Ole Winther

Publikation

Publikationer pr. år 2006 2009 2013 2014 2015 2016 2019 2020

• 38 Tidsskriftartikel
• 4 Konferencebidrag i proceedings
• 3 Review
• 1 Konferenceabstrakt i tidsskrift
• 1 Mere
  • 1 Konferenceartikel

Publikationer pr. år

Publikationer pr. år

Søgeresultater

• 2020

  Systematic review of machine learning for diagnosis and prognosis in dermatology

  Thomsen, K., Iversen, L., Titlestad, T. L. & Winther, O., 3 jul. 2020, I: Journal of Dermatological Treatment.

  Publikation: Bidrag til tidsskrift › Review › peer review

  • Machine Learning 100%
  • Dermatology 89%
  • Systematic Reviews 65%
  • Artificial Intelligence 46%
  • Publications 29%
  10 Citationer (Scopus)
• 2019

  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, O. & Vegge, T., sep. 2019, I: Energy Storage Materials. 21, s. 446-456

  Publikation: Bidrag til tidsskrift › Review › peer review

  • Solid Electrolyte 100%
  • Deep learning 89%
  • Solid electrolytes 70%
  • Simulation 62%
  • Process Dynamics 59%
  20 Citationer (Scopus)

  24 Downloads (Pure)

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

  Kinalis, S., Nielsen, F. C., Winther, O. & Bagger, F. O., 8 jul. 2019, I: BMC Bioinformatics. 20, 9 s., 379.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Messenger RNA 100%
  • Sequencing 83%
  • Deconvolution 82%
  • Cell 51%
  • Module 46%
  4 Citationer (Scopus)

  13 Downloads (Pure)

• Detecting sequence signals in targeting peptides using deep learning

  Almagro Armenteros, J. J., Salvatore, M., Emanuelsson, O., Winther, O., von Heijne, G., Elofsson, A. & Nielsen, H., 2019, I: Life Science Alliance. 2, 5, 14 s., 201900429.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Deep Learning 100%
  • Protein Sorting Signals 78%
  • peptide 74%
  • targeting 71%
  • signal peptide 69%
  97 Citationer (Scopus)

  3 Downloads (Pure)

• 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, O., Nielsen, M., Petersen, B. & Marcatili, P., jun. 2019, I: Proteins: Structure, Function and Bioinformatics. 87, 6, s. 520-527

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Deep Learning 100%
  • Secondary Structure 42%
  • Protein 30%
  • Proteins 26%
  • Protein Structure 23%
  91 Citationer (Scopus)

• SignalP 5.0 improves signal peptide predictions using deep neural networks

  Armenteros, J. J. A., Tsirigos, K., Sønderby, C. K., Petersen, T. N., Winther, O., Brunak, S., von Heijne, G. & Nielsen, H., 1 apr. 2019, I: Nature Biotechnology. 37, 4, s. 420-423

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Formidling

  • Protein Sorting Signals 100%
  • Deep neural networks 66%
  • Peptide 40%
  • Amino acids 32%
  • Amino Acid Sequence 25%
  811 Citationer (Scopus)
• 2018

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

  Sidiropoulos, N., Sohi, S. H., Pedersen, T. L., Porse, B. T., Winther, O., Rapin, N. & Bagger, F. O., 3 jul. 2018, I: Journal of Computational and Graphical Statistics. 27, 3, s. 673-676 4 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Chart 100%
  • Charts 88%
  • Observation 65%
  • Jitter 49%
  • Sample Size 45%
  12 Citationer (Scopus)
• 2017

  An introduction to deep learning on biological sequence data: examples and solutions

  Jurtz, V. I., Johansen, A. R., Nielsen, M., Almagro Armenteros, J. J., Nielsen, H., Sønderby, C. K., Winther, O. & Sønderby, S. K., 15 nov. 2017, I: Bioinformatics. 33, 22, s. 3685-3690 6 s.

