Disease Systems Biology Program

  1. Published

    Covalent Trapping of Methyllycaconitine at the α4-α4 Interface of the α4β2 Nicotinic Acetylcholine Receptor: ANTAGONIST BINDING SITE AND MODE OF RECEPTOR INHIBITION REVEALED

    Absalom, N. L., Quek, G., Lewis, T. M., Qudah, T., von Arenstorff, I., Ambrus, J. I., Harpsøe, Kasper, Karim, N., Balle, T., McLeod, M. D. & Chebib, M., 13 Sep 2013, In : The Journal of Biological Chemistry. 288, 37, p. 26521-32 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  2. Published

    sAOP: linking chemical stressors to adverse outcomes pathway networks

    Aguayo Orozco, Alejandro, Audouze, K., Siggaard, T., Barouki, R., Brunak, Søren & Taboureau, Olivier Thierry, 2019, In : Bioinformatics. 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Published

    The use of systems biology in chemical risk assessment

    Aguayo Orozco, Alejandro, Taboureau, Olivier Thierry & Brunak, Søren, 2019, In : Current Opinion in Toxicology. 15, p. 48-54 7 p.

    Research output: Contribution to journalReviewResearchpeer-review

  4. Published

    Analysis of Time-Series Gene Expression Data to Explore Mechanisms of Chemical-Induced Hepatic Steatosis Toxicity

    Aguayo Orozco, Alejandro, Bois, F. Y., Brunak, Søren & Taboureau, Olivier Thierry, 2018, In : Frontiers in Genetics. 9, p. 1-15 396.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. Published

    How well do force fields capture the strength of salt bridges in proteins?

    Ahmed, Mustapha Carab Hussein, Papaleo, Elena & Lindorff-Larsen, Kresten, 2018, In : PeerJ. 6, 17 p., 4967.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. Published

    Prediction of human drug-induced liver injury (DILI) in relation to oral doses and blood concentrations

    Albrecht, W., Kappenberg, F., Brecklinghaus, T., Stoeber, R., Marchan, R., Zhang, M., Ebbert, K., Kirschner, H., Grinberg, M., Leist, M., Moritz, W., Cadenas, C., Ghallab, A., Reinders, J., Vartak, N., van Thriel, C., Golka, K., Tolosa, L., Castell, J. V., Damm, G., Seehofer, D., Lampen, A., Braeuning, A., Buhrke, T., Behr, A., Oberemm, A., Gu, X., Kittana, N., van de Water, B., Kreiling, R., Fayyaz, S., van Aerts, L., Smedsrød, B., Ellinger-Ziegelbauer, H., Steger-Hartmann, T., Gundert-Remy, U., Zeigerer, A., Ullrich, A., Runge, D., Lee, S. M. L., Schiergens, T. S., Kuepfer, L., Aguayo Orozco, Alejandro, Sachinidis, A., Edlund, K., Gardner, I., Rahnenführer, J. & Hengstler, J. G., 2019, In : Archives of Toxicology. 93, 6, p. 1609-1637 29 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. Published

    Genetic determinants of serum vitamin B12 and their relation to body mass index

    Allin, Kristine Højgaard, Friedrich, N., Pietzner, M., Grarup, Niels, Thuesen, B. H., Linneberg, Allan René, Pisinger, Charlotta Holm, Hansen, Torben, Pedersen, Oluf Borbye & Sandholt, C. H., Feb 2017, In : European Journal of Epidemiology. 32, 2, p. 125–134

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. Published

    Standardized benchmarking in the quest for orthologs

    Altenhoff, A. M., Boeckmann, B., Capella-Gutierrez, S., Dalquen, D. A., DeLuca, T., Forslund, K., Huerta-Cepas, J., Linard, B., Pereira, C., Pryszcz, L. P., Schreiber, F., da Silva, A. S., Szklarczyk, D., Train, C., Bork, P., Lecompte, O., von Mering, C., Xenarios, I., Sjölander, K., Jensen, Lars Juhl, Martin, M. J., Muffato, M., Gabaldón, T., Lewis, S. E., Thomas, P. D., Sonnhammer, E., Dessimoz, C. & Quest for Orthologs consortium, Q. F. O. C., May 2016, In : Nature Methods. 13, p. 425-30 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Published

    Text mining for biology--the way forward: opinions from leading scientists

    Altman, R. B., Bergman, C. M., Blake, J., Blaschke, C., Cohen, A., Gannon, F., Grivell, L., Hahn, U., Hersh, W., Hirschman, L., Jensen, Lars Juhl, Krallinger, M., Mons, B., O'Donoghue, S. I., Peitsch, M. C., Rebholz-Schuhmann, D., Shatkay, H. & Valencia, A., 2008, In : Genome Biology (Online Edition). 9 Suppl 2, p. S7

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Published

    Covalent attachment of antagonists to the a7 nicotinic acetylcholine receptor: synthesis and reactivity of substituted maleimides

    Ambrus, J. I., Halliday, J. I., Kanizaj, N., Absalom, N., Harpsøe, Kasper, Balle, T., Chebib, M. & McLeod, M. D., 7 Jul 2012, In : Chemical Communications. 48, 53, p. 6699-6701 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  11. Published

    The derived allele of a novel intergenic variant at chromosome 11 associates with lower body mass index and a favorable metabolic phenotype in Greenlanders

    Lepola, Mette Andersen, Jørsboe, Emil, Skotte, L., Hanghøj, Kristian Ebbesen, Sandholt, C. H., Moltke, Ida, Grarup, Niels, Kern, T., Mahendran, Y., Søborg, B., Bjerregaard, P., Larsen, C. V. L., Dahl-Petersen, I. K., Tiwari, H. K., Feenstra, B., Koch, A., Wiener, H. W., Hopkins, S. E., Pedersen, Oluf Borbye, Melbye, Mads, Boyer, B. B., Jørgensen, M. E., Albrechtsen, Anders & Hansen, Torben, 2020, In : PLOS Genetics. 16, 1, 17 p., e1008544.

