, {"family": "Lehtim\u00e4ki", "given": "Terho", "initials": "T"}, {"family": "Li", "given": "Man", "initials": "M"}, {"family": "Lieb", "given": "Wolfgang", "initials": "W"}, {"family": "Lifelines Cohort Study", "given": "", "initials": ""}, {"family": "Lind", "given": "Lars", "initials": "L"}, {"family": "Lindgren", "given": "Cecilia M", "initials": "CM"}, {"family": "Loos", "given": "Ruth J F", "initials": "RJF"}, {"family": "Lukas", "given": "Mary Ann", "initials": "MA"}, {"family": "Lyytik\u00e4inen", "given": "Leo-Pekka", "initials": "LP"}, {"family": "Mahajan", "given": "Anubha", "initials": "A"}, {"family": "Matias-Garcia", "given": "Pamela R", "initials": "PR"}, {"family": "Meisinger", "given": "Christa", "initials": "C"}, {"family": "Meitinger", "given": "Thomas", "initials": "T"}, {"family": "Melander", "given": "Olle", "initials": "O"}, {"family": "Milaneschi", "given": "Yuri", "initials": "Y"}, {"family": "Mishra", "given": "Pashupati P", "initials": "PP"}, {"family": "Mononen", "given": "Nina", "initials": "N"}, {"family": "Morris", "given": "Andrew P", "initials": "AP"}, {"family": "Mychaleckyj", "given": "Josyf C", "initials": "JC"}, {"family": "Nadkarni", "given": "Girish N", "initials": "GN"}, {"family": "Naito", "given": "Mariko", "initials": "M"}, {"family": "Nakatochi", "given": "Masahiro", "initials": "M"}, {"family": "Nalls", "given": "Mike A", "initials": "MA"}, {"family": "Nauck", "given": "Matthias", "initials": "M"}, {"family": "Nikus", "given": "Kjell", "initials": "K"}, {"family": "Ning", "given": "Boting", "initials": "B"}, {"family": "Nolte", "given": "Ilja M", "initials": "IM"}, {"family": "Nutile", "given": "Teresa", "initials": "T"}, {"family": "O'Donoghue", "given": "Michelle L", "initials": "ML"}, {"family": "O'Connell", "given": "Jeffrey", "initials": "J"}, {"family": "Olafsson", "given": "Isleifur", "initials": "I"}, {"family": "Orho-Melander", "given": "Marju", "initials": "M"}, {"family": "Parsa", "given": "Afshin", "initials": "A"}, {"family": "Pendergrass", "given": "Sarah A", "initials": "SA"}, {"family": "Penninx", "given": "Brenda W J H", "initials": "BWJH"}, {"family": "Pirastu", "given": "Mario", "initials": "M"}, {"family": "Preuss", "given": "Michael H", "initials": "MH"}, {"family": "Psaty", "given": "Bruce M", "initials": "BM"}, {"family": "Raffield", "given": "Laura M", "initials": "LM"}, {"family": "Raitakari", "given": "Olli T", "initials": "OT"}, {"family": "Rheinberger", "given": "Myriam", "initials": "M"}, {"family": "Rice", "given": "Kenneth M", "initials": "KM"}, {"family": "Rizzi", "given": "Federica", "initials": "F"}, {"family": "Rosenkranz", "given": "Alexander R", "initials": "AR"}, {"family": "Rossing", "given": "Peter", "initials": "P"}, {"family": "Rotter", "given": "Jerome I", "initials": "JI"}, {"family": "Ruggiero", "given": "Daniela", "initials": "D"}, {"family": "Ryan", "given": "Kathleen A", "initials": "KA"}, {"family": "Sabanayagam", "given": "Charumathi", "initials": "C"}, {"family": "Salvi", "given": "Erika", "initials": "E"}, {"family": "Schmidt", "given": "Helena", "initials": "H"}, {"family": "Schmidt", "given": "Reinhold", "initials": "R"}, {"family": "Scholz", "given": "Markus", "initials": "M"}, {"family": "Sch\u00f6ttker", "given": "Ben", "initials": "B"}, {"family": "Schulz", "given": "Christina-Alexandra", "initials": "CA"}, {"family": "Sedaghat", "given": "Sanaz", "initials": "S"}, {"family": "Shaffer", "given": "Christian M", "initials": "CM"}, {"family": "Sieber", "given": "Karsten