{"entity": "researcher", "timestamp": "2026-08-15T07:36:19.895Z", "family": "Klymchenko", "given": "Andrey S", "initials": "AS", "orcid": "0000-0002-2423-830X", "affiliations": [], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31"}}, "publications": [{"entity": "publication", "iuid": "620de2e2e0254e39badffe46c74f3070", "links": {"self": {"href": "https://publications.scilifelab.se/publication/620de2e2e0254e39badffe46c74f3070.json"}, "display": {"href": "https://publications.scilifelab.se/publication/620de2e2e0254e39badffe46c74f3070"}}, "title": "Spectral biophysical cytometry with nanosensors reveals remodelling of immune cells in atherosclerosis.", "authors": [{"family": "Gurdap", "given": "Cenk O", "initials": "CO", "orcid": "0000-0002-5327-2523", "researcher": {"href": "https://publications.scilifelab.se/researcher/9e3e5501e8d84f46884f1001367ab262.json"}}, {"family": "Aydos", "given": "Dunya", "initials": "D", "orcid": "0000-0003-3574-7844", "researcher": {"href": "https://publications.scilifelab.se/researcher/8bf4db3d7a3e46d3b23b55162a1066b0.json"}}, {"family": "Andronico", "given": "Luca A", "initials": "LA", "orcid": "0000-0002-4326-073X", "researcher": {"href": "https://publications.scilifelab.se/researcher/8818b25185e54c7e9f120d34c1fc69cd.json"}}, {"family": "T\u00f3th", "given": "G\u00e1bor", "initials": "G", "orcid": "0000-0003-1428-7906", "researcher": {"href": "https://publications.scilifelab.se/researcher/cd49c54e0693428084c87f16ec1de738.json"}}, {"family": "Ceker", "given": "Tugce", "initials": "T", "orcid": "0000-0001-8874-2241", "researcher": {"href": "https://publications.scilifelab.se/researcher/9e0da9c14b6e41daa053c23615c406cd.json"}}, {"family": "Cowgill", "given": "John", "initials": "J", "orcid": "0000-0002-7968-8359", "researcher": {"href": "https://publications.scilifelab.se/researcher/b126d68c2326490cba52c41660102eab.json"}}, {"family": "Akbulut Koyuncu", "given": "Irem Muge", "initials": "IM"}, {"family": "Basak", "given": "Neslihan", "initials": "N"}, {"family": "Mikes", "given": "Jaromir", "initials": "J", "orcid": "0000-0002-9941-7855", "researcher": {"href": "https://publications.scilifelab.se/researcher/21c127bffa7c4a01af7fad8ba6bac90b.json"}}, {"family": "Klymchenko", "given": "Andrey S", "initials": "AS", "orcid": "0000-0002-2423-830X", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31.json"}}, {"family": "Pietrocola", "given": "Federico", "initials": "F"}, {"family": "Brodin", "given": "Petter", "initials": "P"}, {"family": "Lanekoff", "given": "Ingela", "initials": "I", "orcid": "0000-0001-9040-3230", "researcher": {"href": "https://publications.scilifelab.se/researcher/66f3509595a74e8d97f848ab80e0b410.json"}}, {"family": "Bitirim", "given": "Verda Ceylan", "initials": "VC"}, {"family": "Sezgin", "given": "Erdinc", "initials": "E", "orcid": "0000-0002-4915-388X", "researcher": {"href": "https://publications.scilifelab.se/researcher/34d3b05d68d64f698ff08dc655d2fe26.json"}}], "type": "journal article", "published": "2026-08-06", "journal": {"title": "Nat Nanotechnol", "issn": "1748-3395", "issn-l": null}, "abstract": "The biophysical properties of cells determine cellular physiology. Leveraging these properties for biomedical applications demands the ability to measure multiple parameters simultaneously across millions of cells and diverse cell types. However, current technologies are limited by throughput and low dimensionality. Here we introduce spectral biophysical cytometry (SBC), a high-throughput platform that integrates environment-sensitive nanosensors with spectral flow cytometry to resolve multiparametric biophysical properties of immune cells at single-cell resolution. By using fluorescent nanosensors that report membrane order, mitochondrial potential and membrane potential, SBC enables simultaneous quantification of key cellular physical states across diverse immune cell populations. When applied to peripheral blood mononuclear cells, SBC reveals cell-type-specific biophysical heterogeneity and identifies distinct remodelling signatures associated with atherosclerosis. In particular, T-cell subsets exhibit substantial alterations in membrane order and mitochondrial depolarization, reflecting coordinated changes in lipid composition and metabolic pathways. Integration with lipidomics and transcriptomics demonstrates that the nanosensors can detect biophysical shifts that correlate with dysregulated lipid metabolism and mitochondrial function, providing mechanistic insight into immune dysfunction in disease. Importantly, SBC achieves rapid, label-efficient profiling using