{"entity": "researcher", "timestamp": "2026-08-20T21:34:18.098Z", "family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "affiliations": ["Institute for Molecular Medicine Finland (FIMM), HiLIFE, University of Helsinki, Helsinki, Finland.", "Science for Life Laboratory, Department of Oncology and Pathology, Karolinska Institutet, Solna, Sweden."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031"}}, "publications": [{"entity": "publication", "iuid": "a2d4d6d4a5c5405aa4e890d419216721", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/a2d4d6d4a5c5405aa4e890d419216721.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/a2d4d6d4a5c5405aa4e890d419216721"}}, "title": "Distinct molecular profiles and shared drug vulnerabilities in pancreatic metastases of renal cell carcinoma.", "authors": [{"family": "Roos-Mattila", "given": "Matilda", "initials": "M", "orcid": "0000-0002-2834-3211", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f9dd8feca623400d8e0c17b2725b6dc7.json"}}, {"family": "Kallio", "given": "Pauliina", "initials": "P", "orcid": "0000-0001-6374-6203", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/341466e88f824af587e257b73582d6dd.json"}}, {"family": "Luck", "given": "Tamara J", "initials": "TJ"}, {"family": "Polso", "given": "Minttu", "initials": "M"}, {"family": "Kumari", "given": "Romika", "initials": "R"}, {"family": "Mikkonen", "given": "Piia", "initials": "P"}, {"family": "V\u00e4lim\u00e4ki", "given": "Katja", "initials": "K", "orcid": "0000-0001-9117-7589", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6e4948127dec4455803fa8c74fefbde5.json"}}, {"family": "Malmstedt", "given": "Minna", "initials": "M"}, {"family": "Ellonen", "given": "Pekka", "initials": "P"}, {"family": "Pellinen", "given": "Teijo", "initials": "T", "orcid": "0000-0001-9652-7373", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8e73595c0cc64a68a59cd95772784859.json"}}, {"family": "Heckman", "given": "Caroline A", "initials": "CA", "orcid": "0000-0002-4324-8706", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a0490f5eb61a4d92a44815d03de84af4.json"}}, {"family": "Mustonen", "given": "Harri", "initials": "H", "orcid": "0000-0001-5632-6796", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f009308cd84542ae8c384fbfe87501d2.json"}}, {"family": "Puolakkainen", "given": "Pauli A", "initials": "PA"}, {"family": "Alitalo", "given": "Kari", "initials": "K", "orcid": "0000-0002-7331-0902", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9a1a31264694e4fba6026b293655ff0.json"}}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Mirtti", "given": "Tuomas", "initials": "T", "orcid": "0000-0003-0455-9891", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c1963bc5086f4b45b9a48cb60115d578.json"}}, {"family": "Rannikko", "given": "Antti S", "initials": "AS"}, {"family": "Pieti\u00e4inen", "given": "Vilja M", "initials": "VM", "orcid": "0000-0003-3125-2406", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6d24125e51334b94bce4ef70fed1e585.json"}}, {"family": "Sepp\u00e4nen", "given": "Hanna E", "initials": "HE"}], "type": "journal article", "published": "2024-10-20", "journal": {"title": "Commun Biol", "issn": "2399-3642", "volume": "7", "issue": "1", "pages": "1355", "issn-l": "2399-3642"}, "abstract": "Clear-cell renal cell carcinoma (ccRCC) is the most common origin of pancreatic metastases (PM). Distinct genomic aberrations, favorable prognosis, and clinical observations on high angiogenesis, and succeeding tyrosine kinase inhibitor (TKI) sensitivity have been reported in PM-ccRCC. However, no functional or single-cell studies have been conducted thus far. We recruited five PM-ccRCC patients and investigated the genomic, single-cell transcriptomic, and drug sensitivity profiles of their patient-derived cells (PDCs). The PM depicted both expected and novel genomic alterations. Further, the transcriptomics differed from both primary and metastatic ccRCC, with upregulations of the PI3K/mTOR and - supporting the clinical observations - angiogenesis pathways. Data integration at pathway level showed that transcriptomics