B", "initials": "KB"}, {"family": "Sim", "given": "Xueling", "initials": "X"}, {"family": "Sims", "given": "Mario", "initials": "M"}, {"family": "Snieder", "given": "Harold", "initials": "H"}, {"family": "Stanzick", "given": "Kira J", "initials": "KJ"}, {"family": "Thorsteinsdottir", "given": "Unnur", "initials": "U"}, {"family": "Stocker", "given": "Hannah", "initials": "H"}, {"family": "Strauch", "given": "Konstantin", "initials": "K"}, {"family": "Stringham", "given": "Heather M", "initials": "HM"}, {"family": "Sulem", "given": "Patrick", "initials": "P"}, {"family": "Szymczak", "given": "Silke", "initials": "S"}, {"family": "Taylor", "given": "Kent D", "initials": "KD"}, {"family": "Thio", "given": "Chris H L", "initials": "CHL"}, {"family": "Tremblay", "given": "Johanne", "initials": "J"}, {"family": "Vaccargiu", "given": "Simona", "initials": "S"}, {"family": "van der Harst", "given": "Pim", "initials": "P"}, {"family": "van der Most", "given": "Peter J", "initials": "PJ"}, {"family": "Verweij", "given": "Niek", "initials": "N"}, {"family": "V\u00f6lker", "given": "Uwe", "initials": "U"}, {"family": "Wakai", "given": "Kenji", "initials": "K"}, {"family": "Waldenberger", "given": "Melanie", "initials": "M"}, {"family": "Wallentin", "given": "Lars", "initials": "L"}, {"family": "Wallner", "given": "Stefan", "initials": "S"}, {"family": "Wang", "given": "Judy", "initials": "J"}, {"family": "Waterworth", "given": "Dawn M", "initials": "DM"}, {"family": "White", "given": "Harvey D", "initials": "HD"}, {"family": "Willer", "given": "Cristen J", "initials": "CJ"}, {"family": "Wong", "given": "Tien-Yin", "initials": "TY"}, {"family": "Woodward", "given": "Mark", "initials": "M"}, {"family": "Yang", "given": "Qiong", "initials": "Q"}, {"family": "Yerges-Armstrong", "given": "Laura M", "initials": "LM"}, {"family": "Zimmermann", "given": "Martina", "initials": "M"}, {"family": "Zonderman", "given": "Alan B", "initials": "AB"}, {"family": "Bergler", "given": "Tobias", "initials": "T"}, {"family": "Stefansson", "given": "Kari", "initials": "K"}, {"family": "B\u00f6ger", "given": "Carsten A", "initials": "CA"}, {"family": "Pattaro", "given": "Cristian", "initials": "C"}, {"family": "K\u00f6ttgen", "given": "Anna", "initials": "A"}, {"family": "Kronenberg", "given": "Florian", "initials": "F"}, {"family": "Heid", "given": "Iris M", "initials": "IM"}], "type": "journal article", "published": "2022-06-16", "journal": {"title": "Kidney Int.", "issn": "1523-1755", "issn-l": "0085-2538"}, "abstract": "Estimated glomerular filtration rate (eGFR) reflects kidney function. Progressive eGFR-decline can lead to kidney failure, necessitating dialysis or transplantation. Hundreds of loci from genome-wide association studies (GWAS) for eGFR help explain population cross section variability. Since the contribution of these or other loci to eGFR-decline remains largely unknown, we derived GWAS for annual eGFR-decline and meta-analyzed 62 longitudinal studies with eGFR assessed twice over time in all 343,339 individuals and in high-risk groups. We also explored different covariate adjustment. Twelve genome-wide significant independent variants for eGFR-decline unadjusted or adjusted for eGFR-baseline (11 novel, one known for this phenotype), including nine variants robustly associated across models were identified. All loci for eGFR-decline were known for cross-sectional eGFR and thus distinguished a subgroup of eGFR loci. Seven of the nine variants showed variant-by-age interaction on eGFR