commercially available instrumentation, enabling scalable biomarker discovery directly from blood samples and establishing a powerful strategy for linking biophysical phenotypes to immune cell function.", "doi": "10.1038/s41565-026-02236-8", "pmid": "42562877", "labels": {"Integrated Microscopy Technologies Stockholm": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41565-026-02236-8"}], "notes": [], "created": "2026-08-12T09:37:04.615Z", "modified": "2026-08-12T09:37:06.062Z"}, {"entity": "publication", "iuid": "48bf48701cf44883bb1fe87945bf952b", "links": {"self": {"href": "https://publications.scilifelab.se/publication/48bf48701cf44883bb1fe87945bf952b.json"}, "display": {"href": "https://publications.scilifelab.se/publication/48bf48701cf44883bb1fe87945bf952b"}}, "title": "Prodan-based solvatochromic probes for polarity imaging of organelles", "authors": [{"family": "Aknine", "given": "Nathan", "initials": "N"}, {"family": "Holban", "given": "Paula", "initials": "P"}, {"family": "Ragaller", "given": "Franziska", "initials": "F", "orcid": "0000-0002-4148-262X", "researcher": {"href": "https://publications.scilifelab.se/researcher/9ead87aca17f476b9febf3f020567c4b.json"}}, {"family": "Carravilla", "given": "Pablo", "initials": "P", "orcid": "0000-0001-6592-7630", "researcher": {"href": "https://publications.scilifelab.se/researcher/b791a8068a724c179b731f0446b1737a.json"}}, {"family": "Gurdap", "given": "Cenk O", "initials": "CO", "orcid": "0000-0002-5327-2523", "researcher": {"href": "https://publications.scilifelab.se/researcher/9e3e5501e8d84f46884f1001367ab262.json"}}, {"family": "Cetinkaya", "given": "Agit", "initials": "A"}, {"family": "Sezgin", "given": "Erdinc", "initials": "E", "orcid": "0000-0002-4915-388X", "researcher": {"href": "https://publications.scilifelab.se/researcher/34d3b05d68d64f698ff08dc655d2fe26.json"}}, {"family": "Klymchenko", "given": "Andrey S", "initials": "AS", "orcid": "0000-0002-2423-830X", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31.json"}}], "type": "posted-content", "published": "2025-10-17", "journal": {"title": "biorxiv", "issn": null, "issn-l": null, "volume": null, "issue": null, "pages": null}, "abstract": null, "doi": "10.1101/2025.10.17.683001", "pmid": null, "labels": {"Integrated Microscopy Technologies Stockholm": "Service"}, "xrefs": [], "notes": [], "created": "2025-10-21T09:38:09.353Z", "modified": "2025-12-18T19:01:18.923Z"}, {"entity": "publication", "iuid": "fb9d76d357e04f8089f321a7f617e93e", "links": {"self": {"href": "https://publications.scilifelab.se/publication/fb9d76d357e04f8089f321a7f617e93e.json"}, "display": {"href": "https://publications.scilifelab.se/publication/fb9d76d357e04f8089f321a7f617e93e"}}, "title": "High-throughput analysis of membrane order unveils a hidden dimension in immune cell states", "authors": [{"family": "Andronico", "given": "Luca A", "initials": "LA", "orcid": "0000-0002-4326-073X", "researcher": {"href": "https://publications.scilifelab.se/researcher/8818b25185e54c7e9f120d34c1fc69cd.json"}}, {"family": "Gurdap", "given": "Cenk O", "initials": "CO", "orcid": "0000-0002-5327-2523", "researcher": {"href": "https://publications.scilifelab.se/researcher/9e3e5501e8d84f46884f1001367ab262.json"}}, {"family": "Arora", "given": "Abishek", "initials": "A", "orcid": "0000-0002-6149-4417", "researcher": {"href": "https://publications.scilifelab.se/researcher/384ef4f8d6eb49d6873c87556843a7a2.json"}}, {"family": "Sandoz", "given": "Patrick A", "initials": "PA", "orcid": "0000-0002-8379-7267", "researcher": {"href": "https://publications.scilifelab.se/researcher/acd737132e4b4b378257ae8f0316b3a2.json"}}, {"family": "Jiang", "given": "Yidan", "initials": "Y"}, {"family": "Giatrellis", "given": "Sarantis", "initials": "S", "orcid": "0009-0002-6412-0530", "researcher": {"href": "https://publications.scilifelab.se/researcher/9554fd11c5a649a88d9d3cb51776012a.json"}}, {"family": "de Boer", "given": "Leon", "initials": "L"}, {"family": "Carannante", "given": "Valentina", "initials": "V"}, {"family": "Iskrak", "given": "Sofiia", "initials": "S"}, {"family": "Mikes", "given": "Jaromir", "initials": "J", "orcid": "0000-0002-9941-7855", "researcher": {"href": "https://publications.scilifelab.se/researcher/21c127bffa7c4a01af7fad8ba6bac90b.json"}}, {"family": "Buggert", "given": "Marcus", "initials": "M", "orcid": "0000-0003-0633-1719", "researcher": {"href": "https://publications.scilifelab.se/researcher/9a54e4b5136642eeafa77ac5118a0c81.json"}}, {"family": "\u00d6sterborg", "given": "Anders", "initials": "A", "orcid": "0000-0001-6489-4865", "researcher": {"href": "https