  Publikation: Bidrag til tidsskrift › Review › peer review

  • Deep Learning 100%
  • Long short-term memory 84%
  • Long-Term Memory 83%
  • Short-Term Memory 68%
  • Neural Networks 68%
  49 Citationer (Scopus)

• DeepLoc: prediction of protein subcellular localization using deep learning

  Almagro Armenteros, J. J., Sønderby, C. K., Sønderby, S. K., Nielsen, H. & Winther, O., 1 nov. 2017, I: Bioinformatics. 33, 21, s. 3387-3395 9 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Deep Learning 100%
  • Subcellular Localization 99%
  • Protein 75%
  • Proteins 66%
  • Learning 65%
  281 Citationer (Scopus)

• The Bipolar Illness Onset study: research protocol for the BIO cohort study

  Kessing, L. V., Munkholm, K., Faurholt-Jepsen, M., Miskowiak, K. W., Nielsen, L. B., Frikke-Schmidt, R., Ekstrøm, C. T., Winther, O., Pedersen, B. K., Poulsen, H. E., McIntyre, R. S., Kapczinski, F., Gattaz, W. F., Bardram, J., Frost, M., Mayora, O., Knudsen, G. M., Phillips, M. & Vinberg, M., 2017, I: BMJ Open. 7, 6, 12 s., e015462.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Bipolar Disorder 100%
  • Cohort Studies 70%
  • Smartphone 27%
  • Congresses 22%
  • Biomarkers 22%
  55 Citationer (Scopus)

  165 Downloads (Pure)
• 2016

  Angiotensinogen and HLA class II predict bevacizumab response in recurrent glioblastoma patients

  Urup, T., Michaelsen, S. R., Olsen, L. R., Toft, A., Christensen, I. J., Grunnet, K., Winther, O., Broholm, H., Kosteljanetz, M., Issazadeh-Navikas, S., Poulsen, H. S. & Lassen, U. N., okt. 2016, I: Molecular Oncology. 10, 8, s. 1160-1168

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Angiotensinogen 100%
  • Bevacizumab 86%
  • Glioblastoma 76%
  • Genes 25%
  • HLA-DQA1 antigen 19%
  16 Citationer (Scopus)

  89 Downloads (Pure)

• Autoencoding beyond pixels using a learned similarity metric

  Larsen, A. B. L., Sønderby, S. K., Larochelle, H. & Winther, O., 2016, Proceedings of The 33rd International Conference on Machine Learning. Balcan, M. F. & Weinberger, K. Q. (red.). s. 1558–1566 9 s. (JMLR: Workshop and Conference Proceedings, Bind 48).

  Publikation: Bidrag til bog/antologi/rapport › Konferencebidrag i proceedings › Forskning › peer review

  • Pixels 100%
  • Discriminators 82%
  • Invariance 70%
  • Glass 52%
  183 Citationer (Scopus)

• BloodSpot: a database of gene expression profiles and transcriptional programs for healthy and malignant haematopoiesis

  Bagger, F. O., Sasivarevic, D., Hadi Sohi, S., Laursen, L. G., Pundhir, S., Sønderby, C. K., Winther, O., Rapin, N. & Porse, B. T., 4 jan. 2016, I: Nucleic Acids Research. 44, D1, s. D917-24 8 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Hematopoiesis 100%
  • Transcriptome 84%
  • Databases 55%
  • Datasets 43%
  • Gene Expression 32%
  141 Citationer (Scopus)

  102 Downloads (Pure)

• Competence classification of cumulus and granulosa cell transcriptome in embryos matched by morphology and female age

  Borup, R., Thuesen, L. L., Andersen, C. Y., Andersen, A. N., Ziebe, S., Winther, O. & Grøndahl, M. L., apr. 2016, I: P L o S One. 11, 4, s. 1-19 19 s., e0153562.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Embryo 100%
  • Cumulus Cells 93%
  • cumulus 73%
  • granulosa cells 72%
  • Live Birth 67%
  18 Citationer (Scopus)