cross section (further about 350,000 individuals), which linked genetic associations for eGFR-decline with age-dependency of genetic cross-section associations. Clinically important were two to four-fold greater genetic effects on eGFR-decline in high-risk subgroups. Five variants associated also with chronic kidney disease progression mapped to genes with functional in-silico evidence (UMOD, SPATA7, GALNTL5, TPPP). An unfavorable versus favorable nine-variant genetic profile showed increased risk odds ratios of 1.35 for kidney failure (95% confidence intervals 1.03-1.77) and 1.27 for acute kidney injury (95% confidence intervals 1.08-1.50) in over 2000 cases each, with matched controls). Thus, we provide a large data resource, genetic loci, and prioritized genes for kidney function decline, which help inform drug development pipelines revealing important insights into the age-dependency of kidney function genetics.", "doi": "10.1016/j.kint.2022.05.021", "pmid": "35716955", "labels": {"NGI SNP genotyping": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pii", "key": "S0085-2538(22)00454-9"}], "notes": [], "created": "2022-08-16T13:29:40.854Z", "modified": "2022-08-16T13:29:40.870Z"}, {"entity": "publication", "iuid": "1709ae2a29f648c1b91bf3572239c1c9", "links": {"self": {"href": "https://publications.scilifelab.se/publication/1709ae2a29f648c1b91bf3572239c1c9.json"}, "display": {"href": "https://publications.scilifelab.se/publication/1709ae2a29f648c1b91bf3572239c1c9"}}, "title": "Meta-analysis uncovers genome-wide significant variants for rapid kidney function decline.", "authors": [{"family": "Gorski", "given": "Mathias", "initials": "M", "orcid": "0000-0003-2229-1120", "researcher": {"href": "https://publications.scilifelab.se/researcher/ebc59079554842ecb3512ef90249a2f2.json"}}, {"family": "Jung", "given": "Bettina", "initials": "B"}, {"family": "Li", "given": "Yong", "initials": "Y"}, {"family": "Matias-Garcia", "given": "Pamela R", "initials": "PR"}, {"family": "Wuttke", "given": "Matthias", "initials": "M"}, {"family": "Coassin", "given": "Stefan", "initials": "S"}, {"family": "Thio", "given": "Chris H L", "initials": "CHL"}, {"family": "Kleber", "given": "Marcus E", "initials": "ME"}, {"family": "Winkler", "given": "Thomas W", "initials": "TW"}, {"family": "Wanner", "given": "Veronika", "initials": "V"}, {"family": "Chai", "given": "Jin-Fang", "initials": "J"}, {"family": "Chu", "given": "Audrey Y", "initials": "AY"}, {"family": "Cocca", "given": "Massimiliano", "initials": "M"}, {"family": "Feitosa", "given": "Mary F", "initials": "MF"}, {"family": "Ghasemi", "given": "Sahar", "initials": "S"}, {"family": "Hoppmann", "given": "Anselm", "initials": "A"}, {"family": "Horn", "given": "Katrin", "initials": "K"}, {"family": "Li", "given": "Man", "initials": "M"}, {"family": "Nutile", "given": "Teresa", "initials": "T"}, {"family": "Scholz", "given": "Markus", "initials": "M"}, {"family": "Sieber", "given": "Karsten B", "initials": "KB"}, {"family": "Teumer", "given": "Alexander", "initials": "A"}, {"family": "Tin", "given": "Adrienne", "initials": "A"}, {"family": "Wang", "given": "Judy", "initials": "J"}, {"family": "Tayo", "given": "Bamidele O", "initials": "BO"}, {"family": "Ahluwalia", "given": "Tarunveer S", "initials": "TS"}, {"family": "Almgren", "given": "Peter", "initials": "P"}, {"family": "Bakker", "given": "Stephan J L", "initials": "SJL"}, {"family": "Banas", "given": "Bernhard", "initials": "B"}, {"family": "Bansal", "given": "Nisha", "initials": "N"}, {"family": "Biggs", "given": "Mary