://publications.scilifelab.se/researcher/4a1df5f584834eec8d7f90ab421a31ec.json"}}, {"family": "\u00d6nfelt", "given": "Bj\u00f6rn", "initials": "B", "orcid": "0000-0001-5178-7593", "researcher": {"href": "https://publications.scilifelab.se/researcher/14bcdcf94cab40ff92319869d243f5d8.json"}}, {"family": "Klymchenko", "given": "Andrey", "initials": "A", "orcid": "0000-0002-2423-830X", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31.json"}}, {"family": "Brodin", "given": "Petter", "initials": "P", "orcid": "0000-0002-8103-0046", "researcher": {"href": "https://publications.scilifelab.se/researcher/40097353cdb24e52bf2330eb687042bf.json"}}, {"family": "Sezgin", "given": "Erdinc", "initials": "E", "orcid": "0000-0002-4915-388X", "researcher": {"href": "https://publications.scilifelab.se/researcher/34d3b05d68d64f698ff08dc655d2fe26.json"}}], "type": "posted-content", "published": "2024-01-16", "journal": {"title": "biorxiv", "issn": null, "issn-l": null, "volume": null, "issue": null, "pages": null}, "abstract": null, "doi": "10.1101/2024.01.15.575649", "pmid": null, "labels": {"Integrated Microscopy Technologies Stockholm": "Service"}, "xrefs": [], "notes": [], "created": "2024-01-29T10:52:39.251Z", "modified": "2025-12-18T19:32:03.682Z"}, {"entity": "publication", "iuid": "ce77c2689eaf48ccae169a5daaea00f6", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ce77c2689eaf48ccae169a5daaea00f6.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ce77c2689eaf48ccae169a5daaea00f6"}}, "title": "Long-term STED imaging of membrane packing and dynamics by exchangeable polarity-sensitive dyes.", "authors": [{"family": "Carravilla", "given": "Pablo", "initials": "P", "orcid": "0000-0001-6592-7630", "researcher": {"href": "https://publications.scilifelab.se/researcher/b791a8068a724c179b731f0446b1737a.json"}}, {"family": "Dasgupta", "given": "Anindita", "initials": "A", "orcid": "0000-0003-2126-1333", "researcher": {"href": "https://publications.scilifelab.se/researcher/ffe8ce17995647f0b0fb3ddfb1aee492.json"}}, {"family": "Zhurgenbayeva", "given": "Gaukhar", "initials": "G"}, {"family": "Danylchuk", "given": "Dmytro I", "initials": "DI"}, {"family": "Klymchenko", "given": "Andrey S", "initials": "AS", "orcid": "0000-0002-2423-830X", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e5109394fec48b4a38f382ad62d7d31.json"}}, {"family": "Sezgin", "given": "Erdinc", "initials": "E", "orcid": "0000-0002-4915-388X", "researcher": {"href": "https://publications.scilifelab.se/researcher/34d3b05d68d64f698ff08dc655d2fe26.json"}}, {"family": "Eggeling", "given": "Christian", "initials": "C", "orcid": "0000-0002-3698-5599", "researcher": {"href": "https://publications.scilifelab.se/researcher/a3a1d810d3904c61b027d8e57cb80cd6.json"}}], "type": "journal article", "published": "2021-12-08", "journal": {"title": "Biophysical Reports", "issn": "2667-0747", "volume": "1", "issue": "2", "pages": "None", "issn-l": null}, "abstract": "Understanding the plasma membrane nanoscale organization and dynamics in living cells requires microscopy techniques with high spatial and temporal resolution that permit for long acquisition times and allow for the quantification of membrane biophysical properties, such as lipid ordering. Among the most popular super-resolution techniques, stimulated emission depletion (STED) microscopy offers one of the highest temporal resolutions, ultimately defined by the scanning speed. However, monitoring live processes using STED microscopy is significantly limited by photobleaching, which recently has been circumvented by exchangeable membrane dyes that only temporarily reside in the membrane. Here, we show that NR4A, a polarity-sensitive exchangeable plasma membrane probe based on Nile red, permits the super-resolved quantification of membrane biophysical parameters in real time with high temporal and spatial resolution as well as long acquisition times. The potential of this polarity-sensitive exchangeable dye is showcased by live-cell real-time three-dimensional STED recordings of bleb formation and lipid exchange during membrane fusion as well as by STED-fluorescence correlation spectroscopy experiments for the simultaneous quantification of membrane dynamics and lipid packing that correlate in model and live-cell membranes.", "doi": "10.1016/j.bpr.2021.100023", "pmid": "34939048", "labels": {"Integrated Microscopy Technologies Stockholm": "Service"}, "xrefs": [{"db": "pii", "key": "S2667-0747(21)00023-9"}, {"db": "pmc", "key": "PMC8651516"}], "notes": [], "created": "2021-12-15T21:11:15.064Z", "modified": "2022-01-03T10:04:57.813Z"}]}