Department of Biochemistry and Developmental Biology

  • Finland

Publications 1980 2019

2019

ALDH1A1-related stemness in high-grade serous ovarian cancer is a negative prognostic indicator but potentially targetable by EGFR/mTOR-PI3K/aurora kinase inhibitors

Kaipio, K., Chen, P., Roering, P., Huhtinen, K., Mikkonen, P., Östling, P., Lehtinen, L., Mansuri, N., Korpela, T., Potdar, S., Hynninen, J., Auranen, A., Grénman, S., Wennerberg, K., Hautaniemi, S. & Carpén, O., 3 Dec 2019, In : Journal of Pathology. 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Anagrelide for Gastrointestinal Stromal Tumor

Pulkka, O-P., Gebreyohannes, Y. K., Wozniak, A., Mpindi, J-P., Tynninen, O., Icay, K., Cervera, A., Keskitalo, S., Murumägi, A., Kulesskiy, E., Laaksonen, M., Wennerberg, K., Varjosalo, M., Laakkonen, P., Lehtonen, R., Hautaniemi, S., Kallioniemi, O., Schöffski, P., Sihto, H. & Joensuu, H., 1 Mar 2019, In : Clinical Cancer Research. 25, 5, p. 1676-1687 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Anduril 2: Upgraded large-scale data integration framework

Cervera, A., Rantanen, V., Ovaska, K., Laakso, M., Nuñez-Fontarnau, J., Alkodsi, A., Casado, J., Facciotto, C., Häkkinen, A., Louhimo, R., Karinen, S., Zhang, K., Lavikka, K., Lyly, L., Pal Singh, M. & Hautaniemi, S., 2019, In : Bioinformatics. 35, 19, p. 3815-3817 3 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Caspase-2 and p75 neurotrophin receptor (p75NTR) are involved in the regulation of SREBP and lipid genes in hepatocyte cells

Pham, D. D., Bruelle, C., Do, H. T., Pajanoja, C., Jin, C., Olkkonen, V. M., Eriksson-Rosenberg, O., Jauhiainen, M., Lalowski, M. & Lindholm, D., 11 Jul 2019, In : Cell Death and Disease. 10, 15 p., 537.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Comparative toxicoproteogenomics of mouse and rat liver identifies TCDD-resistance genes

Prokopec, S. D., Lu, A., Lee, S. C-E. S., Yao, C. Q., Sun, R. X., Watson, J. D., Soliymani, R., de Borja, R., Wong, A., Sam, M., Zuzarte, P., McPherson, J. D., Okey, A. B., Pohjanvirta, R. & Boutros, P. C., 11 Sep 2019, In : Archives of Toxicology. 93, 10, p. 2961-2978 18 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Computational investigation of cancer genomes

Alkodsi, A., 2019, Helsinki: [A. Alkodsi]. 50 p.

Research output: ThesisDoctoral ThesisCollection of Articles

Open Access

Crosstalk Between Chaperone-Mediated Protein Disaggregation and Proteolytic Pathways in Aging and Disease

Feleciano, D. R., Juenemann, K., Iburg, M., Bras, I. C., Holmberg, C. & Kirstein, J., 29 Jan 2019, In : Frontiers in aging neuroscience. 11, 16 p., 9.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Detection of Retrotransposition Activity of Hot LINE-1s by Long-Distance Inverse PCR

Pradhan, B. & Kauppi, L., Jul 2019, In : Journal of Visualized Experiments. 149, 8 p., 59880.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Development of the urogenital system is regulated via the 3 ' UTR of GDNF

Li, H., Jakobson, M., Ola, R., Gui, Y., Kumar, A., Sipilä, P., Sariola, H., Kuure, S. & Andressoo, J-O., 28 Mar 2019, In : Scientific Reports. 9, 14 p., 5302.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Distinct subtypes of diffuse large B-cell lymphoma defined by hypermutated genes

Alkodsi, A., Cervera, A., Zhang, K., Louhimo, R., Meriranta, L., Pasanen, A., Leivonen, S-K., Holte, H., Leppä, S., Lehtonen, R. & Hautaniemi, S., Nov 2019, In : Leukemia. 33, 11, p. 2662-2672 11 p.