explained drug sensitivities the best. Accordingly, PM-ccRCC PDCs shared sensitivity to many PI3K/mTOR inhibitors. Altogether, we show distinct genomic and transcriptomic signatures in PM-ccRCC, highlight the superiority of transcriptomics in interpreting drug sensitivities, and encourage the use of TKIs and PI3K/mTOR inhibitors in PM-ccRCC.", "doi": "10.1038/s42003-024-07004-9", "pmid": "39427059", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC11490566"}, {"db": "pii", "key": "10.1038/s42003-024-07004-9"}], "notes": [], "created": "2026-08-20T09:25:17.594Z", "modified": "2026-08-20T09:25:17.901Z"}, {"entity": "publication", "iuid": "cec0783332e64f2db6046d687d7d1ec9", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/cec0783332e64f2db6046d687d7d1ec9.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/cec0783332e64f2db6046d687d7d1ec9"}}, "title": "Acquired Multidrug Resistance in AML Is Caused by Low Apoptotic Priming in Relapsed Myeloblasts.", "authors": [{"family": "Olesinski", "given": "Elyse A", "initials": "EA", "orcid": "0000-0002-2717-9755", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9d0561c34664f7da1c7a152cbe6c4a5.json"}}, {"family": "Bhatia", "given": "Karanpreet Singh", "initials": "KS", "orcid": "0009-0001-9004-1257", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1ec8e4568cda4a69b3867efa3a97ec3f.json"}}, {"family": "Wang", "given": "Chuqi", "initials": "C", "orcid": "0009-0004-8973-5595", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d47aeddfa97d4ae7a18d0020d246ac3f.json"}}, {"family": "Pioso", "given": "Marissa S", "initials": "MS", "orcid": "0000-0002-2938-6678", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6a8c415c029e4a779453f0c002c60ec8.json"}}, {"family": "Lin", "given": "Xiao Xian", "initials": "XX", "orcid": "0009-0001-4226-9994", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1c5af9f43cd48a7b663b4725cf9b122.json"}}, {"family": "Mamdouh", "given": "Ahmed M", "initials": "AM", "orcid": "0009-0005-3849-4389", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1685bb1c210c4b12a11380849ecb96c4.json"}}, {"family": "Ng", "given": "Shu Xuan", "initials": "SX", "orcid": "0009-0006-4193-6552", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/dd4e6bc33d0f472088b4fa4b41131791.json"}}, {"family": "Sandhu", "given": "Vedant", "initials": "V", "orcid": "0009-0009-5114-8439", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d834aee860c049288f51d38b18216b83.json"}}, {"family": "Jasdanwala", "given": "Shaista Shabbir", "initials": "SS", "orcid": "0009-0005-9391-362X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f50989937ac7458f869e61d2097a9a7c.json"}}, {"family": "Yilma", "given": "Binyam", "initials": "B", "orcid": "0009-0007-8845-5390", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/274b315e68cb4bc6966e3606112d13ae.json"}}, {"family": "Bohl", "given": "Stephan", "initials": "S", "orcid": "0000-0001-9379-3342", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8a68943928ae4f0596dea8bf28fcee28.json"}}, {"family": "Ryan", "given": "Jeremy A", "initials": "JA", "orcid": "0000-0002-3327-1283", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/911f55f4c8f44fc18c080ff35ae77f61.json"}}, {"family": "Malani", "given": "Disha", "initials": "D", "orcid": "0000-0001-9614-3281", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b9b7cbfa381643dca684079575d8ca54.json"}}, {"family": "Luskin", "given": "Marlise R", "initials": "MR", "orcid": "0000-0002-5781-4529", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/db69cdaf5a0f4af7b5c8e732997e264b.json"}}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Porkka", "given": "Kimmo", "initials": "K", "orcid": "0000-0003-4112-5902", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ca85befea3aa47fcab8cf853c4cf6957.json"}}, {"family": "Adamia", "given": "Sophia", "initials": "S", "orcid": "0000-0001-5704-6040", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5752e790492b488fac5050b09bf33d8d.json"}}, {"family": "Chng", "given": "Wee