    Research output: Contribution to journalJournal articleResearchpeer-review

  12. Published

    Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization

    Arking, D. E., Pulit, S. L., Crotti, L., van der Harst, P., Munroe, P. B., Koopmann, T. T., Sotoodehnia, N., Rossin, E. J., Morley, M., Wang, X., Johnson, A. D., Lundby, Alicia, Gudbjartsson, D. F., Noseworthy, P. A., Eijgelsheim, M., Bradford, Y., Tarasov, K. V., Dörr, M., Müller-Nurasyid, M., Lahtinen, A. M., Nolte, I. M., Smith, A. V., Bis, J. C., Isaacs, A., Newhouse, S. J., Evans, D. S., Post, W. S., Waggott, D., Lyytikäinen, L., Hicks, A. A., Eisele, L., Ellinghaus, D., Hayward, C., Navarro, P., Ulivi, S., Tanaka, T., Tester, D. J., Chatel, S., Gustafsson, S., Kumari, M., Morris, R. W., Naluai, A. T., Padmanabhan, S., Kluttig, A., Strohmer, B., Panayiotou, A. G., Torres, M., Knoflach, M., Olsen, Jesper Velgaard, Hansen, K. L. & CARe Consortium, C. C., 22 Jun 2014, In : Nature Genetics. 46, 8, p. 826-838 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. 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 journalJournal articleCommunication

  14. Published

    Enterotypes of the human gut microbiome: [Plus]Corrigendum [Plus]Addendum

    Arumugam, Mani, Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., Batto, J., dos Santos, M. B. Q., Borruel, N., Casellas, F., Fernandez, L., Gautier, L., Hansen, Torben, Hattori, M., Hayashi, T., Kleerebezem, M., Kurokawa, K., Leclerc, M., Levenez, F., Manichanh, C., Nielsen, H. B., Nielsen, Trine, Pons, N., Poulain, J., Qin, J., Sicheritz-Ponten, T., Tims, S., Torrents, D., Ugarte, E., Zoetendal, E. G., Wang, J., Guarner, F., Pedersen, Oluf Borbye, de Vos, W. M., Brunak, Søren, Doré, J., Antolín, M., Artiguenave, F., Blottiere, H. M., Almeida, M., Brechot, C., Cara, C., Chervaux, C., Cultrone, A., Delorme, C., Denariaz, G., Kristiansen, Karsten & MetaHIT Consortium, M. C., 2011, In : Nature. 473, 7346, p. 174-180 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  15. Published

    Contaminating viral sequences in high-throughput sequencing viromics: a linkage study of 700 sequencing libraries

    Asplund, M., Kjartansdóttir, K. R., Mollerup, S., Vinner, Lasse, Fridholm, H., Romero Herrera, Jose Alejandro, Friis-Nielsen, J., Hansen, T. A., Jensen, R. H., Nielsen, Ida Broman, Richter, S. R., Rey de la Iglesia, Alba, Matey-Hernandez, M. L., Alquezar-Planas, D. E., Olsen, Pernille Vibeke Selmer, Sicheritz-Pontén, Thomas, Willerslev, Eske, Lund, O., Brunak, Søren, Mourier, T., Nielsen, L. P., Izarzugaza, J. M. G. & Hansen, Anders Johannes, 2019, In : Clinical Microbiology and Infection. 25, 10, p. 1277-1285

    Research output: Contribution to journalJournal articleResearchpeer-review

  16. Published

    A computational approach to chemical etiologies of diabetes

    Audouze, K. M. L., Brunak, Søren & Grandjean, P., 19 Sep 2013, In : Scientific Reports. 3, p. 2712 2712.

    Research output: Contribution to journalJournal articleResearchpeer-review

  17. Published

    A new method for discovering disease-specific MiRNA-target regulatory networks

    Baglioni, M., Russo, Francesco, Geraci, F., Rizzo, M., Rainaldi, G. & Pellegrini, M., 7 Apr 2015, In : PLoS ONE. 10, 4, e0122473.

    Research output: Contribution to journalJournal articleResearchpeer-review

  18. Published

    Bioinformatics-driven identification and examination of candidate genes for non-alcoholic fatty liver disease

    Banasik, Karina, Justesen, Johanne Marie, Hornbak, M., Krarup, N. T., Gjesing, Anette Marianne Prior, Sandholt, C. H., Søndergaard Jensen, T., Grarup, Niels, Andersson, Å., Jørgensen, T., Witte, D. R., Sandbæk, A., Lauritzen, T., Thorens, B., Brunak, Søren, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye & Hansen, Torben, 1 Jan 2011, In : P L o S One. 6, 1, p. e16542

    Research output: Contribution to journalJournal articleResearchpeer-review

  19. Published

    Mass Spectrometry of Human Leukocyte Antigen Class I Peptidomes Reveals Strong Effects of Protein Abundance and Turnover on Antigen Presentation

    Bassani-Sternberg, M., Pletscher-Frankild, S., Jensen, Lars Juhl & Mann, Matthias, Mar 2015, In : Molecular and Cellular Proteomics. 14, 3, p. 658-73 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  20. Published

    Consistent Prediction of Mutation Effect on Drug Binding in HIV-1 Protease Using Alchemical Calculations

    Bastys, T., Gapsys, V., Doncheva, Nadezhda Tsankova, Kaiser, R., De Groot, B. L. & Kalinina, O. V., 10 Jul 2018, In : Journal of Chemical Theory and Computation. 14, 7, p. 3397-3408

    Research output: Contribution to journalJournal articleResearchpeer-review

  21. Published

    Diagnosis trajectories of prior multi-morbidity predict sepsis mortality

    zmw894, zmw894, Jensen, A. B., Nielsen, Annelaura Bach, Perner, Anders, Moseley, Pope Lloyd & Brunak, Søren, 4 Nov 2016, In : Scientific Reports. 6, 9 p., 36624.

    Research output: Contribution to journalJournal articleResearchpeer-review

  22. Published

    TEMPORAL ORDER OF DISEASE PAIRS AFFECTS SUBSEQUENT DISEASE TRAJECTORIES: THE CASE OF DIABETES AND SLEEP APNEA

    zmw894, zmw894, Westergaard, David, Jensen, A. B., Groop, L. & Brunak, Søren, 2016, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 22, p. 380-389 10 p.