Research output: Contribution to journalArticleScientificpeer-review

FAM92A1 is a BAR domain protein required for mitochondrial ultrastructure and function

Wang, L., Yan, Z., Vihinen, H., Eriksson, O., Wang, W., Soliymani, R., Lu, Y., Xue, Y., Jokitalo, E. & Zhao, H., 7 Jan 2019, In : Journal of Cell Biology. 218, 1, p. 97-111 15 p.

Research output: Contribution to journalArticleScientificpeer-review

Functional analysis of synovial fluid from osteoarthritic knee and carpometacarpal joints unravels different molecular profiles

Barreto, G., Soliymani, R., Baumann, M., Waris, E., Eklund, K. K., Zenobi-Wong, M. & Lalowski, M., May 2019, In : Rheumatology. 58, 5, p. 897-907 11 p.

Research output: Contribution to journalArticleScientificpeer-review

HAS3-induced extracellular vesicles from melanoma cells stimulate IHH mediated c-Myc upregulation via the hedgehog signaling pathway in target cells.

Arasu, U. T., Deen, A. J., Pasonen-Seppänen, S., Heikkinen, S., Lalowski, M., Kärnä, R., Härkönen, K., Mäkinen, P., Lazaro Ibañez, E., Siljander, P., Oikari, S., Levonen, A-L. & Rilla, K., 9 Dec 2019, In : Cellular and Molecular Life Sciences.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Mathematical modeling of treatment resistance in cancer

Kozłowska, E., 2019, Helsinki: [E. Kozłowska]. 52 p.

Research output: ThesisDoctoral ThesisCollection of Articles

Open Access

Meiotic spindle assembly checkpoint and aneuploidy in males versus females

Lane, S. & Kauppi, L., Mar 2019, In : Cellular and Molecular Life Sciences. 76, 6, p. 1135-1150 16 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Muscle and serum metabolomes are dysregulated in colon-26 tumor-bearing mice despite amelioration of cachexia with activin receptor type 2B ligand blockade

Lautaoja, J. H., Lalowski, M., Nissinen, T. A., Hentila, J., Shi, Y., Ritvos, O., Cheng, S. & Hulmi, J. J., May 2019, In : American Journal of Physiology: Endocrinology and Metabolism. 316, 5, p. E852-E865 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Nuclear factor E2-related factor 2 deficiency impairs atherosclerotic lesion development but promotes features of plaque instability in hypercholesterolaemic mice

Ruotsalainen, A-K., Lappalainen, J. P., Heiskanen, E., Merentie, M., Sihvola, V., Näpänkangas, J., Lottonen-Raikaslehto, L., Kansanen, E., Adinolfi, S., Kaarniranta, K., Ylä-Herttuala, S., Jauhiainen, M., Pirinen, E. & Levonen, A-L., 1 Jan 2019, In : Cardiovascular Research. 115, 1, p. 243-254 12 p.

Research output: Contribution to journalArticleScientificpeer-review

ORP2 interacts with phosphoinositides and controls the subcellular distribution of cholesterol

Koponen, A., Arora, A., Takahashi, K., Kentala, H., Kivela, A. M., Jaaskelainen, E., Peranen, J., Somerharju, P., Ikonen, E., Viitala, T. & Olkkonen, V. M., Mar 2019, In : Biochimie. 158, p. 90-101 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Osteoporosis and skeletal dysplasia caused by pathogenic variants in SGMS2

Pekkinen, M., Terhal, P. A., Botto, L. D., Henning, P., Mäkitie, R. E., Roschger, P., Jain, A., Kol, M., Kjellberg, M. A., Paschalis, E. P., van Gassen, K., Murray, M., Bayrak-Toydemir, P., Magnusson, M. K., Jans, J., Kausar, M., Carey, J. C., Somerharju, P., Lerner, U. H., Olkkonen, V. M. & 3 others, Klaushofer, K., Holthuis, J. C. M. & Mäkitie, O., 4 Apr 2019, In : JCI INSIGHT. 4, 7, 20 p., 126180.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Prolyl oligopeptidase inhibition reduces PolyQ aggregation and improves cell viability in cellular model of Huntington’s disease

Norrbacka, S., Lindholm, D. & Myöhänen, T. T., 29 Sep 2019, In : Journal of Cellular and Molecular Medicine. 23, 12, p. 8511-8515 5 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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P-TEFb Activation by RBM7 Shapes a Pro-survival Transcriptional Response to Genotoxic Stress