  117 Downloads (Pure)

• Ladder variational autoencoders

  Sønderby, C. K., Raiko, T., Maaløe, L., Sønderby, S. K. & Winther, O., 2016, Advances in Neural Information Processing Systems 29 (NIPS 2016). Lee, D. D., Sugiyama, M., Luxburg, U. V., Guyon, I. & Garnett, R. (red.). Curran Associates, Inc., s. 3745-3753 9 s. (Advances in Neural Information Processing Systems, Bind 29).

  Publikation: Bidrag til bog/antologi/rapport › Konferencebidrag i proceedings › Forskning › peer review

  • Ladders 100%
  • Ladder networks 14%
  • Unsupervised learning 11%
  167 Citationer (Scopus)

• Sequential neural models with stochastic layers

  Fraccaro, M., Sønderby, S. K., Paquet, U. & Winther, O., 2016, Neural Information Processing Systems 2016. Lee, D. D., Sugiyama, M., Luxburg, U. V., Guyon, I. & Garnett, R. (red.). Neural Information Processing Systems Foundation, s. 2207-2215 9 s. (Advances in Neural Information Processing Systems, Bind 29).

  Publikation: Bidrag til bog/antologi/rapport › Konferencebidrag i proceedings › Forskning › peer review

  • Stochastic models 100%
  • Recurrent neural networks 94%
  • Uncertainty 28%
  • Glues 28%
  • Factorization 22%
  112 Citationer (Scopus)

• The middle ear immune defense changes with age

  Nielsen, M. C., Friis, M., Martin-Bertelsen, T., Winther, O., Friis-Hansen, L. J. & Cayé-Thomasen, P., 2016, I: European Archives of Oto-Rhino-Laryngology. 273, 1, s. 81-86 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Middle Ear 100%
  • Immune System 73%
  • Genes 33%
  • Complementary DNA 16%
  • alpha-Defensins 15%
  3 Citationer (Scopus)
• 2015

  A computational method for identification of vaccine targets from protein regions of conserved human leukocyte antigen binding

  Olsen, L. R., Simon, C., Kudahl, U. J., Bagger, F. O., Winther, O., Reinherz, E. L., Zhang, G. L. & Brusic, V., 2015, I: B M C Medical Genomics. 8, Suppl 4, 6 s., 5.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • HLA Antigens 100%
  • Vaccines 73%
  • T-Lymphocytes 60%
  • Peptides 46%
  • Proteins 35%
  85 Downloads (Pure)

• Airway inflammation in chronic rhinosinusitis with nasal polyps and asthma: the united airways concept further supported

  Håkansson, K., Bachert, C., Konge, L., Thomsen, S. F., Pedersen, A. E., Poulsen, S. S., Martin-Bertelsen, T., Winther, O., Backer, V. & von Buchwald, C., 1 jul. 2015, I: PloS one. 10, 7, 11 s., e0127228.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Asthma and Nasal Polyps 100%
  • Cytokines 94%
  • Inflammation 90%
  • Asthma 83%
  • polyp 75%
  43 Citationer (Scopus)

  126 Downloads (Pure)

• Cancers of unknown primary origin (CUP) are characterized by chromosomal instability (CIN) compared to metastasis of know origin

  Vikeså, J., Møller, A. K. H., Kaczkowski, B., Helweg-Larsen, R. B., Winther, O., Henao Giraldo, R., Krogh, A., Perell, K., Jensen, F., Daugaard, G. & Nielsen, F. C., 19 mar. 2015, I: B M C Cancer. 15, 14 s., 151.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Chromosomal Instability 100%
  • Neoplasm Metastasis 49%
  • Neoplasms 26%
  • Discriminant Analysis 24%
  • Genes 6%
  28 Citationer (Scopus)