    Research output: Contribution to journalConference articleResearchpeer-review

  23. Published

    Knowledge engineering for health: a new discipline required to bridge the "ICT gap" between research and healthcare

    Beck, T., Gollapudi, S., Brunak, Søren, Graf, N., Lemke, H. U., Dash, D., Buchan, I., Díaz, C., Sanz, F. & Brookes, A. J., May 2012, In : Human Mutation. 33, 5, p. 797-802 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  24. Published

    Klinefelter syndrome comorbidities linked to increased X chromosome gene dosage and altered protein interactome activity

    Belling, Kirstine G, Russo, Francesco, Jensen, A. B., Dalgaard, M. D., Westergaard, David, Rajpert-De Meyts, E., Skakkebæk, Niels Erik, Juul, Anders & Brunak, Søren, 1 Apr 2017, In : Human Molecular Genetics. 26, 7, p. 1219-1229 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  25. Published

    Transcriptome profiling of mice testes following low dose irradiation

    Belling, Kirstine G, Nielsen, H. B., Brunak, Søren, Tanaka, M., Dalgaard, M. D., Nielsen, J. E., Almstrup, K. & Leffers, H., 28 May 2013, In : Reproductive Biology and Endocrinology. 11, 1, 13 p., 50.

    Research output: Contribution to journalJournal articleResearchpeer-review

  26. Published

    Metaproteomics of saliva identifies human protein markers specific for individuals with periodontitis and dental caries compared to orally healthy controls

    Belstrøm, Daniel, Jersie-Christensen, R. R., Lyon, D., Damgaard, Christian, Jensen, Lars Juhl, Holmstrup, Palle & Olsen, Jesper Velgaard, 2016, In : PeerJ. 4, 17 p., e2433.

    Research output: Contribution to journalJournal articleResearchpeer-review

  27. Published

    Molecular characterization of oxysterol binding to the Epstein-Barr virus-induced gene 2 (GPR183)

    Benned-Jensen, T., Norn, Christoffer, Laurent, S., Madsen, C. M., Larsen, H. M., Arfelt, K. N., Wolf, R. M., Frimurer, Thomas Michael, Sailer, A. W. & Rosenkilde, Mette, 12 Oct 2012, In : The Journal of Biological Chemistry. 287, 42, p. 35470-83 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  28. Published

    Incentive and entrenchment effects in European ownership

    Bennedsen, Morten & Nielsen, K. M., Sep 2010, In : Journal of Banking & Finance. 34, 9, p. 2212-2229

    Research output: Contribution to journalJournal articleResearchpeer-review

  29. Published

    Huntingtin-interacting protein 14 is a type 1 diabetes candidate protein regulating insulin secretion and beta-cell apoptosis

    Berchtold, L. A., Størling, Z. M., Ortis, F., Lage, K., Bang-Berthelsen, C., Bergholdt, R., Hald, J., Brorsson, C. A., Eizirik, D. L., Pociot, Flemming, Brunak, Søren & Størling, Joachim, 2011, In : PNAS Early Edition. 108, 37, p. E681-8

    Research output: Contribution to journalJournal articleResearchpeer-review

  30. Published

    Identification of novel type 1 diabetes candidate genes by integrating genome-wide association data, protein-protein interactions, and human pancreatic islet gene expression

    Bergholdt, R., Brorsson, C., Palleja, A., Berchtold, L. A., Fløyel, T., Bang-Berthelsen, C. H., Frederiksen, K. S., Jensen, Lars Juhl, Størling, J. & Pociot, F., 2012, In : Diabetes. 61, 4, p. 954-62 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  31. Published

    Use of Computational Biochemistry for Elucidating Molecular Mechanisms of Nitric Oxide Synthase

    Bignon, E., Rizza, S., Filomeni, G. & Papaleo, Elena, 2019, In : Computational and Structural Biotechnology Journal. 17, p. 415-429 15 p.

    Research output: Contribution to journalReviewResearchpeer-review

  32. Published

    Computational Structural Biology of S-nitrosylation of Cancer Targets

    Bignon, E., Allega, M. F., Lucchetta, M., Tiberti, M. & Papaleo, Elena, 2018, In : Frontiers in Oncology. 8, p. 1-23 272.

    Research output: Contribution to journalReviewResearchpeer-review

  33. Published

    Regulation of the cancer-related Src kinase by S-nitrosylation

    Bignon, E. & Papaleo, Elena, 2019, In : Free Radical Biology and Medicine. 139, p. S13-S14

    Research output: Contribution to journalConference abstract in journalResearch

  34. Published

    COMPARTMENTS: unification and visualization of protein subcellular localization evidence

    Binder, J. X., Pletscher-Frankild, S., Tsafou, K., Stolte, C., O'Donoghue, S. I., Schneider, R. & Jensen, Lars Juhl, 2014, In : Database. 2014, 9 p., bau012.

    Research output: Contribution to journalJournal articleResearchpeer-review

  35. Published

    A nondegenerate code of deleterious variants in mendelian Loci contributes to complex disease risk

    Blair, D. R., Lyttle, C. S., Mortensen, J. M., Bearden, C. F., Jensen, A. B., Khiabanian, H., Melamed, R., Rabadan, R., Bernstam, E. V., Brunak, Søren, Jensen, Lars Juhl, Nicolae, D., Shah, N. H., Grossman, R. L., Cox, N. J., White, K. P. & Rzhetsky, A., 26 Sep 2013, In : Cell. 155, 1, p. 70-80 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  36. Published

    Protein annotation in the era of personal genomics

    Blicher, T., Gupta, R., Wesolowska, A., Jensen, Lars Juhl & Brunak, Søren, 1 Jun 2010, In : Current Opinion in Structural Biology. 20, 3, p. 335-41 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  37. Published

    Comprehensive reconstruction and visualization of non-coding regulatory networks in human

    Bonnici, V., Russo, Francesco, Bombieri, N., Pulvirenti, A. & Giugno, R., 1 Jan 2014, In : Frontiers in Bioengineering and Biotechnology. 2, DEC, 69.

