Publications 2019


  1. Jayaram, A, Wingate, A, Wetterskog, D, Conteduca, V, Khalaf, D, Sharabiani, MTA et al.. Plasma Androgen Receptor Copy Number Status at Emergence of Metastatic Castration-Resistant Prostate Cancer: A Pooled Multicohort Analysis. JCO Precis Oncol. 2019;3 :. doi: 10.1200/PO.19.00123. PubMed PMID:32923850 PubMed Central PMC7446348.
  2. Lindfors, K, Lin, J, Lee, HS, Hyöty, H, Nykter, M, Kurppa, K et al.. Metagenomics of the faecal virome indicate a cumulative effect of enterovirus and gluten amount on the risk of coeliac disease autoimmunity in genetically at risk children: the TEDDY study. Gut. 2020;69 (8):1416-1422. doi: 10.1136/gutjnl-2019-319809. PubMed PMID:31744911 PubMed Central PMC7234892.
  3. Ritch, E, Fu, SYF, Herberts, C, Wang, G, Warner, EW, Schönlau, E et al.. Identification of Hypermutation and Defective Mismatch Repair in ctDNA from Metastatic Prostate Cancer. Clin Cancer Res. 2020;26 (5):1114-1125. doi: 10.1158/1078-0432.CCR-19-1623. PubMed PMID:31744831 .
  4. Khalaf, DJ, Annala, M, Taavitsainen, S, Finch, DL, Oja, C, Vergidis, J et al.. Optimal sequencing of enzalutamide and abiraterone acetate plus prednisone in metastatic castration-resistant prostate cancer: a multicentre, randomised, open-label, phase 2, crossover trial. Lancet Oncol. 2019;20 (12):1730-1739. doi: 10.1016/S1470-2045(19)30688-6. PubMed PMID:31727538 .
  5. Granberg, KJ, Raita, A, Lehtinen, B, Tiihonen, AM, Kesseli, J, Annala, M et al.. Moderate-to-strong expression of FGFR3 and TP53 alterations in a subpopulation of choroid plexus tumors. Histol Histopathol. 2020;35 (7):673-680. doi: 10.14670/HH-18-180. PubMed PMID:31660579 .
  6. Harjula, SE, Saralahti, AK, Ojanen, MJT, Rantapero, T, Uusi-Mäkelä, MIE, Nykter, M et al.. Characterization of immune response against Mycobacterium marinum infection in the main hematopoietic organ of adult zebrafish (Danio rerio). Dev Comp Immunol. 2020;103 :103523. doi: 10.1016/j.dci.2019.103523. PubMed PMID:31626817 .
  7. Genitsch, V, Kollár, A, Vandekerkhove, G, Blarer, J, Furrer, M, Annala, M et al.. Morphologic and genomic characterization of urothelial to sarcomatoid transition in muscle-invasive bladder cancer. Urol Oncol. 2019;37 (11):826-836. doi: 10.1016/j.urolonc.2019.09.025. PubMed PMID:31585777 .
  8. Moradi, E, Marttinen, M, Häkkinen, T, Hiltunen, M, Nykter, M. Supervised pathway analysis of blood gene expression profiles in Alzheimer’s disease. Neurobiol Aging. 2019;84 :98-108. doi: 10.1016/j.neurobiolaging.2019.07.004. PubMed PMID:31522136 .
  9. Pölönen, P, Jawahar Deen, A, Leinonen, HM, Jyrkkänen, HK, Kuosmanen, S, Mononen, M et al.. Nrf2 and SQSTM1/p62 jointly contribute to mesenchymal transition and invasion in glioblastoma. Oncogene. 2019;38 (50):7473-7490. doi: 10.1038/s41388-019-0956-6. PubMed PMID:31444413 .
  10. Valkonen, M, Isola, J, Ylinen, O, Muhonen, V, Saxlin, A, Tolonen, T et al.. Cytokeratin-Supervised Deep Learning for Automatic Recognition of Epithelial Cells in Breast Cancers Stained for ER, PR, and Ki-67. IEEE Trans Med Imaging. 2020;39 (2):534-542. doi: 10.1109/TMI.2019.2933656. PubMed PMID:31398111 .
