Ole Winther

Ole Winther

Professor with special responsibilities

Member of:


    Publication year:
    All
    1 - 25 out of 66Page size: 25
    1. 2022
    2. Published

      Calibrated uncertainty for molecular property prediction using ensembles of message passing neural networks

      Busk, J., Jørgensen, P. B., Bhowmik, A., Schmidt, M. N., Winther, Ole & Vegge, T., 2022, In: Machine Learning: Science and Technology. 3, 1, 12 p., 015012.

      Research output: Contribution to journal › Journal article › Research › peer-review

    3. E-pub ahead of print

      NetSurfP-3.0: accurate and fast prediction of protein structural features by protein language models and deep learning

      Høie, Magnus Haraldson, Kiehl, E. N., Petersen, Bent, Nielsen, M., Winther, Ole, Nielsen, H., Hallgren, J. & Marcatili, P., 1 Jun 2022, (E-pub ahead of print) In: Nucleic Acids Research. 6 p., gkac439.

      Research output: Contribution to journal › Journal article › Research › peer-review

    4. E-pub ahead of print

      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, (E-pub ahead of print) In: Nature Biotechnology.

      Research output: Contribution to journal › Journal article › Research › peer-review

    5. E-pub ahead of print

      DeepLoc 2.0: multi-label subcellular localization prediction using protein language models

      Thumuluri, V., Almagro Armenteros, J. J., Johansen, A. R., Nielsen, H. & Winther, Ole, Apr 2022, (E-pub ahead of print) In: Nucleic Acids Research.

      Research output: Contribution to journal › Journal article › Research › peer-review

    6. Published

      Interpretable autoencoders trained on single cell sequencing data can transfer directly to data from unseen tissues

      Walbech, J. S., Kinalis, S., Winther, Ole, Nielsen, Finn Cilius & Bagger, F. O., 2022, In: Cells. 11, 12 p., 85.

      Research output: Contribution to journal › Journal article › Research › peer-review

    7. 2021
    8. Published

      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

    9. Published

      A comparison of tools for copy-number variation detection in germline whole exome and whole genome sequencing data

      Gabrielaite, M., Torp, M., Rasmussen, M., Andreu-Sánchez, S., Vieira, Filipe Garrett, Pedersen, C., Kinalis, S., Madsen, M., Yde, C., Rønn, O. L., Marvig, R., Østrup, O., Rossing, Caroline Maria, Nielsen, Finn Cilius, Winther, Ole & Bagger, F. O., 2021, bioRxiv, 29 p.

      Research output: Working paper › Preprint › Research

    10. Published

      A comparison of tools for copy-number variation detection in germline whole exome and whole genome sequencing data

      Gabrielaite, M., Torp, M. H., Rasmussen, Malthe Sebro, Andreu-Sánchez, S., Vieira, Filipe Garrett, Pedersen, C. B., Kinalis, S., Madsen, M. B., Kodama, M., Demircan, G. S., Simonyan, A., Yde, C. W., Olsen, L. R., Marvig, R. L., Østrup, O., Rossing, Caroline Maria, Nielsen, Finn Cilius, Winther, Ole & Bagger, F. O., 2021, In: Cancers. 13, 24, 6283.

      Research output: Contribution to journal › Journal article › Research › peer-review

    11. Published

      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

    12. Published

      Improved metagenome binning and assembly using deep variational autoencoders

      Nissen, J. N., Johansen, Joachim, Allesoe, R. L., Sonderby, C. K., Armenteros, J. J. A., Grønbech, Christopher Heje, Jensen, Lars Juhl, Nielsen, H. B., Petersen, T. N., Winther, Ole & Rasmussen, Simon, 2021, In: Nature Biotechnology. 39, p. 555-560

      Research output: Contribution to journal › Journal article › Research › peer-review

    13. Published

      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, M., 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

    14. 2020
    15. Published

      Daily estimates of clinical severity of symptoms in bipolar disorder from smartphone-based self-assessments

      Busk, J., Faurholt-Jepsen, M., Frost, M., Bardram, J. E., Kessing, Lars Vedel & Winther, Ole, 2020, In: Translational Psychiatry. 10, 12 p., 194.

