Bioinformatics Center
Services
Infrastructure
Guides
Hosted services
Bioinformatics Center
Services
Infrastructure
Guides
Hosted services
Please find below annual lists of the publications that took advantage of the services provided by Bioinformatics Center.
Karttunen, J.; Heiskanen, M.; Lipponen, A.; Poulsen, D.; Pitkänen, A. Extracellular Vesicles as Diagnostics and Therapeutics for Structural Epilepsies, Int. J. Mol. Sci. 2019, 20(6), 1259; https://doi.org/10.3390/ijms20061259
Failli M, Paananen J, Fortino V. Prioritizing target-disease associations with novel safety and efficacy scoring methods, Sci Rep 2019, https://doi.org/10.1038/s41598-019-46293-7
Timonen O, Särkkä M, Fülöp T, Mattsson A, Kekäläinen J, Paananen J. Varanto: variant enrichment analysis and annotation, Bioinformatics 2019, https://doi.org/10.1093/bioinformatics/btz046
Lipponen A, Natunen T, Hujo M, Ciszek R, Hämäläinen E, Tohka J, Hiltunen M, Paananen J, Poulsen D, Kansanen E, Ndode-Ekane XE, Levonen AL, Pitkänen A. In Vitro and In Vivo Pipeline for Validation of Disease-Modifying Effects of Systems Biology-Derived Network Treatments for Traumatic Brain Injury—Lessons Learned, Int. J. Mol. Sci. 2019, https://doi.org/10.3390/ijms20215395
Pölönen P, Mehtonen J, Lin J, Liuksiala T, Häyrynen S, Teppo S, Mäkinen A, Kumar A, Malani D, Pohjolainen V, Porkka K, Heckman CA, May P, Hautamäki V, Granberg K, Lohi O, Nykter M, Heinäniemi M. Hemap: An interactive online resource for characterizing molecular phenotypes across hematologic malignancies, Cancer Research 2019, https://doi.org/10.1158/0008-5472.CAN-18-2970
Mehtonen J, Pölönen P, Häyrynen S, Lin J, Liuksiala T, Granberg K, Lohi O, Hautamäki V, Nykter M, Heinäniemi M. Data-driven characterization of molecular phenotypes across heterogenous sample collections, Nucleic Acids Research 2019, https://doi.org/10.1093/nar/gkz281
Ngo Trong T, Mehtonen J, González G, Kramer R, Hautamäki V, Heinäniemi M. Semisupervised Generative Autoencoder for Single-Cell Data., J Comput Biol. 2019, https://doi.org/10.1089/cmb.2019.0337
Nikkilä A, Arvela H, Mehtonen J, Raitanen J, Heinäniemi M, Lohi O, Auvinen A. Predicting residential radon concentrations in Finland: Model development, validation, and application to childhood leukemia., Scand J Work Environ Health. 2019, https://doi.org/10.5271/sjweh.3867
Sallinen H, Janhonen S, Pölönen P, Niskanen H, Liu OH, Kivelä A, Hartikainen JM, Anttila M, Heinäniemi M, Ylä-Herttuala S, Kaikkonen MU. Comparative transcriptome analysis of matched primary and distant metastatic ovarian carcinoma., BMC Cancer. 2019, https://doi.org/10.1186/s12885-019-6339-0
Pölönen P, Jawahar Deen A, Leinonen HM, Jyrkkänen HK, Kuosmanen S, Mononen M, Jain A, Tuomainen T, Pasonen-Seppänen S, Hartikainen JM, Mannermaa A, Nykter M, Tavi P, Johansen T, Heinäniemi M, Levonen AL. Nrf2 and SQSTM1/p62 jointly contribute to mesenchymal transition and invasion in glioblastoma., Oncogene. 2019, https://doi.org/10.1038/s41388-019-0956-6
Kuusanmäki H, Leppä AM, Pölönen P, Kontro M, Dufva O, Deb D, Yadav B, Brück O, Kumar A, Everaus H, Gjertsen BT, Heinäniemi M, Porkka K, Mustjoki S, Heckman CA. Phenotype-based drug screening reveals association between venetoclax response and differentiation stage in acute myeloid leukemia., Haematologica. 2019, https://doi.org/10.3324/haematol.2018.214882.
Chen X, Ayala I, Shannon C, Fourcaudot M, Acharya NK, Jenkinson CP, Heikkinen S, Norton L. The Diabetes Gene and Wnt Pathway Effector TCF7L2 Regulates Adipocyte Development and Function, Diabetes 2018, https://doi.org/10.2337/db17-0318.
Niskanen H, Tuszynska I, Zaborowski R, Heinäniemi M, Ylä-Herttuala S, Wilczynski B, Kaikkonen MU.Endothelial cell differentiation is encompassed by changes in long range interactions between inactive chromatin regions Nucleic Acids Res. 2018, 10.1093/nar/gkx1214.
Lewis, JD, Evans, AC, Tohka J. T1 white/gray contrast as a predictor of chronological age, and an index of cognitive performance NeuroImage 2018, https://doi.org/10.1016/j.neuroimage.2018.02.050
Marttinen M, Paananen J, Neme A, Mitra V, Takalo M, Natunen T, Paldanius KMA, Mäkinen P, Bremang M, Kurki MI, Rauramaa T, Leinonen V, Soininen H, Haapasalo A, Pike I, Hiltunen M A multiomic approach to characterize the temporal sequence in Alzheimer's disease-related pathology, Neurobiol Dis. 2019, https://doi.org/10.1016/j.nbd.2018.12.009
Martiskainen H, Takalo M, Solomon A, Stančáková A, Marttinen M, Natunen T, Haapasalo A, Herukka SK, Kuusisto J, Soininen H, Kivipelto M, Laakso M, Hiltunen M. Decreased plasma C-reactive protein levels in APOE ε4 allele carriers, Ann Clin Transl Neurol. 2018. https://doi.org/10.1002/acn3.639.
Kaartokallio T, Utge S, Klemetti MM, Paananen J, Pulkki K, Romppanen J, Tikkanen I, Heinonen S, Kajantie E, Kere J, Kivinen K, Pouta A, Lakkisto P, Laivuori H. Fetal Microsatellite in the Heme Oxygenase 1 Promoter Is Associated With Severe and Early-Onset Preeclampsia , Hypertension 2018, https://doi.org/10.1161/HYPERTENSIONAHA.117.10425.
Paananen, J. Bioinformatics in the Identification of Novel Targets and Pathways in Neurodegenerative Diseases, Curr Genet Med Rep (2017) 5:15–21, https://doi.org/10.1007/s40142-017-0115-8