Ole Winther
Professor with special responsibilities, Visiting professor, Professor MSO
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Ladder variational autoencoders
Sønderby, C. K., Raiko, T., Maaløe, L., Sønderby, S. K. & Winther, Ole, 2016, Advances in Neural Information Processing Systems 29 (NIPS 2016). Lee, D. D., Sugiyama, M., Luxburg, U. V., Guyon, I. & Garnett, R. (eds.). Curran Associates, Inc., p. 3745-3753 9 p. (Advances in Neural Information Processing Systems, Vol. 29).Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
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Literature classification for semi-automated updating of biological knowledgebases
Olsen, L. R., Kudahl, U. J., Winther, Ole & Brusic, V., 2013, In: B M C Genomics. 14(Suppl 5), 10 p., S14.Research output: Contribution to journal › Journal article › Research › peer-review
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MicroRNA expression analysis and Multiplex ligation-dependent probe amplification in metastatic and non-metastatic uveal melanoma
Larsen, A., Holst, L. M., Kaczkowski, B., Andersen, M. T., Manfé, V., Siersma, Volkert Dirk, Kolko, Miriam, Kiilgaard, Jens Folke, Winther, Ole, Prause, J. U., Gniadecki, R. & Heegaard, Steffen, 2014, In: Acta Ophthalmologica. 92, 6, p. 541-549Research output: Contribution to journal › Journal article › Research › peer-review
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Molecular Representations in Machine-Learning-Based Prediction of PK Parameters for Insulin Analogs
Einarson, K. A., Bendtsen, K. M., Li, K., Thomsen, M., Kristensen, N. R., Winther, Ole, Fulle, S., Clemmensen, L. & Refsgaard, H. H. F., 2023, In: ACS Omega. 8, 26, p. 23566-23578 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Molecular signatures of thyroid follicular neoplasia
Helweg-Larsen, R. B., Rossing, M., Henao Giraldo, R., Yamamoto, Y., Krogdahl, A., Godballe, C., Winther, Ole, Kiss, K., Christensen, L. H., Høgdall, Estrid Vilma Solyom, Bennedbæk, F. N. & Nielsen, Finn Cilius, 2010, In: Endocrine - Related Cancer. 17, 3, p. 691-708 18 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Multivariate Hawkes process models of the occurrence of regulatory elements
Carstensen, L., Sandelin, Albin Gustav, Winther, Ole & Hansen, Niels Richard, 2010, In: BMC Bioinformatics. 11, p. 456Research output: Contribution to journal › Journal article › Research › peer-review
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NetSurfP-2.0: improved prediction of protein structural features by integrated deep learning
Klausen, M. S., Jespersen, M. C., Nielsen, H., Jensen, K. K., Jurtz, V. I., Sønderby, C. K., Sommer, M. O. A., Winther, Ole, Nielsen, M., Petersen, Bent & Marcatili, P., 2019, In: Proteins: Structure, Function and Bioinformatics. 87, 6, p. 520-527Research output: Contribution to journal › Journal article › Research › peer-review
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NetSurfP-3.0: accurate and fast prediction of protein structural features by protein language models and deep learning
Høie, M. H., Kiehl, E. N., Petersen, Bent, Nielsen, M., Winther, Ole, Nielsen, H., Hallgren, J. & Marcatili, P., 2022, In: Nucleic Acids Research. 50, W1, p. W510-W515 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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NetTCR-2.0 enables accurate prediction of TCR-peptide binding by using paired TCRα and β sequence data
Montemurro, A., Schuster, Viktoria, Povlsen, H. R., Bentzen, A. K., Jurtz, V., Chronister, W. D., Crinklaw, A., Hadrup, S. R., Winther, Ole, Peters, B., Jessen, L. E. & Nielsen, M., 2021, In: Communications Biology . 4, 13 p., 1060.Research output: Contribution to journal › Journal article › Research › peer-review
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Optimal Variance Control of the Score-Function Gradient Estimator for Importance Weighted Bounds
Liévin, V., Dittadi, A., Christensen, Anders & Winther, Ole, 2020, In: Advances in Neural Information Processing Systems. 2020-December, 12 p.Research output: Contribution to journal › Conference article › Research › peer-review
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Predictive active set selection methods for Gaussian processes
Henao, R. & Winther, Ole, 2012, In: Neurocomputing. 80, p. 10-18 9 p.Research output: Contribution to journal › Conference article › Research › peer-review
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RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
Wang, Jun, Horlacher, M., Cheng, L. & Winther, Ole, 2023, In: Briefings in Bioinformatics. 24, 5, 14 p., bbad249.Research output: Contribution to journal › Journal article › Research › peer-review
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RSK is a principal effector of the RAS-ERK pathway for eliciting a coordinate promotile/invasive gene program and phenotype in epithelial cells
Doehn, U., Hauge, C., Frank, S. R., Jensen, C. A. J., Duda, K., Nielsen, J. V., Cohen, M. S., Johansen, Jens Vilstrup, Winther, B. R., Lund, L. R., Winther, Ole, Taunton, J., Hansen, S. H. & Frödin, Morten, 2009, In: Molecular Cell. 35, 4, p. 511-22 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Reducing the rate of psychiatric re-admissions in bipolar disorder using smartphones - The RADMIS trial