Joo", "initials": "WJ", "orcid": "0000-0003-2578-8335", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f2ee7c8712684c4b98d77de6473baa2d.json"}}, {"family": "Osato", "given": "Motomi", "initials": "M", "orcid": "0000-0003-3982-9054", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/00f03df122084a8c894b7bbc84eb99a0.json"}}, {"family": "Weinstock", "given": "David M", "initials": "DM", "orcid": "0000-0002-8724-3907", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/862ecc6b68da49bf9f0cb7c2be745db0.json"}}, {"family": "Garcia", "given": "Jacqueline S", "initials": "JS", "orcid": "0000-0003-2118-6302", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9397e40bdfb4df2b068d9495fa05257.json"}}, {"family": "Letai", "given": "Anthony", "initials": "A", "orcid": "0000-0002-1993-9013", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/70ad76f693894e5bacb2ff5a5e1369bc.json"}}, {"family": "Bhatt", "given": "Shruti", "initials": "S", "orcid": "0000-0002-2617-5082", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/bc585d87f81647b78bcbadd171396307.json"}}], "type": "journal article", "published": "2024-05-01", "journal": {"title": "Blood Cancer Discov", "issn": "2643-3249", "volume": "5", "issue": "3", "pages": "180-201", "issn-l": null}, "abstract": "In many cancers, mortality is associated with the emergence of relapse with multidrug resistance (MDR). Thus far, the investigation of cancer relapse mechanisms has largely focused on acquired genetic mutations. Using acute myeloid leukemia (AML) patient-derived xenografts (PDX), we systematically elucidated a basis of MDR and identified drug sensitivity in relapsed AML. We derived pharmacologic sensitivity for 22 AML PDX models using dynamic BH3 profiling (DBP), together with genomics and transcriptomics. Using in vivo acquired resistant PDXs, we found that resistance to unrelated, narrowly targeted agents in distinct PDXs was accompanied by broad resistance to drugs with disparate mechanisms. Moreover, baseline mitochondrial apoptotic priming was consistently reduced regardless of the class of drug-inducing selection. By applying DBP, we identified drugs showing effective in vivo activity in resistant models. This study implies evasion of apoptosis drives drug resistance and demonstrates the feasibility of the DBP approach to identify active drugs for patients with relapsed AML.\n\nAcquired resistance to targeted therapy remains challenging in AML. We found that reduction in mitochondrial priming and common transcriptomic signatures was a conserved mechanism of acquired resistance across different drug classes in vivo. Drugs active in vivo can be identified even in the multidrug resistant state by DBP.", "doi": "10.1158/2643-3230.BCD-24-0001", "pmid": "38442309", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC11061585"}, {"db": "pii", "key": "735047"}], "notes": [], "created": "2026-08-20T12:14:44.608Z", "modified": "2026-08-20T12:14:45.545Z"}, {"entity": "publication", "iuid": "213d1768976d4ce1a06d402345ae1641", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/213d1768976d4ce1a06d402345ae1641.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/213d1768976d4ce1a06d402345ae1641"}}, "title": "Therapeutic opportunity of phosphodiesterase 3A modulators in myxoid liposarcomas", "authors": [{"family": "Toivanen", "given": "Kirsi", "initials": "K", "orcid": "0000-0001-9287-3682", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c6b1d2b86d794b979b95e599b798c3df.json"}}, {"family": "Kilpinen", "given": "Sami", "initials": "S"}, {"family": "Ojala", "given": "Kalle", "initials": "K"}, {"family": "Murum\u00e4gi", "given": "Astrid", "initials": "A"}, {"family": "Arjama", "given": "Mariliina", "initials": "M"}, {"family": "Merikoski", "given": "Nanna", "initials": "N"}, {"family": "Salmikangas", "given": "Sami", "initials": "S"}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Sampo", "given": "Mika", "initials": "M"}, {"family": "B\u00f6hling", "given": "Tom", "initials": "T", "orcid": "0000-0001-8903-3690", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7060debc84dd4c0f8f4e14b75c950675.json"}}, {"family": "Sihto", "given": "Harri", "initials": "H", "orcid": "0000-0001-5265-5509", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/878b8d404eed4f02b93b4e39d561ac8d.json"}}], "type": "posted-content", "published": "2022-12-09", "journal": {"issn-l": null}, "abstract": null, "doi": "10.21203/rs.3.rs-2353499/v1", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T12:58:42.314Z", "modified": "2026-08-20T12:58:42.497Z"}, {"entity": "publication", "iuid": "116375c46f0f4465babb49ac15873e83", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/116375c46f0f4465babb49ac15873e83.