L", "initials": "ML"}, {"family": "Boerwinkle", "given": "Eric", "initials": "E"}, {"family": "Bottinger", "given": "Erwin P", "initials": "EP"}, {"family": "Brenner", "given": "Hermann", "initials": "H"}, {"family": "Carroll", "given": "Robert J", "initials": "RJ"}, {"family": "Chalmers", "given": "John", "initials": "J"}, {"family": "Chee", "given": "Miao-Li", "initials": "M"}, {"family": "Chee", "given": "Miao-Ling", "initials": "M"}, {"family": "Cheng", "given": "Ching-Yu", "initials": "C"}, {"family": "Coresh", "given": "Josef", "initials": "J"}, {"family": "de Borst", "given": "Martin H", "initials": "MH"}, {"family": "Degenhardt", "given": "Frauke", "initials": "F"}, {"family": "Eckardt", "given": "Kai-Uwe", "initials": "K"}, {"family": "Endlich", "given": "Karlhans", "initials": "K"}, {"family": "Franke", "given": "Andre", "initials": "A"}, {"family": "Freitag-Wolf", "given": "Sandra", "initials": "S"}, {"family": "Gampawar", "given": "Piyush", "initials": "P"}, {"family": "Gansevoort", "given": "Ron T", "initials": "RT"}, {"family": "Ghanbari", "given": "Mohsen", "initials": "M"}, {"family": "Gieger", "given": "Christian", "initials": "C"}, {"family": "Hamet", "given": "Pavel", "initials": "P"}, {"family": "Ho", "given": "Kevin", "initials": "K"}, {"family": "Hofer", "given": "Edith", "initials": "E"}, {"family": "Holleczek", "given": "Bernd", "initials": "B"}, {"family": "Xian Foo", "given": "Valencia Hui", "initials": "VH"}, {"family": "Hutri-K\u00e4h\u00f6nen", "given": "Nina", "initials": "N"}, {"family": "Hwang", "given": "Shih-Jen", "initials": "S"}, {"family": "Ikram", "given": "M Arfan", "initials": "MA"}, {"family": "Josyula", "given": "Navya Shilpa", "initials": "NS"}, {"family": "K\u00e4h\u00f6nen", "given": "Mika", "initials": "M"}, {"family": "Khor", "given": "Chiea-Chuen", "initials": "C"}, {"family": "Koenig", "given": "Wolfgang", "initials": "W"}, {"family": "Kramer", "given": "Holly", "initials": "H"}, {"family": "Kr\u00e4mer", "given": "Bernhard K", "initials": "BK"}, {"family": "K\u00fchnel", "given": "Brigitte", "initials": "B"}, {"family": "Lange", "given": "Leslie A", "initials": "LA"}, {"family": "Lehtim\u00e4ki", "given": "Terho", "initials": "T"}, {"family": "Lieb", "given": "Wolfgang", "initials": "W"}, {"family": "Lifelines Cohort Study", "given": "", "initials": ""}, {"family": "Regeneron Genetics Center", "given": "", "initials": ""}, {"family": "Loos", "given": "Ruth J F", "initials": "RJF"}, {"family": "Lukas", "given": "Mary Ann", "initials": "MA"}, {"family": "Lyytik\u00e4inen", "given": "Leo-Pekka", "initials": "L"}, {"family": "Meisinger", "given": "Christa", "initials": "C"}, {"family": "Meitinger", "given": "Thomas", "initials": "T"}, {"family": "Melander", "given": "Olle", "initials": "O"}, {"family": "Milaneschi", "given": "Yuri", "initials": "Y"}, {"family": "Mishra", "given": "Pashupati P", "initials": "PP"}, {"family": "Mononen", "given": "Nina", "initials": "N"}, {"family": "Mychaleckyj", "given": "Josyf C", "initials": "JC"}, {"family": "Nadkarni", "given": "Girish N", "initials": "GN"}, {"family": "Nauck", "given": "Matthias", "initials": "M"}, {"family": "Nikus", "given": "Kjell", "initials": "K"}, {"family": "Ning", "given": "Boting", "initials": "B"}, {"family": "Nolte", "given": "Ilja M", "initials": "IM"}, {"family": "O'Donoghue", "given": "Michelle L", "initials": "ML"}, {"family": "Orho-Melander", "given": "Marju", "initials": "M"}, {"family": "Pendergrass", "given": "Sarah