  118 Downloads (Pure)

• Cellular origin of prognostic chromosomal aberrations in AML patients

  Mora-Jensen, H., Jendholm, L. J., Rapin, N. P. J-P., Andersen, M. K., Roug, A. S., Bagger, F. O., Bullinger, L., Winther, O., Borregaard, N., Porse, B. T. & Theilgaard-Mönch, K., 7 aug. 2015, I: Leukemia. 29, s. 1785-1789 5 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  7 Citationer (Scopus)

• Convolutional LSTM networks for subcellular localization of proteins

  Sønderby, S. K., Sønderby, C. K., Nielsen, H. & Winther, O., 2015, Algorithms for Computational Biology. Dediu, A-H., Hernández-Quiroz, F., Martín-Vide, C. & Rosenblueth, D. A. (red.). Springer, s. 68-80 13 s. (Lecture notes in computer science, Bind 9199).

  Publikation: Bidrag til bog/antologi/rapport › Konferencebidrag i proceedings › Forskning › peer review

  • Long short-term memory 100%
  • Proteins 78%
  • Feedforward neural networks 23%
  • Recurrent neural networks 22%
  • Visualization 16%
  57 Citationer (Scopus)

• Differential gene expression in the otic capsule and the middle ear-an annotation of bone-related signaling genes

  Nielsen, M. C., Martin-Bertelsen, T., Friis, M., Winther, O., Friis-Hansen, L. J., Rye-Jørgensen, N., Bloch, S. & Sørensen, M. S., 27 apr. 2015, I: Otology & Neurotology. 36, 4, s. 727-732 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Middle Ear 100%
  • Capsules 82%
  • Ear 81%
  • Gene Expression 55%
  • Bone and Bones 54%
  4 Citationer (Scopus)

• Tumor suppressor ASXL1 is essential for the activation of INK4B expression in response to oncogene activity and anti-proliferative signals

  Wu, X., Bekker-Jensen, I. H., Christensen, J., Rasmussen, K. D., Sidoli, S., Qi, Y., Kong, Y., Wang, X., Cui, Y., Xiao, Z., Xu, G., Williams, K., Rappsilber, J., Sønderby, C. K., Winther, O., Jensen, O. N. & Helin, K., 1 nov. 2015, I: Cell Research. 25, s. 1205-1218 14 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Oncogenes 100%
  • Polycomb-Group Proteins 78%
  • Mutation 58%
  • Ubiquitination 57%
  • Lysine 51%
  20 Citationer (Scopus)
• 2014

  Bioinformatics for cancer immunotherapy target discovery

  Olsen, L. R., Campos, B., Stein Barnkob, M., Winther, O., Brusic, V. & Andersen, M. H., 4 dec. 2014, I: Cancer Immunology, Immunotherapy. 63, 12, s. 1235-1249 15 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Computational Biology 100%
  • Immunotherapy 93%
  • Epitopes 68%
  • Cataloging 40%
  • Neoplasms 34%
  18 Citationer (Scopus)

• Bone signaling in middle ear development: a genome-wide differential expression analysis

  Nielsen, M. C., Martin-Bertelsen, T., Friis, M., Winther, O., Friis-Hansen, L. J., Cayé-Thomasen, P. & Sørensen, M. S., 1 dec. 2014, I: Anatomical Record. 297, 12, s. 2349-2355 7 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • middle ear 100%
  • Middle Ear 84%
  • genome 73%
  • bones 66%
  • bone 63%
  4 Citationer (Scopus)

• Comparing cancer vs normal gene expression profiles identifies new disease entities and common transcriptional programs in AML patients