Bugai, A., Quaresma, A. J. C., Friedel, C. C., Lenasi, T., Düster, R., Sibley, C. R., Fuginaga, K., Kukanja, P., Hennig, T., Blasius, M., Geyer, M., Ule, J., Dölken, L. & Barboric, M., 18 Apr 2019, In : Molecular Cell. 74, 2, p. 254-+ 24 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Receptor Tyrosine Kinase Signaling Networks Define Sensitivity to ERBB Inhibition and Stratify Kras Mutant Lung Cancers

Talwelkar, S. S., Nagaraj, A. S., Devlin, J. R., Hemmes, A., Potdar, S., Kiss, E. A., Saharinen, P., Salmenkivi, K. M., Mäyränpää, M. I., Wennerberg, K. & Verschuren, E., Oct 2019, In : Molecular Cancer Therapeutics. 18, 10, p. 1863-1874 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Seipin Facilitates Triglyceride Flow to Lipid Droplet and Counteracts Droplet Ripening via Endoplasmic Reticulum Contact

Salo, V. T., Li, S., Vihinen, H., Hölttä-Vuori, M., Szkalisity, A., Horvath, P., Belevich, I., Peränen, J., Thiele, C., Somerharju, P., Zhao, H., Santinho, A., Thiam, A. R., Jokitalo, E. & Ikonen, E., 19 Aug 2019, In : Developmental Cell. 50, 4, p. 478-+ 25 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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The E3 ubiquitin ligase inducible degrader of the LDL receptor/myosin light chain interacting protein in health and disease

van Loon, N. M., Lindholm, D. & Zelcer, N., Jun 2019, In : Current Opinion in Lipidology. 30, 3, p. 192-197 6 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

The NAD-Booster Nicotinamide Riboside Potently Stimulates Hematopoiesis through Increased Mitochondrial Clearance

Vannini, N., Campos, V., Girotra, M., Trachsel, V., Rojas-Sutterlin, S., Tratwal, J., Ragusa, S., Stefanidis, E., Ryu, D., Rainer, P. Y., Nikitin, G., Giger, S., Li, T. Y., Semilietof, A., Oggier, A., Yersin, Y., Tauzin, L., Pirinen, E., Cheng, W-C., Ratajczak, J. & 16 others, Canto, C., Ehrbar, M., Sizzano, F., Petrova, T. V., Vanhecke, D., Zhang, L., Romero, P., Nahimana, A., Cherix, S., Duchosal, M. A., Ho, P-C., Deplancke, B., Coukos, G., Auwerx, J., Lutolf, M. P. & Naveiras, O., 7 Mar 2019, In : Cell Stem Cell. 24, 3, p. 405-+ 21 p.

Research output: Contribution to journalArticleScientificpeer-review

The structure of a prokaryotic viral envelope protein expands the landscape of membrane fusion proteins

El Omari, K., Li, S., Kotecha, A., Walter, T. S., Bignon, E., Harlos, K., Somerharju, P., Haas, F. D., Clare, D., Molin, M., Hurtado, F., Li, M., Grimes, J. M., Bamford, D. H., Tischler, N. D., Huiskonen, J. T., Stuart, D. I. & Roine, E., 19 Feb 2019, In : Nature Communications. 10, 11 p., 846.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Toimiiko sähköinen tentti lääkiksessä?

Siirilä, S., Merenmies, J., Pyörälä, E., Masalin, T., Baumann, M., Mervaala, E., Härkönen, T. & Rostila, A., 2019, In : Suomen lääkärilehti. 74, 43, p. 2457-2458 2 p.

Research output: Contribution to journalArticleProfessional

Transcription Factor USF1 Is Required for Maintenance of Germline Stem Cells in Male Mice

Faisal, I., Cisneros-Montalvo, S., Hamer, G., Tuominen, M. M., Laurila, P-P., Tumiati, M., Jauhiainen, M., Kotaja, N., Toppari, J., Mäkelä, J-A. & Kauppi, L., May 2019, In : Endocrinology. 160, 5, p. 1119-1136 18 p.