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/116375c46f0f4465babb49ac15873e83"}}, "title": "Image-based & machine learning-guided multiplexed serology test for SARS-CoV-2", "authors": [{"family": "Pieti\u00e4inen", "given": "Vilja", "initials": "V", "orcid": "0000-0003-3125-2406", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6d24125e51334b94bce4ef70fed1e585.json"}}, {"family": "Polso", "given": "Minttu", "initials": "M"}, {"family": "Migh", "given": "Ede", "initials": "E", "orcid": "0000-0002-8312-6463", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e4a9d973b4474ca29f83b6410283878c.json"}}, {"family": "Guckelsberger", "given": "Christian", "initials": "C", "orcid": "0000-0003-1977-1887", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1b1a3ccdb99c423fb4be5ac6723aa481.json"}}, {"family": "Harmati", "given": "Maria", "initials": "M", "orcid": "0000-0002-4875-5723", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ad4de6747fb546c6aae2ae968fe09223.json"}}, {"family": "Diosdi", "given": "Akos", "initials": "A", "orcid": "0000-0002-3118-5576", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cc1ccb2e03cb453ea55516d4565cdf7b.json"}}, {"family": "Turunen", "given": "Laura", "initials": "L", "orcid": "0000-0003-0274-4794", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/35779e69fefa43cdb2d13c9e7fd05df7.json"}}, {"family": "Hassinen", "given": "Antti", "initials": "A", "orcid": "0000-0001-9491-2868", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0c77bf3f19d44f259ed3a23622d803ba.json"}}, {"family": "Potdar", "given": "Swapnil", "initials": "S", "orcid": "0000-0002-2778-6918", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8e17191dcbef4dc7917d15792cfe5d6e.json"}}, {"family": "Koponen", "given": "Annika", "initials": "A", "orcid": "0000-0002-3348-9661", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4fb15acd5bb445aaa6454891ed6ca25d.json"}}, {"family": "Sebestyen", "given": "Edina Gyukity", "initials": "EG", "orcid": "0000-0003-1383-6301", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0d872131baba4155abcfef726c36b490.json"}}, {"family": "Kovacs", "given": "Ferenc", "initials": "F"}, {"family": "Kriston", "given": "Andras", "initials": "A"}, {"family": "Hollandi", "given": "Reka", "initials": "R", "orcid": "0000-0002-4052-6846", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/117b8088839f4ebda621d67b779c7e73.json"}}, {"family": "Burian", "given": "Katalin", "initials": "K", "orcid": "0000-0003-1300-2374", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e1e2e86addab4aad8994820e70a8d53d.json"}}, {"family": "Terhes", "given": "Gabriella", "initials": "G", "orcid": "0000-0002-7301-9672", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e49d17b8ceb64d7080791b1f74304cc7.json"}}, {"family": "Visnyovszki", "given": "Adam", "initials": "A", "orcid": "0000-0001-6825-1496", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a2d12073011245ddacca62d8874bf51a.json"}}, {"family": "Fodor", "given": "Eszter", "initials": "E", "orcid": "0000-0002-9487-2824", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/deae7182f8184f85a097e767a18bfcac.json"}}, {"family": "Lacza", "given": "Zsombor", "initials": "Z", "orcid": "0000-0002-6776-9530", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/118f2ec2ab264251ab967a3686291e0d.json"}}, {"family": "Kantele", "given": "Anu", "initials": "A", "orcid": "0000-0002-0004-1000", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/232b375319534904bc586ae646d1f0b5.json"}}, {"family": "Kolehmainen", "given": "Pekka", "initials": "P", "orcid": "0000-