  Rapin, N. P. J-P., Bagger, F. O., Jendholm, L. J., Mora-Jensen, H., Krogh, A., Kohlmann, A., Thiede, C., Borregaard, N., Bullinger, L., Winther, O., Theilgaard-Mönch, K. & Porse, B. T., 6 feb. 2014, I: Blood (online). 123, 6, s. 894-904 11 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Acute Myeloid Leukemia 100%
  • Transcriptome 96%
  • Neoplasms 33%
  • Karyotype 26%
  • Stem Cells 19%
  67 Citationer (Scopus)

• MicroRNA expression analysis and Multiplex ligation-dependent probe amplification in metastatic and non-metastatic uveal melanoma

  Larsen, A-C., Holst, L. M., Kaczkowski, B., Andersen, M. T., Manfé, V., Siersma, V. D., Kolko, M., Kiilgaard, J. F., Winther, O., Prause, J. U., Gniadecki, R. & Heegaard, S., sep. 2014, I: Acta Ophthalmologica. 92, 6, s. 541-549

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Uveal melanoma 100%
  • Multiplex Polymerase Chain Reaction 84%
  • MicroRNAs 63%
  • Neoplasm Metastasis 46%
  • Survival 30%
  21 Citationer (Scopus)

• Tumor antigens as proteogenomic biomarkers in invasive ductal carcinomas

  Olsen, L. R., Campos, B., Winther, O., Sgroi, D. C., Karger, B. L. & Brusic, V., 8 dec. 2014, I: B M C Medical Genomics. 7, 3, s. 1-13 13 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Proteogenomics 100%
  • Ductal Carcinoma 73%
  • Neoplasm Antigens 63%
  • Proteomics 47%
  • Genomics 43%
  8 Citationer (Scopus)

  80 Downloads (Pure)
• 2013

  Enterococcus faecalis infection causes inflammation, intracellular oxphos-independent ROS production, and DNA damage in human gastric cancer cells

  Strickertsson, J. A. B., Madsen, C. D., Martin-Bertelsen, T., Machado, A. M. D., Wadstrøm, T., Winther, O., Rasmussen, L. J. & Friis-Hansen, L., 30 apr. 2013, I: PLOS ONE. 8, 4, s. 1-13 13 s., e63147.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Reactive Oxygen Species 100%
  • Oxidative Phosphorylation 92%
  • Reactive oxygen species 83%
  • Inflammation 76%
  • Phosphorylation 75%
  41 Citationer (Scopus)

  786 Downloads (Pure)

• HemaExplorer: a database of mRNA expression profiles in normal and malignant haematopoiesis

  Bagger, F. O., Rapin, N. P. J-P., Theilgaard-Mønch, K., Kaczkowski, B., Thorén, L. A. M., Jendholm, L. J., Winther, O. & Porse, B. T., 1 jan. 2013, I: Nucleic Acids Research. 41, Database issue, s. D1034-D1039 6 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Hematopoiesis 100%
  • Hematopoietic Stem Cells 60%
  • Transcriptome 56%
  • Databases 55%
  • Gene Expression 54%
  60 Citationer (Scopus)

  2220 Downloads (Pure)

• Improving The Analysis Of Gene Expression Profiles By Comparing AML Blasts With Their Nearest Normal Counterparts

  Rapin, N., Bagger, F. O., Jendholm, J., Mora-Jensen, H. I., Krogh, A., Kohlmann, A., Thiede, C., Borregaard, N., Bullinger, L., Winther, O., Theilgaard-Moench, K. & Porse, B., 2013, I: Blood. 122, 21

  Publikation: Bidrag til tidsskrift › Konferenceabstrakt i tidsskrift › Forskning › peer review

• Literature classification for semi-automated updating of biological knowledgebases

  Olsen, L. R., Kudahl, U. J., Winther, O. & Brusic, V., 2013, I: B M C Genomics. 14(Suppl 5), 10 s., S14.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Knowledge Bases 100%
  • Machine Learning 62%
  • Literature 58%
  • Databases 49%
  • Epitopes 47%
  9 Citationer (Scopus)