Research output: Contribution to journalArticleScientificpeer-review

Tutkijalääkäriohjelma tarjoaa nopean alun tutkijanuralle

Vihma, K., Uusikangas, S., Bergman, P. H., Renkonen, R., Sariola, H., Lehtisalo, M., Niemi, M., Rice, D. P., Heikinheimo, M., Rahkonen, O. & Mäkitie, A., Feb 2019, In : Duodecim. 135, 3, p. 275-282 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
2018

A Functional Homologous Recombination Assay Predicts Primary Chemotherapy Response and Long-Term Survival in Ovarian Cancer Patients

Tumiati, M., Hietanen, S., Hynninen, J., Pietilä, E., Färkkilä, A., Kaipio, K., Roering, P., Huhtinen, K., Alkodsi, A., Li, Y., Lehtonen, R., Erkan, E. P., Tuominen, M. M., Lehti, K., Hautaniemi, S. K., Vähärautio, A., Grenman, S., Carpen, O. & Kauppi, L., 15 Sep 2018, In : Clinical Cancer Research. 24, 18, p. 4482-4493 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Arginine 107 of yeast ATP synthase subunit g mediates sensitivity of the mitochondrial permeability transition to phenylglyoxal

Guo, L., Carraro, M., Sartori, G., Minervini, G., Eriksson, O., Petronilli, V. & Bernardi, P., 21 Sep 2018, In : Journal of Biological Chemistry. 293, 38, p. 14632-14645 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Autophagy-lysosomal defect in human CADASIL vascular smooth muscle cells

Hanemaaijer, E. S., Panahi, M., Swaddiwudhipong, N., Tikka, S., Winblad, B., Viitanen, M., Piras, A. & Behbahani, H., Nov 2018, In : European Journal of Cell Biology. 97, 8, p. 557-567 11 p.

Research output: Contribution to journalArticleScientificpeer-review

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Open Access
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Chymase released from hypoxia-activated cardiac mast cells cleaves human apoA-I at Tyr192 and compromises its cardioprotective activity

Kareinen, I., Baumann, M., Su Duy Nguyen, Maaninka, K., Anisimov, A., Tozuka, M., Jauhiainen, M., Lee-Rueckert, M. & Kovanen, P. T., Jun 2018, In : Journal of Lipid Research. 59, 6, p. 945-957 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Clinical Value of 18F-fluorodeoxyglucose Positron Emission Tomography/Computed Tomography in Response Evaluation after Primary Treatment of Advanced Epithelial Ovarian Cancer

Hynninen, J., Laasik, M., Vallius, T., Kemppainen, J., Grönroos, S., Virtanen, J., Casado, J., Hautaniemi, S., Grenman, S., Seppänen, M. & Auranen, A., Aug 2018, In : Clinical Oncology. 30, 8, p. 507-514 8 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Comprehensive evaluation of coding region point mutations in microsatellite-unstable colorectal cancer

Kondelin, J., Salokas, K., Saarinen, L., Ovaska, K., Rauanheimo, H., Plaketti, R-M., Hamberg, J., Liu, X., Yadav, L., Gylfe, A. E., Cajuso, T., Hänninen, U. A., Palin, K., Ristolainen, H., Katainen, R., Kaasinen, E., Tanskanen, T., Aavikko, M., Taipale, M., Taipale, J. & 17 others, Renkonen-Sinisalo, L., Lepistö, A., Koskensalo, S., Böhm, J., Mecklin, J-P., Ongen, H., Dermitzakis, E. T., Kilpivaara, O., Vahteristo, P., Turunen, M., Hautaniemi, S., Tuupanen, S., Karhu, A., Välimäki, N., Varjosalo, M., Pitkänen, E. & Aaltonen, L. A., 2018, In : EMBO molecular medicine. 10, 9, 20 p., e8552.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Computational analysis of microRNAs in biomedicine

Icay-Rouhiainen, K. A., 2018, Helsinki: [K. A. Icay-Rouhiainen]. 51 p.