0001-5997-8167", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d2cdf087c0964868ad5632b95c548f28.json"}}, {"family": "Kakkola", "given": "Laura", "initials": "L", "orcid": "0000-0001-9271-4059", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c4d3ee3c7e2c423b8b2c719592833ef9.json"}}, {"family": "Strandin", "given": "Tomas", "initials": "T", "orcid": "0000-0002-2454-7479", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/955f45a3a7ee4342b8f1047ad6ebb6e2.json"}}, {"family": "Levanov", "given": "Lev", "initials": "L"}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Kemeny", "given": "Lajos", "initials": "L", "orcid": "0000-0002-2119-9501", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c295a034673a447faea4e206f9830dba.json"}}, {"family": "Julkunen", "given": "Ilkka", "initials": "I", "orcid": "0000-0003-0165-2564", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2f969d54ca504175b5f25446c91428c6.json"}}, {"family": "Vapalahti", "given": "Olli", "initials": "O", "orcid": "0000-0003-2270-6824", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/adcc581bfe28463585c3fc5ecdb717ee.json"}}, {"family": "Buzas", "given": "Krisztina", "initials": "K", "orcid": "0000-0001-8933-2033", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d950f0eab87348118beb24015e338d92.json"}}, {"family": "Paavolainen", "given": "Lassi", "initials": "L", "orcid": "0000-0003-1508-2718", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb150cb5204f4f20a6dadd2048f9d610.json"}}, {"family": "Horvath", "given": "Peter", "initials": "P"}, {"family": "Hepojoki", "given": "Jussi", "initials": "J", "orcid": "0000-0001-5699-214X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ac9397d670bf4b5b8c46657c99219e8c.json"}}], "type": "posted-content", "published": "2022-09-09", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2022.09.08.22279729", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:14:03.834Z", "modified": "2026-08-20T10:14:04.733Z"}, {"entity": "publication", "iuid": "1058b7aa5e544e768857266b689156a4", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/1058b7aa5e544e768857266b689156a4.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/1058b7aa5e544e768857266b689156a4"}}, "title": "Multiomics characterization implicates PTK7 in ovarian cancer EMT and cell plasticity and offers strategies for therapeutic intervention.", "authors": [{"family": "Raivola", "given": "Juuli", "initials": "J"}, {"family": "Dini", "given": "Alice", "initials": "A", "orcid": "0000-0002-2720-4551", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3c00ed4eb41e45629cfc525e737f99c4.json"}}, {"family": "Karvonen", "given": "Hanna", "initials": "H", "orcid": "0000-0002-7815-0709", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2c94053074c04bdf9c30c291fcf340d5.json"}}, {"family": "Piki", "given": "Emilia", "initials": "E", "orcid": "0000-0001-6662-0518", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/31e6bcd2c18a4f7eb6d14a0b46a9ec9d.json"}}, {"family": "Salokas", "given": "Kari", "initials": "K", "orcid": "0000-0002-4471-6698", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/190607084e894810876c6501aa677511.json"}}, {"family": "Niininen", "given": "Wilhelmiina", "initials": "W"}, {"family": "Kaleva", "given": "Laura", "initials": "L"}, {"family": "Zhang", "given": "Kaiyang", "initials": "K"}, {"family": "Arjama", "given": "Mariliina", "initials": "M"}, {"family": "Gudoityte", "given": "Greta", "initials": "G"}, {"family": "Seashore-Ludlow", "given": "Brinton", "initials": "B"}, {"family": "Varjosalo", "given": "Markku", "initials": "M"}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Hautaniemi", "given": "Sampsa", "initials": "S"}, {"family": "Murum\u00e4gi", "given": "Astrid", "initials": "A"}, {"family": "Ungureanu", "given": "Daniela", "initials": "D", "orcid": "0000-0002-9314-4972", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7e3b69d0c4c647c0a0460d7ef0d66603.json"}}], "type": "journal article", "published": "2022-08-17", "journal": {"title": "Cell Death Dis", "issn": "2041-4889", "volume": "13", "issue": "8", "pages": "714", "issn-l": "2041-4889"}, "abstract": "Most