  11. Genitsch, V, Kollár, A, Vandekerkhove, G, Blarer, J, Furrer, M, Annala, M et al.. Morphologic and genomic characterization of urothelial to sarcomatoid transition in muscle-invasive bladder cancer. Urol Oncol. 2019;37 (9):573.e19-573.e29. doi: 10.1016/j.urolonc.2019.06.021. PubMed PMID:31358384 .
  12. Mehtonen, J, Pölönen, P, Häyrynen, S, Dufva, O, Lin, J, Liuksiala, T et al.. Data-driven characterization of molecular phenotypes across heterogeneous sample collections. Nucleic Acids Res. 2019;47 (13):e76. doi: 10.1093/nar/gkz281. PubMed PMID:31329928 PubMed Central PMC6648337.
  13. Taavitsainen, S, Annala, M, Ledet, E, Beja, K, Miller, PJ, Moses, M et al.. Evaluation of Commercial Circulating Tumor DNA Test in Metastatic Prostate Cancer. JCO Precis Oncol. 2019;3 :. doi: 10.1200/PO.19.00014. PubMed PMID:32914020 PubMed Central PMC7446428.
  14. Yang, J, Ylipää, A, Sun, Y, Zheng, H, Chen, K, Nykter, M et al.. Editor’s Note: Genomic and Molecular Characterization of Malignant Peripheral Nerve Sheath Tumor Identifies the IGF1R Pathway as a Primary Target for Treatment. Clin Cancer Res. 2019;25 (10):3195. doi: 10.1158/1078-0432.CCR-19-1144. PubMed PMID:31092619 .
  15. Hotte, SJ, Chi, KN, Joshua, AM, Tu, D, Macfarlane, RJ, Gregg, RW et al.. A Phase II Study of PX-866 in Patients With Recurrent or Metastatic Castration-resistant Prostate Cancer: Canadian Cancer Trials Group Study IND205. Clin Genitourin Cancer. 2019;17 (3):201-208.e1. doi: 10.1016/j.clgc.2019.03.005. PubMed PMID:31056399 .
  16. Pölönen, P, Mehtonen, J, Lin, J, Liuksiala, T, Häyrynen, S, Teppo, S et al.. Hemap: An Interactive Online Resource for Characterizing Molecular Phenotypes across Hematologic Malignancies. Cancer Res. 2019;79 (10):2466-2479. doi: 10.1158/0008-5472.CAN-18-2970. PubMed PMID:30940663 .
  17. Lehtipuro, S, Nykter, M, Granberg, KJ. Modes of immunosuppression in glioblastoma microenvironment. Oncotarget. 2019;10 (9):920-921. doi: 10.18632/oncotarget.26643. PubMed PMID:30847018 PubMed Central PMC6398170.
  18. Viiri, LE, Rantapero, T, Kiamehr, M, Alexanova, A, Oittinen, M, Viiri, K et al.. Extensive reprogramming of the nascent transcriptome during iPSC to hepatocyte differentiation. Sci Rep. 2019;9 (1):3562. doi: 10.1038/s41598-019-39215-0. PubMed PMID:30837492 PubMed Central PMC6401154.
  19. Sundahl, N, Vandekerkhove, G, Decaestecker, K, Meireson, A, De Visschere, P, Fonteyne, V et al.. Randomized Phase 1 Trial of Pembrolizumab with Sequential Versus Concomitant Stereotactic Body Radiotherapy in Metastatic Urothelial Carcinoma. Eur Urol. 2019;75 (5):707-711. doi: 10.1016/j.eururo.2019.01.009. PubMed PMID:30665814 .
  20. Vandekerkhove, G, Struss, WJ, Annala, M, Kallio, HML, Khalaf, D, Warner, EW et al.. Circulating Tumor DNA Abundance and Potential Utility in De Novo Metastatic Prostate Cancer. Eur Urol. 2019;75 (4):667-675. doi: 10.1016/j.eururo.2018.12.042. PubMed PMID:30638634 .
  21. Gubina, N, Naudi, A, Stefanatos, R, Jove, M, Scialo, F, Fernandez-Ayala, DJ et al.. Essential Physiological Differences Characterize Short- and Long-Lived Strains of Drosophila melanogaster. J Gerontol A Biol Sci Med Sci. 2019;74 (12):1835-1843. doi: 10.1093/gerona/gly143. PubMed PMID:29945183 .

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