Faurholt-Jepsen, M., Lindbjerg Tønning, M., Fros, M., Martiny, Klaus, Tuxen, N., Rosenberg, N., Busk, J., Winther, Ole, Thaysen-Petersen, D., Aamund, K. A., Tolderlund, L., Bardram, J. E. & Kessing, Lars Vedel, 2021, In: Acta Psychiatrica Scandinavica. 143, 5, p. 453-465 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
Robust multi-scale clustering of large DNA microarray datasets with the consensus algorithm
Grotkjær, T., Winther, Ole, Regenberg, Birgitte, Nielsen, J. & Hansen, L. K., 2006, In: Bioinformatics. 22, 1, p. 58-67 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Sequential neural models with stochastic layers
Fraccaro, M., Sønderby, S. K., Paquet, U. & Winther, Ole, 2016, Neural Information Processing Systems 2016. Lee, D. D., Sugiyama, M., Luxburg, U. V., Guyon, I. & Garnett, R. (eds.). Neural Information Processing Systems Foundation, p. 2207-2215 9 p. (Advances in Neural Information Processing Systems, Vol. 29).Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
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SignalP 5.0 improves signal peptide predictions using deep neural networks
Armenteros, J. J. A., Tsirigos, Konstantinos, Sønderby, C. K., Petersen, T. N., Winther, Ole, Brunak, Søren, von Heijne, G. & Nielsen, H., 18 Feb 2019, In: Nature Biotechnology. 37, 4, p. 420-423Research output: Contribution to journal › Journal article › Communication
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SignalP 6.0 predicts all five types of signal peptides using protein language models
Teufel, Felix Georg, Almagro Armenteros, J. J., Johansen, A. R., Gíslason, M. H., Pihl, S. I., Tsirigos, Konstantinos, Winther, Ole, Brunak, Søren, von Heijne, G. & Nielsen, H., 2022, In: Nature Biotechnology. 40, p. 1023-1025Research output: Contribution to journal › Comment/debate › Research
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SinaPlot: an enhanced chart for simple and truthful representation of single observations over multiple classes
Sidiropoulos, N., Sohi, S. H., Pedersen, T. L., Porse, Bo Torben, Winther, Ole, Rapin, N. & Bagger, F. O., 2018, In: Journal of Computational and Graphical Statistics. 27, 3, p. 673-676 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Systematic review of machine learning for diagnosis and prognosis in dermatology
Thomsen, K., Iversen, L., Titlestad, T. L. & Winther, Ole, 2020, In: Journal of Dermatological Treatment. 31, 5, p. 496-510Research output: Contribution to journal › Review › Research › peer-review
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The Bipolar Illness Onset study: research protocol for the BIO cohort study
Kessing, Lars Vedel, Munkholm, K., Faurholt-Jepsen, M., Miskowiak, Kamilla, Nielsen, L. B., Frikke-Schmidt, Ruth, Ekstrøm, Claus Thorn, Winther, Ole, Pedersen, Bente Klarlund, Poulsen, Henrik Enghusen, McIntyre, R. S., Kapczinski, F., Gattaz, W. F., Bardram, J., Frost, M., Mayora, O., Knudsen, Gitte Moos, Phillips, M. & Vinberg, Maj, 2017, In: BMJ Open. 7, 6, 12 p., e015462.Research output: Contribution to journal › Journal article › Research › peer-review
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The effect of smartphone-based monitoring and treatment on the rate and duration of psychiatric readmission in patients with unipolar depressive disorder: The RADMIS randomized controlled trial
Tønning, M. L., Faurholt-Jepsen, Maria , Frost, M., Martiny, Klaus, Tuxen, N., Rosenberg, N., Busk, J., Winther, Ole, Melbye, S. A., Thaysen-Petersen, D., Aamund, K. A., Tolderlundh, L., Bardram, J. E. & Kessing, Lars Vedel, 2021, In: Journal of Affective Disorders. 282, p. 354-363 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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The middle ear immune defense changes with age
Nielsen, M. C., Friis, M., Martin-Bertelsen, T., Winther, Ole, Friis-Hansen, Lennart Jan & Cayé-Thomasen, Per, 2016, In: European Archives of Oto-Rhino-Laryngology. 273, 1, p. 81-86 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
Suzuki, H., Forrest, A. R. R., van Nimwegen, E., Daub, C. O., Balwierz, P. J., Irvine, K. M., Lassmann, T., Ravasi, T., Hasegawa, Y., de Hoon, M. J. L., Katayama, S., Schroder, K., Carninci, P., Tomaru, Y., Kanamori-Katayama, M., Kubosaki, A., Akalin, A., Ando, Y., Arner, E., Asada, M. & 31 others, , 2009, In: Nature Genetics. 41, 5, p. 553-62 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Towards in silico CLIP-seq: predicting protein-RNA interaction via sequence-to-signal learning
Horlacher, M., Wagner, N., Moyon, L., Kuret, K., Goedert, N., Salvatore, Marco, Ule, J., Gagneur, J., Winther, Ole & Marsico, A., 2023, In: Genome Biology. 24, 1, 37 p., 180.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 171145930
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Multivariate Hawkes process models of the occurrence of regulatory elements
Research output: Contribution to journal › Journal article › Research › peer-review
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2478
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HemaExplorer: a database of mRNA expression profiles in normal and malignant haematopoiesis
Research output: Contribution to journal › Journal article › Research › peer-review
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Enterococcus faecalis infection causes inflammation, intracellular oxphos-independent ROS production, and DNA damage in human gastric cancer cells
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