patients with ovarian cancer (OC) are diagnosed at a late stage when there are very few therapeutic options and a poor prognosis. This is due to the lack of clearly defined underlying mechanisms or an oncogenic addiction that can be targeted pharmacologically, unlike other types of cancer. Here, we identified protein tyrosine kinase 7 (PTK7) as a potential new therapeutic target in OC following a multiomics approach using genetic and pharmacological interventions. We performed proteomics analyses upon PTK7 knockdown in OC cells and identified novel downstream effectors such as synuclein-\u03b3 (SNCG), SALL2, and PP1\u03b3, and these findings were corroborated in ex vivo primary samples using PTK7 monoclonal antibody cofetuzumab. Our phosphoproteomics analyses demonstrated that PTK7 modulates cell adhesion and Rho-GTPase signaling to sustain epithelial-mesenchymal transition (EMT) and cell plasticity, which was confirmed by high-content image analysis of 3D models. Furthermore, using high-throughput drug sensitivity testing (525 drugs) we show that targeting PTK7 exhibited synergistic activity with chemotherapeutic agent paclitaxel, CHK1/2 inhibitor prexasertib, and PLK1 inhibitor GSK461364, among others, in OC cells and ex vivo primary samples. Taken together, our study provides unique insight into the function of PTK7, which helps to define its role in mediating aberrant Wnt signaling in ovarian cancer.", "doi": "10.1038/s41419-022-05161-5", "pmid": "35977930", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9386025"}, {"db": "pii", "key": "10.1038/s41419-022-05161-5"}], "notes": [], "created": "2026-08-20T08:49:49.788Z", "modified": "2026-08-20T08:49:49.960Z"}, {"entity": "publication", "iuid": "3b7256b32eb04365aedfd8a93d177870", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/3b7256b32eb04365aedfd8a93d177870.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/3b7256b32eb04365aedfd8a93d177870"}}, "title": "Stromal FAP Expression is Associated with MRI Visibility and Patient Survival in Prostate Cancer.", "authors": [{"family": "Pellinen", "given": "Teijo", "initials": "T", "orcid": "0000-0001-9652-7373", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8e73595c0cc64a68a59cd95772784859.json"}}, {"family": "Sandeman", "given": "Kevin", "initials": "K", "orcid": "0000-0002-5019-6254", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4714abc9cb0d4864b5f4e98e42c6d70d.json"}}, {"family": "Blom", "given": "Sami", "initials": "S"}, {"family": "Turkki", "given": "Riku", "initials": "R", "orcid": "0000-0002-8690-6983", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/74597043811c4f49bfe09812a9a5f3a4.json"}}, {"family": "Hemmes", "given": "Annabrita", "initials": "A"}, {"family": "V\u00e4lim\u00e4ki", "given": "Katja", "initials": "K"}, {"family": "Eineluoto", "given": "Juho", "initials": "J"}, {"family": "Kentt\u00e4mies", "given": "Anu", "initials": "A", "orcid": "0000-0002-3937-5307", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/764d375bb15f4c8384b69e04a04c2f1f.json"}}, {"family": "Nordling", "given": "Stig", "initials": "S", "orcid": "0000-0001-5555-6645", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/505f7449f490451eb5fd9ae5e5b5ff2c.json"}}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}, {"family": "Rannikko", "given": "Antti", "initials": "A", "orcid": "0000-0002-4261-3484", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6beb375af62740ec8ab9bb0e6ad52e48.json"}}, {"family": "Mirtti", "given": "Tuomas", "initials": "T", "orcid": "0000-0003-0455-9891", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c1963bc5086f4b45b9a48cb60115d578.json"}}], "type": "journal article", "published": "2022-03-00", "journal": {"title": "Cancer Res Commun", "issn": "2767-9764", "volume": "2", "issue": "3", "pages": "172-181", "issn-l": null}, "abstract": "Some clinically significant prostate cancers are missed by MRI. We asked whether the tumor stroma in surgically treated localized prostate cancer lesions positive or negative with MRI are different in their cellular