    Research output: Contribution to journalJournal articleResearchpeer-review

  38. Published

    Promoting transparency and reproducibility in enhanced molecular simulations

    Bonomi, M., Bussi, G., Camilloni, C., Tribello, G. A., Banas, P., Barducci, A., Bernetti, M., Bolhuis, P. G., Bottaro, S., Branduardi, D., Capelli, R., Carloni, P., Ceriotti, M., Cesari, A., Chen, H., Chen, W., Colizzi, F., De, S., De La Pierre, M., Donadio, D., Drobot, V., Ensing, B., Ferguson, A. L., Filizola, M., Fraser, J. S., Fu, H., Gasparotto, P., Gervasio, F. L., Giberti, F., Gil-Ley, A., Giorgino, T., Heller, G. T., Hocky, G. M., Iannuzzi, M., Invernizzi, M., Jelfs, K. E., Jussupow, A., Kirilin, E., Laio, A., Limongelli, V., Lindorff-Larsen, Kresten, Lohr, T., Marinelli, F., Martin-Samos, L., Masetti, M., Meyer, R., Michaelides, A., Molteni, C., Morishita, T., Nava, M., Paissoni, C., Papaleo, Elena, Parrinello, M., Pfaendtner, J., Piaggi, P., Piccini, G., Pietropaolo, A., Pietrucci, F., Pipolo, S., Provasi, D., Quigley, D., Raiteri, P., Raniolo, S., Rydzewski, J., Salvalaglio, M., Sosso, G. C., Spiwok, V., Sponer, J., Swenson, D. W. H., Tiwary, P., Valsson, O., Vendruscolo, M., Voth, G. A. & White, A., 2019, In : Nature Methods. 16, 8, p. 670-673

    Research output: Contribution to journalEditorialResearchpeer-review

  39. Published

    Establishing a synthetic pathway for high-level production of 3-hydroxypropionic acid in Saccharomyces cerevisiae via β-alanine

    Borodina, I., Kildegaard, K. R., Jensen, N. B., Blicher, T. H., Maury, J., Sherstyk, S., Schneider, K., Lamosa, P., Herrgård, M. J., Rosenstand, I., Oberg, F., Forster, J. & Nielsen, J., Jan 2015, In : Metabolic Engineering. 27, p. 57-64 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  40. Published

    HDX-Viewer: interactive 3D visualization of hydrogen-deuterium exchange data

    Bouyssie, D., Lesne, J., Locard-Paulet, Marie, Albigot, R., Burlet-Schiltz, O. & Marcoux, J., 2019, In : Bioinformatics. 35, 24, p. 5331-5333 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  41. Published

    Combined Ensemble Docking and Machine Learning in Identification of Therapeutic Agents with Potential Inhibitory Effect on Human CES1

    Briand, E., Thomsen, Ragnar, Linnet, Kristian, Rasmussen, H. B., Brunak, Søren & Taboureau, Olivier Thierry, 2019, In : Molecules. 24, 15, 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  42. Published

    A Novel Familial Cardiac Arrhythmia Syndrome with Widespread ST-Segment Depression

    Bundgård, Henning, Jøns, C., Lodder, E. M., Izarzugaza, J. M. G., Romero Herrera, Jose Alejandro, Pehrson, S., Tfelt-Hansen, Jacob, Ahlberg, G., Olesen, Morten Steen Salling, Holst, A. G., Wellens, H., de Villiers, C., Hastings, R., Stuart, G., Brunak, Søren, Wilde, A. A. M., Watkins, H. & Christensen, A. H., 2018, In : The New England Journal of Medicine. 379, 18, p. 1780-1781 2 p.

    Research output: Contribution to journalComment/debateResearch

  43. Published

    Large-scale study of Toxoplasma and Cytomegalovirus shows an association between infection and serious psychiatric disorders

    Burgdorf, K. S., Trabjerg, B., Giørtz Pedersen, M., Nissen, J., Banasik, Karina, Birger Pedersen, O., Sørensen, E., René Nielsen, K., Hørup Larsen, M., Erikstrup, C., Bruun-Rasmussen, P., Westergaard, David, Wegner Thørner, L., Hjalgrim, H., Martina Paarup, H., Brunak, Søren, Pedersen, C. B., Fuller Torrey, E., Werge, Thomas, Bo Mortensen, P., Yolken, R. & Ullum, Henrik, 2019, In : Brain, Behavior, and Immunity. 79, p. 152-158

    Research output: Contribution to journalJournal articleResearchpeer-review

  44. Published

    SnapShot: S-Phase Entry and Exit

    Burgess, A., Vuong, J., Marzec, K. A., de Lichtenberg, U. N., O'Donoghue, S. I. & Jensen, Lars Juhl, 2019, In : Cell. 179, 3, p. 802-802.e1 2 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  45. Published

    Concordance of gene expression in human protein complexes reveals tissue specificity and pathology

    Börnigen, D., Pers, T. H., Thorrez, L., Huttenhower, C., Moreau, Y. & Brunak, Søren, 5 Aug 2013, In : Nucleic Acids Research. 41, 18, p. e171

    Research output: Contribution to journalJournal articleResearchpeer-review

  46. Published

    Predicting Kinase Activity in Angiotensin Receptor Phosphoproteomes Based on Sequence-Motifs and Interactions

    Bøgebo, R., Horn, H., Olsen, Jesper Velgaard, Gammeltoft, S., Jensen, Lars Juhl, Hansen, J. L. & Christensen, G. L., 2014, In : PLOS ONE. 9, 4, p. 1-9 9 p., e94672.

    Research output: Contribution to journalJournal articleResearchpeer-review

  47. Published

    A genome-wide association study identifies CDHR3 as a susceptibility locus for early childhood asthma with severe exacerbations

    Bønnelykke, K., Sleiman, P., Nielsen, K., Kreiner-Møller, E., Mercader, J. M., Belgrave, D., den Dekker, H. T., Husby, A., Sevelsted, A., Faura-Tellez, G., Paternoster, L., Flaaten, R., Mølgaard, A., Smart, D. E., Thomsen, P. F., Rasmussen, Morten Arendt, Bonàs-Guarch, S., Holst, C., Nohr, E. A., Yadav, R., March, M. E., Blicher, T. H., Lackie, P. M., Jaddoe, V. W. V., Simpson, A., Holloway, J. W., Duijts, L., Custovic, A., Davies, D. E., Torrents, D., Gupta, R., Hollegaard, M. V., Hougaard, D. M., Hakonarson, H. & Bisgaard, Hans, 2014, In : Nature Genetics. 46, p. 51-55 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  48. Published

    Drug target identification using side-effect similarity

    Campillos, M., Kuhn, M., Gavin, A., Jensen, Lars Juhl & Bork, P., 2008, In : Science. 321, 5886, p. 263-6 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  49. Published

    TIN-X: target importance and novelty explorer

    Cannon, D. C., Yang, J. J., Mathias, S. L., Ursu, O., Mani, S., Waller, A., Schürer, S. C., Jensen, Lars Juhl, Sklar, L. A., Bologa, C. G. & Oprea, T. I., 15 Aug 2017, In : Bioinformatics. 33, 16, p. 2601-2603 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  50. Published

    Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny

    Cappellini, Enrico, Welker, Frido, Pandolfi, L., Ramos Madrigal, Jazmin, Samodova, Diana, Rüther, Patrick, Fotaki, Anna Katerina, Lyon, D., Moreno Mayar, José Victor, Bukhsianidze, M., Rakownikow Jersie-Christensen, R., Mackie, Meaghan, Ginolhac, A., Ferring, R., Tappen, M., Palkopoulou, E., Dickinson, M. R., Stafford, T. W., Chan, Y. L., Götherström, A., Nathan, S. K. S. S., Heintzman, P. D., Kapp, J. D., Kirillova, I., Moodley, Y., Agusti, J., Kahlke, R. D., Kiladze, G., Martínez-Navarro, B., Liu, S., Sandoval-Velasco, Marcela, Sinding, Mikkel Holger Strander, Kelstrup, C. D., Allentoft, Morten Erik, Orlando, L., Penkman, K., Shapiro, B., Rook, L., Dalén, L., Gilbert, M Thomas P, Olsen, Jesper Velgaard, Lordkipanidze, D. & Willerslev, Eske, 2019, In : Nature. 574, 7776, p. 103-107 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  51. Published

    Proteomic analysis of a pleistocene mammoth femur reveals more than one hundred ancient bone proteins

    Cappellini, Enrico, Jensen, Lars Juhl, Szklarczyk, D. M., Ginolhac, A., Rodrigues da Fonseca, Rute Andreia, Stafford jr., T., Holen, S. R., Collins, M. J., Orlando, L. A. A., Willerslev, Eske, Gilbert, M Thomas P & Olsen, Jesper Velgaard, 2012, In : Journal of Proteome Research. 11, 2, p. 917-926 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  52. Published

    LocText: relation extraction of protein localizations to assist database curation

    Cejuela, J. M., Vinchurkar, S., Goldberg, T., Prabhu Shankar, M. S., Baghudana, A., Bojchevski, A., Uhlig, C., Ofner, A., Raharja-Liu, P., Jensen, Lars Juhl & Rost, B., 2018, In : BMC Bioinformatics. 19, p. 1-11 15.

    Research output: Contribution to journalJournal articleResearchpeer-review

  53. Published

    Nosographic analysis of osmophobia and field testing of diagnostic criteria including osmophobia

    Chalmer, M. A., Hansen, Thomas Folkmann & Olesen, Jes, 2019, In : Cephalalgia. 39, 1, p. 38-43 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  54. E-pub ahead of print

    Proposed new diagnostic criteria for chronic migraine

    Chalmer, M. A., Hansen, Thomas Folkmann, Lebedeva, E. R., Dodick, D. W., Lipton, R. B. & Olesen, Jes, 2020, In : Cephalalgia.

    Research output: Contribution to journalJournal articleResearchpeer-review

  55. Published

    MicroRNA 19a replacement partially rescues fin and cardiac defects in zebrafish model of Holt Oram syndrome

    Chiavacci, E., Daurizio, R., Guzzolino, E., Russo, Francesco, Baumgart, M., Groth, M., Mariani, L., Donofrio, M., Arisi, I., Pellegrini, M., Cellerino, A., Cremisi, F. & Pitto, L., 14 Dec 2015, In : Scientific Reports. 5, 18240.

    Research output: Contribution to journalJournal articleResearchpeer-review

  56. Published

    Molecular Portrait of Breast-Cancer-Derived Cell Lines Reveals Poor Similarity with Tumors

    Cifani, P., Kirik, U., Waldemarson, S. & James, P., 2 Jul 2015, In : Journal of Proteome Research. 14, 7, p. 2819-27 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  57. Published

    Interpreting pathways to discover cancer driver genes with Moonlight

    Colaprico, A., Olsen, C., Bailey, M. H., Odom, G. J., Terkelsen, T., Silva, T. C., Olsen, A. V., Cantini, L., Zinovyev, A., Barillot, E., Noushmehr, H., Bertoli, G., Castiglioni, I., Cava, C., Bontempi, G., Chen, X. S. & Papaleo, Elena, 2020, In : Nature Communications. 11, 17 p., 69.

    Research output: Contribution to journalJournal articleResearchpeer-review

  58. Published

    An Integrative Approach to Virus-Host Protein-Protein Interactions

    Cook, H. V. & Jensen, Lars Juhl, 2018, Computational Cell Biology. von Stechow, L. & Delgado, A. S. (eds.). Humana Press, p. 175-196 22 p. (Methods in Molecular Biology, Vol. 1819).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  59. Published

    A Guide to Dictionary-Based Text Mining

    Cook, H. V. & Jensen, Lars Juhl, 2019, Bioinformatics and Drug Discovery. Larson, R. S. & Oprea, T. I. (eds.). 3 ed. Humana Press, Vol. 1939. p. 73-89 17 p. (Methods in Molecular Biology).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  60. Published

    Viruses.STRING: A Virus-Host Protein-Protein Interaction Database

    Cook, H. V., Doncheva, Nadezhda Tsankova, Szklarczyk, D., von Mering, C. & Jensen, Lars Juhl, 2018, In : Viruses. 10, 10, p. 1-11 519.

    Research output: Contribution to journalJournal articleResearchpeer-review

  61. Published

    Multiple independent analyses reveal only transcription factors as an enriched functional class associated with microRNAs

    Croft, L. J., Szklarczyk, D., Jensen, Lars Juhl & Gorodkin, Jan, 2012, In : B M C Systems Biology. 6, 1, p. 90

    Research output: Contribution to journalJournal articleResearchpeer-review

  62. Published

    Early differences in islets from prediabetic NOD mice: combined microarray and proteomic analysis

    Crèvecoeur, I., Gudmundsdottir, V., Vig, S., Marques Câmara Sodré, F., D'Hertog, W., Fierro, A. C., Van Lommel, L., Gysemans, C., Marchal, K., Waelkens, E., Schuit, F., Brunak, Søren, Overbergh, L. & Mathieu, C., Mar 2017, In : Diabetologia. 60, 3, p. 475-489 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  63. Published

    Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation

    Csikász-Nagy, A., Kapuy, O., Tóth, A., Pál, C., Jensen, Lars Juhl, Uhlmann, F., Tyson, J. J. & Novák, B., 2009, In : Molecular Systems Biology. 5, p. 236

    Research output: Contribution to journalJournal articleResearchpeer-review

  64. Published

    Analysis of Predicted Host-Parasite Interactomes Reveals Commonalities and Specificities Related to Parasitic Lifestyle and Tissues Tropism

    Cuesta-Astroz, Y., Santos, A., Oliveira, G. & Jensen, Lars Juhl, 2019, In : Frontiers in Immunology. 10, 17 p., 212.