A", "initials": "SA"}, {"family": "Penninx", "given": "Brenda W J H", "initials": "BWJH"}, {"family": "Preuss", "given": "Michael H", "initials": "MH"}, {"family": "Psaty", "given": "Bruce M", "initials": "BM"}, {"family": "Raffield", "given": "Laura M", "initials": "LM"}, {"family": "Raitakari", "given": "Olli T", "initials": "OT"}, {"family": "Rettig", "given": "Rainer", "initials": "R"}, {"family": "Rheinberger", "given": "Myriam", "initials": "M"}, {"family": "Rice", "given": "Kenneth M", "initials": "KM"}, {"family": "Rosenkranz", "given": "Alexander R", "initials": "AR"}, {"family": "Rossing", "given": "Peter", "initials": "P"}, {"family": "Rotter", "given": "Jerome I", "initials": "JI"}, {"family": "Sabanayagam", "given": "Charumathi", "initials": "C"}, {"family": "Schmidt", "given": "Helena", "initials": "H"}, {"family": "Schmidt", "given": "Reinhold", "initials": "R"}, {"family": "Sch\u00f6ttker", "given": "Ben", "initials": "B"}, {"family": "Schulz", "given": "Christina-Alexandra", "initials": "C"}, {"family": "Sedaghat", "given": "Sanaz", "initials": "S"}, {"family": "Shaffer", "given": "Christian M", "initials": "CM"}, {"family": "Strauch", "given": "Konstantin", "initials": "K"}, {"family": "Szymczak", "given": "Silke", "initials": "S"}, {"family": "Taylor", "given": "Kent D", "initials": "KD"}, {"family": "Tremblay", "given": "Johanne", "initials": "J"}, {"family": "Chaker", "given": "Layal", "initials": "L"}, {"family": "van der Harst", "given": "Pim", "initials": "P"}, {"family": "van der Most", "given": "Peter J", "initials": "PJ"}, {"family": "Verweij", "given": "Niek", "initials": "N"}, {"family": "V\u00f6lker", "given": "Uwe", "initials": "U"}, {"family": "Waldenberger", "given": "Melanie", "initials": "M"}, {"family": "Wallentin", "given": "Lars", "initials": "L"}, {"family": "Waterworth", "given": "Dawn M", "initials": "DM"}, {"family": "White", "given": "Harvey D", "initials": "HD"}, {"family": "Wilson", "given": "James G", "initials": "JG"}, {"family": "Wong", "given": "Tien-Yin", "initials": "T"}, {"family": "Woodward", "given": "Mark", "initials": "M"}, {"family": "Yang", "given": "Qiong", "initials": "Q"}, {"family": "Yasuda", "given": "Masayuki", "initials": "M"}, {"family": "Yerges-Armstrong", "given": "Laura M", "initials": "LM"}, {"family": "Zhang", "given": "Yan", "initials": "Y"}, {"family": "Snieder", "given": "Harold", "initials": "H"}, {"family": "Wanner", "given": "Christoph", "initials": "C"}, {"family": "B\u00f6ger", "given": "Carsten A", "initials": "CA"}, {"family": "K\u00f6ttgen", "given": "Anna", "initials": "A", "orcid": "0000-0002-4671-3714", "researcher": {"href": "https://publications.scilifelab.se/researcher/fe4cb85a14da4db6bc932a8bc4148efb.json"}}, {"family": "Kronenberg", "given": "Florian", "initials": "F"}, {"family": "Pattaro", "given": "Cristian", "initials": "C"}, {"family": "Heid", "given": "Iris M", "initials": "IM"}], "type": "journal article", "published": "2021-04-00", "journal": {"title": "Kidney Int.", "issn": "1523-1755", "issn-l": "0085-2538", "volume": "99", "issue": "4", "pages": "926-939"}, "abstract": "Rapid decline of glomerular filtration rate estimated from creatinine (eGFRcrea) is associated with severe clinical endpoints. In contrast to cross-sectionally assessed eGFRcrea, the genetic basis for rapid eGFRcrea decline is largely unknown. To help define this, we meta-analyzed 42 genome-wide association studies from the Chronic Kidney Diseases Genetics Consortium and United Kingdom Biobank to