{"entity": "researcher", "timestamp": "2026-08-07T18:24:09.716Z", "family": "Ekman", "given": "Simon", "initials": "S", "orcid": "0000-0002-8343-6226", "affiliations": [], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/0fcb2b2956a84f43a7b485573f445ff2.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/0fcb2b2956a84f43a7b485573f445ff2"}}, "publications": [{"entity": "publication", "iuid": "21eb44200f3c4f3fb0553c2b13a36e41", "links": {"self": {"href": "https://publications.scilifelab.se/publication/21eb44200f3c4f3fb0553c2b13a36e41.json"}, "display": {"href": "https://publications.scilifelab.se/publication/21eb44200f3c4f3fb0553c2b13a36e41"}}, "title": "Matched Analyses of Brain Metastases versus Primary Non-Small Cell Lung Cancer Reveal a Unique microRNA Signature.", "authors": [{"family": "Tsakonas", "given": "Georgios", "initials": "G", "orcid": "0000-0003-4397-7391", "researcher": {"href": "https://publications.scilifelab.se/researcher/8f935b4e6f564afdbe3c22e2a376c98d.json"}}, {"family": "Koulouris", "given": "Andreas", "initials": "A"}, {"family": "Kazmierczak", "given": "Dominika", "initials": "D"}, {"family": "Botling", "given": "Johan", "initials": "J"}, {"family": "Ortiz-Villalon", "given": "Cristian", "initials": "C"}, {"family": "Nord", "given": "Helena", "initials": "H"}, {"family": "Lindskog", "given": "Magnus", "initials": "M", "orcid": "0000-0001-9484-1983", "researcher": {"href": "https://publications.scilifelab.se/researcher/1592b4e2f1354bdd8b35f384dcac78c2.json"}}, {"family": "Sandelin", "given": "Martin", "initials": "M"}, {"family": "Micke", "given": "Patrick", "initials": "P", "orcid": "0000-0003-1210-5961", "researcher": {"href": "https://publications.scilifelab.se/researcher/fc0cba74e74a4c39a8f96319cb9a3034.json"}}, {"family": "Hydbring", "given": "Per", "initials": "P"}, {"family": "Ekman", "given": "Simon", "initials": "S", "orcid": "0000-0002-8343-6226", "researcher": {"href": "https://publications.scilifelab.se/researcher/0fcb2b2956a84f43a7b485573f445ff2.json"}}], "type": "journal article", "published": "2022-12-22", "journal": {"title": "Int J Mol Sci", "issn": "1422-0067", "volume": "24", "issue": "1", "issn-l": null}, "abstract": "Distant spreading of tumor cells to the central nervous system in non-small cell lung cancer (NSCLC) occurs frequently and poses major clinical issues due to limited treatment options. RNAs displaying differential expression in brain metastasis versus primary NSCLC may explain distant tumor growth and may potentially be used as therapeutic targets. In this study, we conducted systematic microRNA expression profiling from tissue biopsies of primary NSCLC and brain metastases from 25 patients. RNA analysis was performed using the nCounter Human v3 miRNA Expression Assay, NanoString technologies, followed by differential expression analysis and in silico target gene pathway analysis. We uncovered a panel of 11 microRNAs with differential expression and excellent diagnostic performance in brain metastasis versus primary NSCLC. Five microRNAs were upregulated in brain metastasis (miR-129-2-3p, miR-124-3p, miR-219a-2-3p, miR-219a-5p, and miR-9-5p) and six microRNAs were downregulated in brain metastasis (miR-142-3p, miR-150-5p, miR-199b-5p, miR-199a-3p, miR-199b-5p, and miR-199a-5p). The differentially expressed microRNAs were predicted to converge on distinct target gene networks originating from five to twelve core target genes. In conclusion, we uncovered a unique microRNA profile linked to two target gene networks. Our results highlight the potential of specific microRNAs as biomarkers for brain metastasis in NSCLC and indicate plausible mechanistic connections.", "doi": "10.3390/ijms24010193", "pmid": "36613642", "labels": {"Clinical