    Research output: Contribution to journalJournal articleResearchpeer-review

  65. Published

    Discovering miRNA regulatory networks in holt-oram syndrome using a zebrafish model

    D'Aurizio, R., Russo, Francesco, Chiavacci, E., Baumgart, M., Groth, M., D'Onofrio, M., Arisi, I., Rainaldi, G., Pitto, L. & Pellegrini, M., 14 Jul 2016, In : Frontiers in Bioengineering and Biotechnology. 4, JUL, 60.

    Research output: Contribution to journalJournal articleResearchpeer-review

  66. Published

    A genome-wide association study of men with symptoms of testicular dysgenesis syndrome and its network biology interpretation

    Dalgaard, M. D., Weinhold, N., Edsgärd, D., Silver, J. D., Pers, T. H., Nielsen, J. E., Jørgensen, N., Juul, Anders, Gerds, Thomas Alexander, Giwercman, A., Giwercman, Y. L., Cohn-Cedermark, G., Virtanen, H. E., Toppari, J., Daugaard, G., Jensen, T. S., Brunak, Søren, Rajpert-De Meyts, E., Skakkebæk, N. E., Leffers, H. & Gupta, R., 2012, In : Journal of Medical Genetics. 49, 1, p. 58-65 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  67. Published

    Ten simple rules for getting help from online scientific communities

    Dall'olio, G. M., Marino, J., Schubert, M., Keys, K. L., Stefan, M. I., Gillespie, C. S., Poulain, P., Shameer, K., Sugar, R., Invergo, B. M., Jensen, Lars Juhl, Bertranpetit, J. & Laayouni, H., 1 Sep 2011, In : P L o S Computational Biology. 7, 9, p. e1002202

    Research output: Contribution to journalJournal articleResearchpeer-review

  68. Published

    Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level

    Danielsen, J. M. R., Sylvestersen, K. B., Bekker-Jensen, Simon Holst, Szklarczyk, D., Poulsen, J. W., Horn, H., Jensen, Lars Juhl, Mailand, Niels & Nielsen, Michael Lund, 1 Mar 2011, In : Molecular and Cellular Proteomics. 10, 3, p. M110.003590

    Research output: Contribution to journalJournal articleResearchpeer-review

  69. Published

    Immunologic manifestations of autophagy

    Deretic, V., Kimura, T., Timmins, G., Moseley, Pope Lloyd, Chauhan, S. & Mandell, M., 2015, In : Journal of Clinical Investigation. 125, 1, p. 75-84 10 p.

    Research output: Contribution to journalReviewResearchpeer-review

  70. Published

    Secretome Analysis of Lipid-Induced Insulin Resistance in Skeletal Muscle Cells by a Combined Experimental and Bioinformatics Workflow

    Deshmukh, Atul Shahaji, Cox, J., Jensen, Lars Juhl, Meissner, F. & Mann, Matthias, 6 Nov 2015, In : Journal of Proteome Research. 14, 11, p. 4885-95 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  71. Published

    Self-reported restless legs syndrome and involuntary leg movements during sleep are associated with symptoms of attention deficit hyperactivity disorder

    Didriksen, M., Thørner, L. W., Erikstrup, C., Pedersen, O. B., Paarup, H. M., Petersen, M., Hansen, T. F., Banasik, Karina, Nielsen, K. R., Hjalgrim, H., Jennum, Poul, Sørensen, E., Burgdorf, K. S. & Ullum, Henrik, 2019, In : Sleep Medicine. 57, p. 115-121 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  72. Published

    Dairy consumption, systolic blood pressure, and risk of hypertension: Mendelian randomization study

    Ding, M., Huang, T., Bergholdt, H. K. M., Sørensen, Thorkild I.A., Linneberg, Allan René, Sandholt, C. H., Pedersen, Oluf Borbye, Hansen, Torben, Oskari Kilpeläinen, Tuomas, CHARGE Consortium, C. C., Nordestgaard, Børge, Ellervik, Christina, Qi, L. & Mendelian Randomization of Dairy Consumption Working Group, M. R. O. D. C. W. G., 2017, In : The BMJ. 356, 10 p., j1000.

    Research output: Contribution to journalJournal articleResearchpeer-review

  73. Accepted/In press

    Cross-sectional study identifies lower risk of Staphylococcus aureus nasal colonization in Danish blood donors with hidradenitis suppurativa symptoms

    Dinh, K. M., Erikstrup, L. T., Andersen, R. K., Andersen, Paal Skytt, Mikkelsen, S., Kjerulff, B. D., Burgdorf, K. S., Hansen, Thomas Folkmann, Nielsen, K. R., Hjalgrim, H., Jemec, Gregor, Ullum, Henrik, Erikstrup, C. & Pedersen, O. B., 2020, (Accepted/In press) In : British Journal of Dermatology.

    Research output: Contribution to journalLetterResearchpeer-review

  74. Published

    Phospho.ELM: a database of phosphorylation sites--update 2011

    Dinkel, H., Chica, C., Via, A., Gould, C. M., Jensen, Lars Juhl, Gibson, T. J. & Diella, F., 1 Jan 2011, In : Nucleic Acids Symposium Series. 39, Database issue, p. D261-7

    Research output: Contribution to journalJournal articleResearchpeer-review

  75. Published

    Heat shock response and autophagy - cooperation and control

    Dokladny, K., Myers, O. B. & Moseley, Pope Lloyd, 2015, In : Autophagy. 11, 2, p. 200-213 14 p.