and molecular properties, and whether the differences are reflected to the clinical course of the disease. We profiled the stromal and immune cell composition of MRI-classified tumor lesions by applying multiplexed fluorescence IHC (mfIHC) and automated image analysis in a clinical cohort of 343 patients (cohort I). We compared stromal variables between MRI-visible lesions, invisible lesions, and benign tissue and assessed the predictive significance for biochemical recurrence (BCR) and disease-specific survival (DSS) using Cox regression and log-rank analysis. Subsequently, we carried out a prognostic validation of the identified biomarkers in a population-based cohort of 319 patients (cohort II). MRI true-positive lesions are different from benign tissue and MRI false-negative lesions in their stromal composition. CD163+ cells (macrophages) and fibroblast activation protein (FAP)+ cells were more abundant in MRI true-positive than in MRI false-negative lesions or benign areas. In MRI true-visible lesions, a high proportion of stromal FAP+ cells was associated with PTEN status and increased immune infiltration (CD8+, CD163+), and predicted elevated risk for BCR. High FAP phenotype was confirmed to be a strong indicator of poor prognosis in two independent patient cohorts using also conventional IHC. The molecular composition of the tumor stroma may determine whether early prostate lesions are detectable by MRI and associates with survival after surgical treatment.\n\nThese findings may have a significant impact on clinical decision making as more radical treatments may be recommended for men with a combination of MRI-visible primary tumors and FAP+ tumor stroma.", "doi": "10.1158/2767-9764.CRC-21-0183", "pmid": "36874403", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9980917"}, {"db": "pii", "key": "CRC-21-0183"}], "notes": [], "created": "2026-08-20T12:14:51.718Z", "modified": "2026-08-20T12:14:52.005Z"}, {"entity": "publication", "iuid": "1734f9ad906c4a56ace0aa52688eea65", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/1734f9ad906c4a56ace0aa52688eea65.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/1734f9ad906c4a56ace0aa52688eea65"}}, "title": "Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health", "authors": [{"family": "Marabita", "given": "Francesco", "initials": "F", "orcid": "0000-0001-6180-0106", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1a4d3f450acf42eeadf9eff163be6730.json"}}, {"family": "James", "given": "Tojo", "initials": "T", "orcid": "0000-0002-5751-0656", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3c6270ee61eb4df9acc16144d470ea70.json"}}, {"family": "Karhu", "given": "Anu", "initials": "A"}, {"family": "Virtanen", "given": "Heidi", "initials": "H"}, {"family": "Kettunen", "given": "Kaisa", "initials": "K", "orcid": "0000-0001-7402-461X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/79777a76fa6945e3925b64bfb4434666.json"}}, {"family": "Stenlund", "given": "Hans", "initials": "H", "orcid": "0000-0001-9943-296X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fd141a862d4c4d01af8ff55cfb59b1d3.json"}}, {"family": "Boulund", "given": "Fredrik", "initials": "F", "orcid": "0000-0002-3806-323X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a5c6814a31e644b9bc544d4da759a438.json"}}, {"family": "Hellstr\u00f6m", "given": "Cecilia", "initials": "C"}, {"family": "Neiman", "given": "Maja", "initials": "M"}, {"family": "Mills", "given": "Robert", "initials": "R"}, {"family": "Perheentupa", "given": "Teemu", "initials": "T"}, {"family": "Laivuori", "given": "Hannele", "initials": "H", "orcid": "0000-0003-3212-7826", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b627627610c94358bb52aa3b31cbea7b.json"}}, {"family": "Helkkula", "given": "Pyry", "initials": "P", "orcid": "0000-0001-5094-3208", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fb58c42169744ba4b688af1db5840b0f.json"}}, {"family": "Byrne", "given": "Myles", "initials": "M"}, {"family": "Jokinen", "given": "Ilkka", "initials": "I"}, {"family": "Honko", "given": "Harri", "initials": "H", "orcid": "0000-0002-