Genomics Uppsala": "Collaborative", "Clinical Genomics": "Collaborative"}, "xrefs": [{"db": "pmc", "key": "PMC9820685"}, {"db": "pii", "key": "ijms24010193"}], "notes": [], "created": "2025-02-14T13:30:14.859Z", "modified": "2025-02-14T13:30:15.384Z"}, {"entity": "publication", "iuid": "ee7cd1df9c4e48c086c61222e6510c86", "links": {"self": {"href": "https://publications.scilifelab.se/publication/ee7cd1df9c4e48c086c61222e6510c86.json"}, "display": {"href": "https://publications.scilifelab.se/publication/ee7cd1df9c4e48c086c61222e6510c86"}}, "title": "An immune gene expression signature distinguishes central nervous system metastases from primary tumours in non-small-cell lung cancer.", "authors": [{"family": "Tsakonas", "given": "Georgios", "initials": "G"}, {"family": "Lewensohn", "given": "Rolf", "initials": "R"}, {"family": "Botling", "given": "Johan", "initials": "J"}, {"family": "Ortiz-Villalon", "given": "Cristian", "initials": "C"}, {"family": "Micke", "given": "Patrick", "initials": "P"}, {"family": "Friesland", "given": "Signe", "initials": "S"}, {"family": "Nord", "given": "Helena", "initials": "H"}, {"family": "Lindskog", "given": "Magnus", "initials": "M"}, {"family": "Sandelin", "given": "Martin", "initials": "M"}, {"family": "Hydbring", "given": "Per", "initials": "P"}, {"family": "Ekman", "given": "Simon", "initials": "S", "orcid": "0000-0002-8343-6226", "researcher": {"href": "https://publications.scilifelab.se/researcher/0fcb2b2956a84f43a7b485573f445ff2.json"}}], "type": "journal article", "published": "2020-06-00", "journal": {"title": "Eur. J. Cancer", "issn": "1879-0852", "volume": "132", "issue": null, "pages": "24-34", "issn-l": "0959-8049"}, "abstract": "Dissemination of non-small-cell lung cancer (NSCLC) in the central nervous system is a frequent and challenging clinical problem. Systemic or local therapies rarely prolong survival and have modest activity regarding local control. Alterations in gene expression in brain metastasis versus primary tumour may increase aggressiveness and impair therapeutic efforts.\n\nWe identified 25 patients with surgically removed NSCLC brain metastases in two different patient cohorts. For 13 of these patients, primary tumour samples were available. Gene expression analysis using the nCounter\u00ae PanCancer Immune Profiling gene expression panel (nanoString technologies Inc.) was performed in brain metastases and primary tumour samples. Identification of differentially expressed genes was conducted on normalized data using the nSolver analysis software.\n\nWe compared gene expression patterns in brain metastases with primary tumours. Brain metastasis samples displayed a distinct clustering pattern compared to primary tumour samples with a statistically significant downregulation of genes related to immune response and immune cell activation. Results from KEGG term analysis on differentially expressed genes revealed a concomitant enrichment of multiple KEGG terms associated with the immune system. We identified a 12-gene immune signature that clearly separated brain metastases from primary tumours.\n\nWe identified a unique gene downregulation pattern in brain metastases compared with primary tumours. This finding may explain the lower intracranial efficacy of systemic therapy, especially immunotherapy, in brain metastasis of patients with NSCLC.", "doi": "10.1016/j.ejca.2020.03.014", "pmid": "32325417", "labels": {"Clinical Genomics Uppsala": "Collaborative", "Bioinformatics Support for Computational Resources": "Service", "Clinical