  322 Downloads (Pure)
• 2012

  Down-regulation of microRNAs controlling tumourigenic factors in follicular thyroid carcinoma

  Rossing, M., Helweg-Larsen, R. B., Henao Giraldo, R., Winther, O., Vikeså, J., Niazi, O., Godballe, C., Krogdahl, A., Glud, M., Sørensen, C. H., Kiss, K., Bennedbæk, F. N. & Nielsen, F. C., feb. 2012, I: Journal of Molecular Endocrinology. 48, 1, s. 11-23 13 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Follicular Adenocarcinoma 100%
  • MicroRNAs 59%
  • Down-Regulation 49%
  • Carcinoma 41%
  • Adenoma 26%
  69 Citationer (Scopus)

• Integrative analyses reveal novel strategies in HPV11,-16 and -45 early infection

  Kaczkowski, B., Rossing, M., Andersen, D. K., Dreher, A., Morevati, M., Visser, M. A., Winther, O., Nielsen, F. C. & Norrild, B., 2012, I: Scientific Reports. 2, s. 515

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Infections 100%
  • TYK2 Kinase 79%
  • Genes 63%
  • Papillomavirus Infections 58%
  • Cytoskeleton 52%
  23 Citationer (Scopus)

• Predictive active set selection methods for Gaussian processes

  Henao, R. & Winther, O., 15 mar. 2012, I: Neurocomputing. 80, s. 10-18 9 s.

  Publikation: Bidrag til tidsskrift › Konferenceartikel › Forskning › peer review

  • Classifiers 100%
  • Normal Distribution 84%
  • Set theory 60%
  • Datasets 56%
  • Computational complexity 38%
  10 Citationer (Scopus)
• 2011

  Gene expression of the endolymphatic sac

  Friis, M., Martin-Bertelsen, T., Friis-Hansen, L., Winther, O., Henao Giraldo, R., Sørensen, M. S. & Qvortrup, K., dec. 2011, I: Acta Oto-Laryngologica. 131, 12, s. 1257-63 7 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Endolymphatic Sac 100%
  • Gene Expression 40%
  • Inner Ear 31%
  • Genes 11%
  • Messenger RNA 11%
  15 Citationer (Scopus)
• 2010

  Molecular signatures of thyroid follicular neoplasia

  Helweg-Larsen, R. B., Rossing, M., Henao Giraldo, R., Yamamoto, Y., Krogdahl, A., Godballe, C., Winther, O., Kiss, K., Christensen, L. H., Høgdall, E. V. S., Bennedbæk, F. N. & Nielsen, F. C., sep. 2010, I: Endocrine - Related Cancer. 17, 3, s. 691-708 18 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Follicular Adenocarcinoma 100%
  • Thyroid Gland 97%
  • Nuclear Receptor Subfamily 4, Group A, Member 3 44%
  • Adenoma 43%
  • Neoplasms 37%
  25 Citationer (Scopus)

• Multivariate Hawkes process models of the occurrence of regulatory elements

  Carstensen, L., Sandelin, A. G., Winther, O. & Hansen, N. R., 9 sep. 2010, I: BMC Bioinformatics. 11, s. 456

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Transcriptional Regulatory Elements 100%
  • Multivariate Models 73%
  • Process Model 71%
  • Genomics 44%
  • Genome 35%
  25 Citationer (Scopus)

  2753 Downloads (Pure)

• Transcriptional regulation of gene expression clusters in motor neurons following spinal cord injury

  Ryge, J., Winther, O., Wienecke, J., Sandelin, A., Westerdahl, A-C., Hultborn, H. & Kiehn, O., 9 jun. 2010, I: BMC Genomics. 11, 1, s. 365 22 s.