    Research output: Contribution to journalReviewResearchpeer-review

  76. Published

    Intestinal epithelial barrier function and tight junction proteins with heat and exercise

    Dokladny, K., Zuhl, M. N. & Moseley, Pope Lloyd, 15 Mar 2016, In : Journal of Applied Physiology. 120, 6, p. 692-701 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  77. Published

    Cytoscape stringApp: Network analysis and visualization of proteomics data

    Doncheva, Nadezhda Tsankova, Morris, J., Gorodkin, Jan & Jensen, Lars Juhl, 2019, In : Journal of Proteome Research. 18, 2, p. 623-632

    Research output: Contribution to journalJournal articleResearchpeer-review

  78. Published

    Towards a coordination of European activities to diagnose and manage insect diseases in production facilities

    Eilenberg, Jørgen, van Oers, M. M., Jensen, A. B., Lecocq, Antoine, Maciel Vergara, Gabriela, Andrade Santacoloma, L. P., van Loon, J. J. A. & Hesketh, H., 2018, In : Journal of Insects as Food and Feed. 4, 3, p. 157-166 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  79. Published

    Patterns of co-occurrence of congenital heart defects follows distinct patterns

    Ellesøe, S. G., Workman, C. T., Bouvagnet, P., Loffredo, C. A., McBride, K. L., Hinton, R. B., van Engelen, K., Gertsen, E. C., Mulder, B. J. M., Postma, A. V., Anderson, R. H., Hjortdal, Vibeke Elisabeth, Brunak, Søren & Larsen, Lars Allan, 2019, In : European Journal of Human Genetics. 26, p. 106 1 p.

    Research output: Contribution to journalConference abstract in journalResearchpeer-review

  80. Published

    Normalisation of left ventricular systolic function after change from VVI pacing to biventricular pacing in a child with congenital complete atrioventricular block, long-QT syndrome, and congenital muscular dystrophy: a 10-year follow-up

    Ellesøe, S. G., Reimers, J. I. & Andersen, H., 17 May 2013, In : Cardiology in the Young. 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  81. Published

    Familial co-occurrence of congenital heart defects follows distinct patterns

    Ellesøe, S. G., Workman, C. T., Bouvagnet, P., Loffredo, C. A., McBride, K. L., Hinton, R. B., van Engelen, K., Gertsen, E. C., Mulder, B. J. M., Postma, A. V., Anderson, R. H., Hjortdal, V. E., Brunak, Søren & Larsen, Lars Allan, Mar 2018, In : European Heart Journal. 39, 12, p. 1015–1022

    Research output: Contribution to journalJournal articleResearchpeer-review

  82. Published

    Familial Atrial Septal Defect and Sudden Cardiac Death: Identification of a Novel NKX2-5 Mutation and a Review of the Literature

    Ellesøe, S. G., Johansen, M. M., Bjerre, J. V., Hjortdal, V. E., Brunak, Søren & Larsen, Lars Allan, 1 May 2016, In : Congenital Heart Disease. 11, 3, p. 283–290 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  83. Published

    How Suitable Are Registry Data for Recurrence Risk Calculations? Validation of Diagnoses on 1,593 Families With Congenital Heart Disease

    Ellesøe, S. G., Jensen, A. B., Ängquist, Lars, Hjortdal, V. E., Larsen, Lars Allan & Brunak, Søren, Mar 2016, In : World journal for pediatric & congenital heart surgery. 7, 2, p. 169-77 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  84. Published

    Analysis of five chronic inflammatory diseases identifies 27 new associations and highlights disease-specific patterns at shared loci

    Ellinghaus, D., Jostins, L., Spain, S. L., Cortes, A., Bethune, J., Han, B., Park, Y. R., Raychaudhuri, S., Pouget, J. G., Hübenthal, M., Folseraas, T., Wang, Y., Esko, T., Metspalu, A., Westra, H., Franke, L., Pers, Tune H, Weersma, R. K., Collij, V., D'Amato, M., Halfvarson, J., Jensen, A. B., Lieb, W., Degenhardt, F., Forstner, A. J., Hofmann, A., Schreiber, S., Mrowietz, U., Juran, B. D., Lazaridis, K. N., Brunak, Søren, Dale, A. M., Trembath, R. C., Weidinger, S., Weichenthal, M., Ellinghaus, E., Elder, J. T., Barker, J. N. W. N., Andreassen, O. A., McGovern, D. P., Karlsen, T. H., Barrett, J. C., Parkes, M., Brown, M. A., Franke, A. & International IBD Genetics Consortium (IIBDGC), I. I. G. C. (., May 2016, In : Nature Genetics. 48, 5, p. 510-521 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  85. Published

    Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation

    Emdal, Kristina Bennet, Pedersen, A., Bekker-Jensen, D. B., Tsafou, K. P., Horn, H., Lindner, S., Schulte, J. H., Eggert, A., Jensen, Lars Juhl, Francavilla, C. & Olsen, Jesper Velgaard, 2015, In : Science signaling. 8, 374, ra40.

    Research output: Contribution to journalJournal articleResearchpeer-review

  86. Published

    High-throughput immuno-profiling of mamba (Dendroaspis) venom toxin epitopes using high-density peptide microarrays

    Engmark, M., Andersen, M. R., Laustsen, A. H., Patel, J., Sullivan, E., de Masi, F., Hansen, C. S., Kringelum, J. V., Lomonte, B., Gutiérrez, J. M. & Lund, O., 8 Nov 2016, In : Scientific Reports. 6, 14 p., 36629.

    Research output: Contribution to journalJournal articleResearchpeer-review

  87. Published

    Dictionary construction and identification of possible adverse drug events in Danish clinical narrative text

    Eriksson, R., Jensen, P. B., Pletscher-Frankild, S., Jensen, Lars Juhl & Brunak, Søren, 23 May 2013, In : JAMIA - Journal of the American Medical Informatics Association. 20, 5, p. 947-953 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  88. Published

    Dose-specific adverse drug reaction identification in electronic patient records: temporal data mining in an inpatient psychiatric population

    Eriksson, Robert, Werge, T., Jensen, Lars Juhl & Brunak, Søren, Apr 2014, In : Drug Safety. 37, 4, p. 237-47 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  89. Published

    Bone Status in Obese, Non-diabetic, Antipsychotic-Treated Patients, and Effects of the Glucagon-Like Peptide-1 Receptor Agonist Exenatide on Bone Turnover Markers and Bone Mineral Density

    Eriksson, Robert, Broberg, B. V., Ishoy, P. L., Bak, N., Andersen, U. B., Jorgensen, N. R., Knop, Filip Krag & Ebdrup, Bjørn, 2019, In : Frontiers in Psychiatry. 9, 7 p., 781.

    Research output: Contribution to journalJournal articleResearchpeer-review

  90. Published

    O12.4. EFFECTS OF THE GLUCAGON-LIKE PEPTIDE-1 RECEPTOR AGONIST EXENATIDE ON BONE STATUS IN OBESE, NON-DIABETIC, ANTIPSYCHOTIC-TREATED SCHIZOPHRENIA SPECTRUM PATIENTS

    Eriksson, Robert, Broberg, B. V., Ishoy, P. L., Bak, N., Andersen, U. B., Jørgensen, Niklas Rye, Knop, Filip Krag & Ebdrup, Bjørn, 2019, In : Schizophrenia Bulletin. 45, Suppl. 2, p. S198-S199 1 p.