Research output: ThesisDoctoral ThesisCollection of Articles

Curcumin as Treatment for Bladder Cancer: A Preclinical Study of Cyclodextrin-Curcumin Complex and BCG as Intravesical Treatment in an Orthotopic Bladder Cancer Rat Model

Falke, J., Parkkinen, J., Vaahtera, L., Hulsbergen-van de Kaa, C. A., Oosterwijk, E. & Witjes, J. A., 2018, In : BioMed Research International. 7 p., 9634902.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Design, Synthesis, and Testing of Potent, Selective Hepsin Inhibitors via Application of an Automated Closed-Loop Optimization Platform

Pant, S. M., Mukonoweshuro, A., Desai, B., Ramjee, M. K., Selway, C. N., Tarver, G. J., Wright, A. G., Birchall, K., Chapman, T. M., Tervonen, T. A. & Klefström, J., 24 May 2018, In : Journal of Medicinal Chemistry. 61, 10, p. 4335-4347 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Differences in proliferation rate between CADASIL and control vascular smooth muscle cells are related to increased TGF beta expression

Panahi, M., Mesri, N. Y., Samuelsson, E-B., Coupland, K. G., Forsell, C., Graff, C., Tikka, S., Winblad, B., Viitanen, M., Karlström, H., Sundström, E. & Behbahani, H., Jun 2018, In : Journal of Cellular and Molecular Medicine. 22, 6, p. 3016-3024 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Digital leap project – students’ perceptions of summative online assessment pilot

Siirilä, S., Rostila, A., Mervaala, E., Baumann, M., Merenmies, J. & Pyörälä, E., 12 Mar 2018, In : The Journal of the Islamic International Medical College. 13, Supplement, p. 100 1 p.

Research output: Contribution to journalMeeting AbstractResearchpeer-review

Open Access

Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRET

Shcherbakova, D. M., Cammer, N. C., Huisman, T. M., Verkhusha, V. V. & Hodgson, L., Jun 2018, In : Nature Chemical Biology. 14, 6, p. 591-+ 17 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Drug-Sensitivity Screening and Genomic Characterization of 45 HPV-Negative Head and Neck Carcinoma Cell Lines for Novel Biomarkers of Drug Efficacy

Lepikhova, T., Karhemo, P-R., Louhimo, R., Yadav, B., Murumägi, A., Kulesskiy, E., Kivento, M., Sihto, H., Grenman, R., Syrjänen, S. M., Kallioniemi, O., Aittokallio, T., Wennerberg, K., Joensuu, H. & Monni, O., Sep 2018, In : Molecular Cancer Therapeutics. 17, 9, p. 2060-2071 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Extracellular Lipids Accumulate in Human Carotid Arteries as Distinct Three-Dimensional Structures and Have Proinflammatory Properties

Lehti, S., Nguyen, S. D., Belevich, I., Vihinen, H., Heikkilä, H. M., Soliymani, R., Käkelä, R., Saksi, J., Jauhiainen, M., Grabowski, G. A., Kummu, O., Hörkkö, S., Baumann, M., Lindsberg, P. J., Jokitalo, E., Kovanen, P. T. & Öörni, K., Feb 2018, In : The American Journal of Pathology. 188, 2, p. 525-538 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Genetic predisposition to uterine leiomyoma is determined by loci for genitourinary development and genome stability

Valimaki, N., Kuisma, H., Pasanen, A., Heikinheimo, O., Sjoberg, J., Butzow, R., Sarvilinna, N., Heinonen, H-R., Tolvanen, J., Bramante, S., Tanskanen, T., Auvinen, J., Uimari, O., Alkodsi, A., Lehtonen, R., Kaasinen, E., Palin, K. & Aaltonen, L. A., 18 Sep 2018, In : eLife. 7, 50 p., 37110.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Hepatocellular uptake of cyclodextrin-complexed curcumin during liver preservation: A feasibility study

Saidi, S. A., Meurisse, N., Jochmans, I., Heedfeld, V., Wylin, T., Parkkinen, J., Pirenne, J., Monbaliu, D., El Feki, A. & van Pelt, J., Jan 2018, In : Biopharmaceutics & Drug Disposition. 39, 1, p. 18-29 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Identifying differentially methylated sites in samples with varying tumor purity

Häkkinen, A., Alkodsi, A., Facciotto, C., Zhang, K., Kaipio, K., Leppa, S., Carpen, O., Grenman, S., Hynninen, J., Hietanen, S., Lehtonen, R. & Hautaniemi, S., 15 Sep 2018, In : Bioinformatics. 34, 18, p. 3078-3085 8 p.

Research output: Contribution to journalArticleScientificpeer-review