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Multigene Family 100%
  • Gene Expression Regulation 99%
  • Motor Neurons 89%
  • Spinal Cord Injuries 88%
  • Transcription Factors 25%
  27 Citationer (Scopus)
• 2009

  Discovery of regulatory elements is improved by a discriminatory approach

  Valen, E., Sandelin, A., Winther, O. & Krogh, A., 2009, I: PLoS Computational Biology. 5, 11, s. e1000562

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Promoter 100%
  • Genomics 67%
  • Genes 62%
  • promoter regions 46%
  • Transcription factors 46%
  24 Citationer (Scopus)

• Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE

  Valen, E., Pascarella, G., Chalk, A., Maeda, N., Kojima, M., Kawazu, C., Murata, M., Nishiyori, H., Lazarevic, D., Motti, D., Marstrand, T. T., Tang, M-H. E., Zhao, X., Krogh, A., Winther, O., Arakawa, T., Kawai, J., Wells, C., Daub, C., Harbers, M., & 4 flereHayashizaki, Y., Gustincich, S., Sandelin, A. & Carninci, P., 2009, I: Genome Research. 19, 2, s. 255-65 10 s.

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  • Transcription Initiation Site 100%
  • Hippocampus 68%
  • Genome 58%
  • High-Throughput Nucleotide Sequencing 27%
  • Complementary DNA 23%
  112 Citationer (Scopus)

• 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, J. V., Winther, B. R., Lund, L. R., Winther, O., Taunton, J., Hansen, S. H. & Frödin, M., 2009, I: Molecular Cell. 35, 4, s. 511-22 11 s.

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  • MAP Kinase Signaling System 100%
  • Epithelial Cells 65%
  • Phenotype 54%
  • Carcinoma 40%
  • Genes 36%
  154 Citationer (Scopus)

• 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 flereAsahara, H., Bailey, T., Bajic, V. B., Bauer, D., Beckhouse, A. G., Bertin, N., Björkegren, J., Brombacher, F., Bulger, E., Chalk, A. M., Chiba, J., Cloonan, N., Dawe, A., Dostie, J., Engström, P. G., Essack, M., Faulkner, G. J., Fink, J. L., Fredman, D., Fujimori, K., Furuno, M., Gojobori, T., Gough, J., Grimmond, S. M., Jacobsen, A., Krogh, A., Nygaard, S., Sandelin, A., Valen, E., Winther, O. & Riken Omics Science Center, 2009, I: Nature Genetics. 41, 5, s. 553-62 9 s.

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  • Myeloid Leukemia 100%
  • Gene Regulatory Networks 88%
  • Myeloid Cells 83%
  • Transcription Factors 61%
  • Cell Line 48%
  325 Citationer (Scopus)
• 2008

  BayesMD: Flexible Biological Modeling for Motif Discovery

  Tang, M-H. E., Krogh, A. & Winther, O., 2008, I: Journal of Computational Biology. 15, 10, s. 1347-63 16 s.

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  • Motif Discovery 100%
  • Binding sites 81%
  • Transcription Factor 60%
  • Transcription factors 55%
  • Binding Sites 44%
  5 Citationer (Scopus)

• JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update.

  Bryne, J. C., Valen, E., Tang, M-H. E., Marstrand, T., Winther, O., da Piedade, I., Krogh, A., Lenhard, B. & Sandelin, A., 2008, I: Nucleic Acids Research. 36, Database issue, s. D102-6

  Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

  • Transcription Factors 100%
  • Databases 80%
  • DNA 37%
  • Psychological Power 31%
  • Cluster Analysis 29%
  521 Citationer (Scopus)
• 2006

  Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae

  Regenberg, B., Grotkjaer, T., Winther, O., Fausbøll, A., Akesson, M., Bro, C., Hansen, L. K., Brunak, S. & Nielsen, J., 2006, I: Genome Biology (Online Edition). 7, 11, s. R107

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  • Gene Expression Profiling 100%
  • Saccharomyces cerevisiae 89%
  • transcriptomics 85%
  • eukaryotic cells 83%
  • gene 73%
  176 Citationer (Scopus)