      Research output: Contribution to journal › Journal article › Research › peer-review

    16. Published

      Forecasting Mood in Bipolar Disorder From Smartphone Self-assessments: Hierarchical Bayesian Approach

      Busk, J., Faurholt-Jepsen, M., Frost, M., Bardram, J. E., Kessing, Lars Vedel & Winther, Ole, 1 Apr 2020, In: JMIR mHealth and uHealth. 8, 4, 14 p., e15028.

      Research output: Contribution to journal › Journal article › Research › peer-review

    17. Published

      scVAE: variational auto-encoders for single-cell gene expression data

      Grønbech, Christopher Heje, Vording, M. F., Timshel, P., Sønderby, C. K., Pers, Tune H & Winther, Ole, 2020, In: Bioinformatics. 36, 16, p. 4415-4422 8 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    18. Published

      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

    19. Published

      Identification and validation of 174 COVID-19 vaccine candidate epitopes reveals low performance of common epitope prediction tools

      Prachar, Marek, Justesen, S., Steen-Jensen, D. B., Thorgrimsen, S., Jurgons, E., Winther, Ole & Bagger, F. O., 2020, In: Scientific Reports. 10, 8 p., 20465.

      Research output: Contribution to journal › Journal article › Research › peer-review

    20. Published

      Deep Learning for Diagnostic Binary Classification of Multiple-Lesion Skin Diseases

      Thomsen, K., Christensen, A. L., Iversen, L., Lomholt, H. B. & Winther, Ole, 2020, In: Frontiers in Medicine. 7, 7 p., 574329.

      Research output: Contribution to journal › Journal article › Research › peer-review

    21. Published

      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. 496-510

      Research output: Contribution to journal › Review › Research › peer-review

    22. 2019
    23. Published

      Detecting sequence signals in targeting peptides using deep learning

      Almagro Armenteros, J. J., Salvatore, Marco, Emanuelsson, O., Winther, Ole, von Heijne, G., Elofsson, A. & Nielsen, H., 2019, In: Life Science Alliance. 2, 5, 14 p., 201900429.

      Research output: Contribution to journal › Journal article › Research › peer-review

    24. Published

      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. 420-423

      Research output: Contribution to journal › Journal article › Communication

    25. Published

      A perspective on inverse design of battery interphases using multi-scale modelling, experiments and generative deep learning

      Bhowmik, A., Castelli, I. E., Garcia-Lastra, J. M., Bjørn-Jørgensen, P., Winther, Ole & Vegge, T., 2019, In: Energy Storage Materials. 21, p. 446-456

      Research output: Contribution to journal › Review › Research › peer-review

    26. Published

      Deconvolution of autoencoders to learn biological regulatory modules from single cell mRNA sequencing data

      Kinalis, S., Nielsen, Finn Cilius, Winther, Ole & Bagger, F. O., 2019, In: BMC Bioinformatics. 20, 9 p., 379.

      Research output: Contribution to journal › Journal article › Research › peer-review

    27. Published

      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. 520-527

      Research output: Contribution to journal › Journal article › Research › peer-review

    28. 2018
    29. Submitted

      Binning microbial genomes using deep learning

      Nissen, J. N., Sønderby, C. K., Armenteros, J. J. A., Grønbech, Christopher Heje, Nielsen, H. B., Petersen, T. N., Winther, Ole & Rasmussen, Simon, 2018, (Submitted) In: bioRxiv. 490078.

      Research output: Contribution to journal › Journal article › Research

    30. Published

      SinaPlot: an enhanced chart for simple and truthful representation of single observations over multiple classes

      Sidiropoulos, Nikos, 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

    Previous 1 2 3 Next

    ID: 171145930