identify genetic loci for rapid eGFRcrea decline. Two definitions of eGFRcrea decline were used: 3 mL/min/1.73m2/year or more (\"Rapid3\"; encompassing 34,874 cases, 107,090 controls) and eGFRcrea decline 25% or more and eGFRcrea under 60 mL/min/1.73m2 at follow-up among those with eGFRcrea 60 mL/min/1.73m2 or more at baseline (\"CKDi25\"; encompassing 19,901 cases, 175,244 controls). Seven independent variants were identified across six loci for Rapid3 and/or CKDi25: consisting of five variants at four loci with genome-wide significance (near UMOD-PDILT (2), PRKAG2, WDR72, OR2S2) and two variants among 265 known eGFRcrea variants (near GATM, LARP4B). All these loci were novel for Rapid3 and/or CKDi25 and our bioinformatic follow-up prioritized variants and genes underneath these loci. The OR2S2 locus is novel for any eGFRcrea trait including interesting candidates. For the five genome-wide significant lead variants, we found supporting effects for annual change in blood urea nitrogen or cystatin-based eGFR, but not for GATM or LARP4B. Individuals at high compared to those at low genetic risk (8-14 vs. 0-5 adverse alleles) had a 1.20-fold increased risk of acute kidney injury (95% confidence interval 1.08-1.33). Thus, our identified loci for rapid kidney function decline may help prioritize therapeutic targets and identify mechanisms and individuals at risk for sustained deterioration of kidney function.", "doi": "10.1016/j.kint.2020.09.030", "pmid": "33137338", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service"}, "xrefs": [{"db": "pii", "key": "S0085-2538(20)31239-4"}, {"db": "pmc", "key": "PMC8010357"}, {"db": "mid", "key": "NIHMS1677067"}], "notes": [], "created": "2020-11-05T14:07:50.074Z", "modified": "2021-12-07T13:33:16.249Z"}, {"entity": "publication", "iuid": "acca470557ad43cb8a3ce3d49347e825", "links": {"self": {"href": "https://publications.scilifelab.se/publication/acca470557ad43cb8a3ce3d49347e825.json"}, "display": {"href": "https://publications.scilifelab.se/publication/acca470557ad43cb8a3ce3d49347e825"}}, "title": "A fast and simple clearing and swelling protocol for 3D in-situ imaging of the kidney across scales.", "authors": [{"family": "Unnersj\u00f6-Jess", "given": "David", "initials": "D"}, {"family": "Butt", "given": "Linus", "initials": "L"}, {"family": "H\u00f6hne", "given": "Martin", "initials": "M"}, {"family": "Witasp", "given": "Anna", "initials": "A"}, {"family": "K\u00fchne", "given": "Lucas", "initials": "L"}, {"family": "Hoyer", "given": "Peter F", "initials": "PF"}, {"family": "Patrakka", "given": "Jaakko", "initials": "J"}, {"family": "Brinkk\u00f6tter", "given": "Paul T", "initials": "PT"}, {"family": "Wernerson", "given": "Annika", "initials": "A"}, {"family": "Schermer", "given": "Bernhard", "initials": "B"}, {"family": "Benzing", "given": "Thomas", "initials": "T"}, {"family": "Scott", "given": "Lena", "initials": "L"}, {"family": "Brismar", "given": "Hjalmar", "initials": "H", "orcid": "0000-0003-0578-4003", "researcher": {"href": "https://publications.scilifelab.se/researcher/1ec23336e2ef4e298f340876f1136dce.json"}}, {"family": "Blom", "given": "Hans", "initials": "H"}], "type": "journal article", "published": "2021-04-00", "journal": {"title": "Kidney Int.", "issn": "1523-1755", "issn-l": "0085-2538", "volume": "99", "issue": "4", "pages": "1010-1020"}, "abstract": "In recent years, many light-microscopy protocols have been published for visualization of nanoscale structures in the kidney. These protocols present researchers