7969-0213", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/36dc09598f2540b0a887efbe7f245df6.json"}}, {"family": "Kallonen", "given": "Antti", "initials": "A", "orcid": "0000-0001-6199-6356", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6311dbbd74504a3588f77206bbe07275.json"}}, {"family": "Ermes", "given": "Miikka", "initials": "M"}, {"family": "Simil\u00e4", "given": "Heidi", "initials": "H"}, {"family": "Lindholm", "given": "Mikko", "initials": "M"}, {"family": "Widen", "given": "Elisabeth", "initials": "E", "orcid": "0000-0001-7108-2806", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e303cfbca0ad48d3bd7ba67ae8a82ec7.json"}}, {"family": "Ripatti", "given": "Samuli", "initials": "S", "orcid": "0000-0002-0504-1202", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/dd94a820e5f74f4db5122ef3aa936545.json"}}, {"family": "Per\u00e4l\u00e4-Heape", "given": "Maritta", "initials": "M"}, {"family": "Engstrand", "given": "Lars", "initials": "L", "orcid": "0000-0002-7713-2373", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/02d8684df81e42169e613de803446fbf.json"}}, {"family": "Nilsson", "given": "Peter", "initials": "P", "orcid": "0000-0002-4657-8532", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3db33fa3edb94febb8be7927a16838d0.json"}}, {"family": "Moritz", "given": "Thomas", "initials": "T", "orcid": "0000-0002-4258-3190", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/68dcb81bc6b647acb37896319d1c52e3.json"}}, {"family": "Miettinen", "given": "Timo", "initials": "T", "orcid": "0000-0003-3033-6886", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/30b272e26dfb46af907b8d54aa34e024.json"}}, {"family": "Sallinen", "given": "Riitta", "initials": "R", "orcid": "0000-0003-4252-0197", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f4300da480c14adcbe8c5d62c8be5530.json"}}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}], "type": "posted-content", "published": "2020-11-12", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2020.11.11.365387", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T09:59:46.330Z", "modified": "2026-08-20T10:00:05.335Z"}, {"entity": "publication", "iuid": "500550d583f74096936662d36352618b", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/500550d583f74096936662d36352618b.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/500550d583f74096936662d36352618b"}}, "title": "KIT pathway upregulation predicts dasatinib efficacy in acute myeloid leukemia.", "authors": [{"family": "Malani", "given": "Disha", "initials": "D", "orcid": "0000-0001-9614-3281", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b9b7cbfa381643dca684079575d8ca54.json"}}, {"family": "Yadav", "given": "Bhagwan", "initials": "B"}, {"family": "Kumar", "given": "Ashwini", "initials": "A"}, {"family": "Potdar", "given": "Swapnil", "initials": "S", "orcid": "0000-0002-2778-6918", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8e17191dcbef4dc7917d15792cfe5d6e.json"}}, {"family": "Kontro", "given": "Mika", "initials": "M"}, {"family": "Kankainen", "given": "Matti", "initials": "M"}, {"family": "Javarappa", "given": "Komal K", "initials": "KK"}, {"family": "Porkka", "given": "Kimmo", "initials": "K"}, {"family": "Wolf", "given": "Maija", "initials": "M"}, {"family": "Aittokallio", "given": "Tero", "initials": "T"}, {"family": "Wennerberg", "given": "Krister", "initials": "K"}, {"family": "Heckman", "given": "Caroline A", "initials": "CA"}, {"family": "Murum\u00e4gi", "given": "Astrid", "initials": "A"}, {"family": "Kallioniemi", "given": "Olli", "initials": "O", "orcid": "0000-0002-3231-0332", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb8605b07c884323afe4e1f2da37a031.json"}}], "type": "letter", "published": "2020-10-00", "journal": {"title": "Leukemia", "issn": "1476-5551", "volume": "34", "issue": "10", "pages": "2780-2784", "issn-l": "0887-6924"}, "abstract": null, "doi": "10.1038/s41375-020-0978-7", "pmid": "32678289", "labels": [], "xrefs": [{"db": "pii", "key": "10.1038/s41375-020-0978-7"}], "notes": [], "created": "2026-08-20T08:47:15.782Z", "modified": "2026-08-20T08:47:42.560Z"}]}