Genomics": "Collaborative"}, "xrefs": [{"db": "pii", "key": "S0959-8049(20)30155-6"}], "notes": [], "created": "2020-12-08T15:43:55.833Z", "modified": "2024-01-16T13:48:42.459Z"}, {"entity": "publication", "iuid": "56cce9107c664ed28106aea7b9231404", "links": {"self": {"href": "https://publications.scilifelab.se/publication/56cce9107c664ed28106aea7b9231404.json"}, "display": {"href": "https://publications.scilifelab.se/publication/56cce9107c664ed28106aea7b9231404"}}, "title": "Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy.", "authors": [{"family": "Holgersson", "given": "Georg", "initials": "G"}, {"family": "Ekman", "given": "Simon", "initials": "S", "orcid": "0000-0002-8343-6226", "researcher": {"href": "https://publications.scilifelab.se/researcher/0fcb2b2956a84f43a7b485573f445ff2.json"}}, {"family": "Reizenstein", "given": "Johan", "initials": "J"}, {"family": "Bergqvist", "given": "Michael", "initials": "M", "orcid": "0009-0003-5716-3716", "researcher": {"href": "https://publications.scilifelab.se/researcher/91d33e374d0642479a80683a989f095a.json"}}, {"family": "Pont\u00e9n", "given": "Fredrik", "initials": "F", "orcid": "0000-0003-0703-3940", "researcher": {"href": "https://publications.scilifelab.se/researcher/a8b56979a6c74891aa277fb28848b6ce.json"}}, {"family": "Uhl\u00e9n", "given": "Mattias", "initials": "M", "orcid": "0000-0002-4858-8056", "researcher": {"href": "https://publications.scilifelab.se/researcher/ff81da3cb0cf4262873b993a1b06798c.json"}}, {"family": "Magnusson", "given": "Kristina", "initials": "K"}, {"family": "Jonnalagadda", "given": "Pallavi", "initials": "P"}, {"family": "Asplund", "given": "Anna", "initials": "A"}, {"family": "Str\u00f6mberg", "given": "Sara", "initials": "S"}, {"family": "Linder", "given": "Arne", "initials": "A"}, {"family": "Blomquist", "given": "Erik", "initials": "E"}, {"family": "Liljeholm", "given": "Martin", "initials": "M"}, {"family": "L\u00f6d\u00e9n", "given": "Britta", "initials": "B"}, {"family": "Hellstr\u00f6m", "given": "Karin", "initials": "K"}, {"family": "Bergstr\u00f6m", "given": "Stefan", "initials": "S"}], "type": "journal article", "published": "2010-02-26", "journal": {"volume": "7", "issn": "1790-6245", "issue": "1", "pages": "1-7", "title": "Cancer Genomics Proteomics", "issn-l": "1109-6535"}, "abstract": "To explore the usefulness of the expression of five potential cancer biomarkers in predicting outcome in patients with laryngeal cancer.\n\nIn the present study, the Swedish National Cancer Registry databases were used to identify patients with laryngeal cancer diagnosed during the years 1978-2004 in the Uppsala-Orebro region and treated with radiotherapy. The expression of Ki-67, MutS homolog 2, (MSH2), p53, B-cell CLL/lymphoma 2 (Bcl-2) and cyclin D1 in the cancer cells was assessed immunohistochemically using tissue microarrays (TMAs) and its predicitve value on survival and relapse was analyzed using Cox regression models.\n\nA total of 39 patients were included in the present study. Nuclear MSH2 staining was statistically significantly correlated to Ki-67 expression (p=0.022). However, univariate and multivariate Cox analyses showed no statistically significant association between the expression of the investigated biomarkers and overall survival or relapse.\n\nThe present exploratory study does not show any significant predictive value of the biomarkers examined with respect to survival or relapse. However, with larger patient cohorts, we believe that protein profiling using TMAs and immunohistochemistry is a feasible strategy for prognostic and predictive biomarker screening in laryngeal cancer.", "doi": null, "pmid": "20181625", "labels": {"Tissue Profiling": null}, "xrefs": [{"db": "pii", "key": "7/1/1"}], "notes": [], "created": "2017-05-04T14:55:42.778Z", "modified": "2025-11-17T09:52:58.446Z"}]}