{"entity": "researcher", "timestamp": "2026-08-20T20:40:59.000Z", "family": "Ekvall", "given": "Markus", "initials": "M", "orcid": "0000-0001-6942-0458", "affiliations": ["Science for Life Laboratory, School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology - KTH, Solna, Sweden. markus.ekvall@scilifelab.se."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/18a639299c9b4970ab7be3d5f08723e9.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/18a639299c9b4970ab7be3d5f08723e9"}}, "publications": [{"entity": "publication", "iuid": "2a8bf0b967664c4fa51e9244de67c3dc", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/2a8bf0b967664c4fa51e9244de67c3dc.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/2a8bf0b967664c4fa51e9244de67c3dc"}}, "title": "Spatial landmark detection and tissue registration with deep learning.", "authors": [{"family": "Ekvall", "given": "Markus", "initials": "M", "orcid": "0000-0001-6942-0458", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/18a639299c9b4970ab7be3d5f08723e9.json"}}, {"family": "Bergenstr\u00e5hle", "given": "Ludvig", "initials": "L", "orcid": "0000-0002-5108-4481", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/60ea7a079ae04b8896196dafec84a6fc.json"}}, {"family": "Andersson", "given": "Alma", "initials": "A", "orcid": "0000-0002-4773-9975", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/82aebb401f644b2fbd015827dc916078.json"}}, {"family": "Czarnewski", "given": "Paulo", "initials": "P"}, {"family": "Oleg\u00e5rd", "given": "Johannes", "initials": "J", "orcid": "0000-0001-9082-4318", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/bc00fb7e52b44bb3b6dc9a88fc3cfeac.json"}}, {"family": "K\u00e4ll", "given": "Lukas", "initials": "L", "orcid": "0000-0001-5689-9797", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b4464f2bf868498fa6d149a4a6d60e8b.json"}}, {"family": "Lundeberg", "given": "Joakim", "initials": "J", "orcid": "0000-0003-4313-1601", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9fa47767cd14ef2b9528c8b998cf095.json"}}], "type": "journal article", "published": "2024-04-00", "journal": {"title": "Nat. Methods", "issn": "1548-7105", "volume": "21", "issue": "4", "pages": "673-679", "issn-l": "1548-7091"}, "abstract": "Spatial landmarks are crucial in describing histological features between samples or sites, tracking regions of interest in microscopy, and registering tissue samples within a common coordinate framework. Although other studies have explored unsupervised landmark detection, existing methods are not well-suited for histological image data as they often require a large number of images to converge, are unable to handle nonlinear deformations between tissue sections and are ineffective for z-stack alignment, other modalities beyond image data or multimodal data. We address these challenges by introducing effortless landmark detection, a new unsupervised landmark detection and registration method using neural-network-guided thin-plate splines. Our proposed method is evaluated on a diverse range of datasets including histology and spatially resolved transcriptomics, demonstrating superior performance in both accuracy and stability compared to existing approaches.", "doi": "10.1038/s41592-024-02199-5", "pmid": "38438615", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC11009106"}, {"db": "pii", "key": "10.1038/s41592-024-02199-5"}], "notes": [], "created": "2026-08-20T09:03:01.754Z", "modified": "2026-08-20T09:03:01.917Z"}, {"entity": "publication", "iuid": "43dd478910cd4608833943ade088205f", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/43dd478910cd4608833943ade088205f.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/43dd478910cd4608833943ade088205f"}}, "title": "Spatial Multimodal Analysis of Transcriptomes and Metabolomes in Tissues", "authors": [{"family": "Vicari", "given": "Marco", "initials": "M", "orcid": "0000-0002-3042-6278", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7c1ea4f9a5cf48a6ace7cf53c6334548.json"}}, {"family": "Mirzazadeh", "given": "Reza", "initials": "R", "orcid": "0000-0003-0554-080X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6cf9cc546c2e48b7a63ca6d236639fe1.json"}}, {"family": "Nilsson", "given": "Anna", "initials": "A"}, {"family": "Shariatgorji", "given": "Reza", "initials": "R", "orcid": "0000-0001-9484-0921", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/76faa76e9dc445a3bbb1f470e9d33a23.json"}}, {"family": "Bj\u00e4rterot", "given": "Patrik", "initials": "P", "orcid": "0000-0002-4350-5530", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0a958cde39e9471881c0282f9d62f39c.json"}}, {"family": "Larsson", "given": "Ludvig", "initials": "L", "orcid": "0000-0003-4209-2911", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/36ad34c94b64432ab74d61fbc6d16905.json"}}, {"family": "Lee", "given": "Hower", "initials": "H", "orcid": "0000-0002-8781-3623", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3fd12772d55148518ab8944c401d3820.json"}}, {"family": "Nilsson", "given": "Mats", "initials": "M", "orcid": "0000-0001-9985-0387", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3311155f09a64b4f88d673da2a40627b.json"}}, {"family": "Foyer", "given": "Julia", "initials": "J"}, {"family": "Ekvall", "given": "Markus", "initials": "M", "orcid": "0000-0001-6942-0458", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/18a639299c9b4970ab7be3d5f08723e9.json"}}, {"family": "Czarnewski", "given": "Paulo", "initials": "P", "orcid": "0000-0001-8150-4021", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/501677a1262c438aa4077b205bb39a72.json"}}, {"family": "Zhang", "given": "Xiaoqun", "initials": "X"}, {"family": "Svenningsson", "given": "Per", "initials": "P", "orcid": "0000-0001-6727-3802", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b01bbacfa24e4b9794734bf1121d1c38.json"}}, {"family": "Andr\u00e9n", "given": "Per E", "initials": "PE", "orcid": "0000-0002-4062-7743", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f1dd27e8b238475383983480e10099f6.json"}}, {"family": "Lundeberg", "given": "Joakim", "initials": "J", "orcid": "0000-0003-4313-1601", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9fa47767cd14ef2b9528c8b998cf095.json"}}], "type": "posted-content", "published": "2023-01-27", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2023.01.26.525195", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:43:33.199Z", "modified": "2026-08-20T10:43:33.457Z"}]}