with new tools to evaluate both foot process anatomy and effacement, as well as protein distributions in foot processes, the slit diaphragm and in the glomerular basement membrane. However, these protocols either involve the application of different complicated super resolution microscopes or lengthy sample preparation protocols. Here, we present a fast and simple, five-hour long procedure for three-dimensional visualization of kidney morphology on all length scales. The protocol combines optical clearing and tissue expansion concepts to produce a mild swelling, sufficient for resolving nanoscale structures using a conventional confocal microscope. We show that the protocol can be applied to visualize a wide variety of pathologic features in both mouse and human kidneys. Thus, our fast and simple protocol can be beneficial for conventional microscopic evaluation of kidney tissue integrity both in research and possibly in future clinical routines.", "doi": "10.1016/j.kint.2020.10.039", "pmid": "33285146", "labels": {"Integrated Microscopy Technologies Stockholm": "Technology development"}, "xrefs": [{"db": "pii", "key": "S0085-2538(20)31409-5"}], "notes": [], "created": "2020-12-08T08:41:52.455Z", "modified": "2021-11-10T12:26:10.206Z"}, {"entity": "publication", "iuid": "e68402ce3d41424fa6b0e708470188bb", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e68402ce3d41424fa6b0e708470188bb.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e68402ce3d41424fa6b0e708470188bb"}}, "title": "Prevention of apoptosis averts glomerular tubular disconnection and podocyte loss in proteinuric kidney disease.", "authors": [{"family": "Burlaka", "given": "Ievgeniia", "initials": "I"}, {"family": "Nilsson", "given": "Linn\u00e9a M", "initials": "LM"}, {"family": "Scott", "given": "Lena", "initials": "L"}, {"family": "Holtb\u00e4ck", "given": "Ulla", "initials": "U"}, {"family": "Ekl\u00f6f", "given": "Ann-Christine", "initials": "AC"}, {"family": "Fogo", "given": "Agnes B", "initials": "AB"}, {"family": "Brismar", "given": "Hjalmar", "initials": "H", "orcid": "0000-0003-0578-4003", "researcher": {"href": "https://publications.scilifelab.se/researcher/1ec23336e2ef4e298f340876f1136dce.json"}}, {"family": "Aperia", "given": "Anita", "initials": "A"}], "type": "journal article", "published": "2016-07-00", "journal": {"volume": "90", "issn": "1523-1755", "issue": "1", "pages": "135-148", "title": "Kidney Int.", "issn-l": "0085-2538"}, "abstract": "There is a great need for treatment that arrests progression of chronic kidney disease. Increased albumin in urine leads to apoptosis and fibrosis of podocytes and tubular cells and is a major cause of functional deterioration. There have been many attempts to target fibrosis, but because of the lack of appropriate agents, few have targeted apoptosis. Our group has described an ouabain-activated Na,K-ATPase/IP3R signalosome, which protects from apoptosis. Here we show that albumin uptake in primary rat renal epithelial cells is accompanied by a time- and dose-dependent mitochondrial accumulation of the apoptotic factor Bax, down-regulation of the antiapoptotic factor Bcl-xL and mitochondrial membrane depolarization. Ouabain opposes these effects and protects from apoptosis in albumin-exposed proximal tubule cells and podocytes. The efficacy of ouabain as an antiapoptotic and kidney-protective therapeutic tool was then tested in rats with passive Heymann nephritis, a model of proteinuric chronic kidney disease. Chronic ouabain treatment preserved renal function, protected from renal cortical apoptosis, up-regulated Bax, down-regulated Bcl-xL, and rescued from glomerular tubular disconnection and podocyte loss. Thus we have identified a novel clinically feasible therapeutic tool, which has the potential to protect from apoptosis and rescue from loss of functional tissue in chronic proteinuric kidney disease.", "doi": "10.1016/j.kint.2016.03.026", "pmid": "27217195", "labels": {"Integrated Microscopy Technologies Stockholm": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S0085-2538(16)30114-4"}], "notes": [], "created": "2017-05-03T12:59:23.172Z", "modified": "2021-07-05T13:44:34.802Z"}, {"entity": "publication", "iuid": "9f643915c44d4b47867d3866c783ad00", "links": {"self": {"href": "https://publications.scilifelab.se/publication/9f643915c44d4b47867d3866c783ad00.json"}, "display": {"href": "https://publications.scilifelab.se/publication/9f643915c44d4b47867d3866c783ad00"}}, "title": "Super-resolution stimulated emission depletion imaging of slit diaphragm proteins in optically cleared kidney tissue.", "authors": [{"family": "Unnersj\u00f6-Jess", "given": "David", "initials": "D"}, {"family": "Scott", "given": "Lena", "initials": "L"}, {"family": "Blom", "given": "Hans", "initials": "H", "orcid": "0000-0002-5584-9170", "researcher": {"href": "https://publications.scilifelab.se/researcher/3ce356a74dc84e0ea6af85397f11d869.json"}}, {"family": "Brismar", "given": "Hjalmar", "initials": "H", "orcid": "0000-0003-0578-4003", "researcher": {"href": "https://publications.scilifelab.se/researcher/1ec23336e2ef4e298f340876f1136dce.json"}}], "type": "journal article", "published": "2016-01-00", "journal": {"volume": "89", "issn": "1523-1755", "issue": "1", "pages": "243-247", "title": "Kidney Int.", "issn-l": "0085-2538"}, "abstract": "The glomerular filtration barrier, consisting of podocyte foot processes with bridging slit diaphragm, glomerular basement membrane, and endothelium, is a key component for renal function. Previously, the subtlest elements of the filtration barrier have only been visualized using electron microscopy. However, electron microscopy is mostly restricted to ultrathin two-dimensional samples, and the possibility to simultaneously visualize multiple different proteins is limited. Therefore, we sought to implement a super-resolution immunofluorescence microscopy protocol for the study of the filtration barrier in the kidney. Recently, several optical clearing methods have been developed making it possible to image through large volumes of tissue and even whole organs using light microscopy. Here we found that hydrogel-based optical clearing is a beneficial tool to study intact renal tissue at the nanometer scale. When imaging samples using super-resolution STED microscopy, the staining quality was critical in order to assess correct nanoscale information. The signal-to-noise ratio and immunosignal homogeneity were both improved in optically cleared tissue. Thus, STED of slit diaphragms in fluorescently labeled, optically cleared, intact kidney samples is a new tool for studying the glomerular filtration barrier in health and disease.", "doi": "10.1038/ki.2015.308", "pmid": "26444032", "labels": {"Integrated Microscopy Technologies Stockholm": "Technology development"}, "xrefs": [{"db": "pii", "key": "S0085-2538(15)00035-6"}], "notes": [], "created": "2017-05-03T12:59:23.474Z", "modified": "2021-07-05T13:48:51.586Z"}], "created": "2017-05-09T09:12:03.193Z", "modified": "2020-11-27T13:14:04.498Z"}