    Research output: Contribution to journalConference abstract in journalResearch

  91. Published

    Discrepancies in listed adverse drug reactions in pharmaceutical product information supplied by the regulatory authorities in Denmark and the USA

    Eriksson, Robert, Aagaard, L., Jensen, Lars Juhl, Borisova, L., Hørlück, D., Brunak, Søren & Hansen, E. H., 2014, In : Pharmacology Research & Perspectives. 2, 3, p. 1-10 e00038.

    Research output: Contribution to journalJournal articleResearchpeer-review

  92. Published

    Erratum to: Dose-Specific Adverse Drug Reaction Identification in Electronic Patient Records: Temporal Data Mining in an Inpatient Psychiatric Population

    Eriksson, Robert, Werge, T., Jensen, Lars Juhl & Brunak, Søren, May 2014, In : Drug Safety. 37, 5, p. 379

    Research output: Contribution to journalJournal articleResearchpeer-review

  93. Published

    The use of combined heart rate response and accelerometry to assess the level and predictors of physical activity in tuberculosis patients in Tanzania

    Faurholt-Jepsen, M., Faurholt-Jepsen, D., Range, N., Praygod, G., Jeremiah, K., Aabye, M. G., Changalucha, J., Krarup, H., Christensen, Dirk Lund, Andersen, A. B., Brage, S. & Friis, Henrik, 2014, In : Epidemiology and Infection. 142, 6, p. 1334-1342 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  94. Published

    Specific CLK inhibitors from a novel chemotype for regulation of alternative splicing

    Fedorov, O., Huber, K., Eisenreich, A., Filippakopoulos, P., King, O., Bullock, A. N., Szklarczyk, D., Jensen, Lars Juhl, Fabbro, D., Trappe, J., Rauch, U., Bracher, F. & Knapp, S., 2011, In : Chemistry & Biology. 18, 1, p. 67-76 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  95. Published

    A generic deep convolutional neural network framework for prediction of receptor–ligand interactions - NetPhosPan: application to kinase phosphorylation prediction

    Fenoy, E., Izarzugaza, J. M. G., Jurtz, V., Brunak, Søren & Nielsen, M., 2019, In : Bioinformatics. 35, 7, p. 1098-1107

    Research output: Contribution to journalJournal articleResearchpeer-review

  96. Published

    Immune Profiling of Human Gut-Associated Lymphoid Tissue Identifies a Role for Isolated Lymphoid Follicles in Priming of Region-Specific Immunity

    Fenton, T. M., Jørgensen, P. B., Niss, Kristoffer, Rubin, S. J. S., Mörbe, U. M., Riis, Lene Buhl, Da Silva, C., Plumb, A., Vandamme, J., Jakobsen, H. L., Brunak, Søren, Habtezion, A., Nielsen, Ole Haagen, Johansson-Lindbom, B. & Agace, W. W., 2020, In : Immunity. 52, 3, p. 557-570, e1-e6

    Research output: Contribution to journalJournal articleResearchpeer-review

  97. Published

    Identification of Disease-miRNA Networks Across Different Cancer Types Using SWIM

    Fiscon, G., Conte, F., Farina, L., Pellegrini, M., Russo, Francesco & Paci, P., 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 169-181 13 p. (Methods in Molecular Biology, Vol. 1970).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  98. Published

    Corrigendum: Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

    Forslund, K., Hildebrand, F., Nielsen, Trine, Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Vieira-Silva, S., Gudmundsdottir, V., Pedersen, H. K., Arumugam, Mani, Kristiansen, Karsten, Voigt, A. Y., drb459, drb459, Hercog, R., Costea, P. I., Kultima, J. R., Li, J., Jørgensen, T., Levenez, F., Doré, J., Nielsen, H. B., Brunak, Søren, Raes, J., Hansen, Torben, Wang, J., Ehrlich, S. D., Bork, P., Pedersen, Oluf Borbye & MetaHIT consortium, M. C., 3 May 2017, In : Nature. 545, 116, 1 p., 22318.

    Research output: Contribution to journalComment/debateResearch

  99. Published

    Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

    Forslund, K., Hildebrand, F., Nielsen, Trine, Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Vieira-Silva, S., Gudmundsdottir, V., Pedersen, H. K., Arumugam, Mani, Kristiansen, Karsten, Yvonne Voigt, A., drb459, drb459, Hercog, R., Igor Costea, P., Roat Kultima, J., Li, J., Jørgensen, T., Levenez, F., Dore, J., Nielsen, H. B., Brunak, Søren, Raes, J., Hansen, Torben, Wang, J., Dusko Ehrlich, S., Bork, P. & Pedersen, Oluf Borbye, 2015, In : Nature. 528, 7581, p. 262-266 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  100. Published

    Phosphoproteomics of Primary Cells Reveals Druggable Kinase Signatures in Ovarian Cancer

    Francavilla, C., Lupia, M., Tsafou, K., Villa, A., Kowalczyk, K., Rakownikow Jersie-Christensen, R., Bertalot, G., Confalonieri, S., Brunak, Søren, Jensen, Lars Juhl, Cavallaro, U. & Olsen, Jesper Velgaard, 28 Mar 2017, In : Cell Reports. 18, 13, p. 3242-3256 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  101. Published

    STRING v9.1: Protein-protein interaction networks, with increased coverage and integration

    Franceschini, A., Simonovic, M., Roth, A., Von Mering, C., Szklarczyk, D., Pletscher-Frankild, S., Jensen, Lars Juhl, Kuhn, M. M., Lin, J., Minguez, P. & Bork, P., 1 Jan 2013, In : Nucleic Acids Research. 41, D1, p. D808-D815 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  102. Published

    SVD-phy: improved prediction of protein functional associations through singular value decomposition of phylogenetic profiles

    Franceschini, A., Lin, J., von Mering, C. & Jensen, Lars Juhl, 2016, In : Bioinformatics. 32, 7, p. 1085-7 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  103. Published

    Genes adopt non-optimal codon usage to generate cell cycle-dependent oscillations in protein levels

    Frenkel-Morgenstern, M., Danon, T., Christian, T., Igarashi, T., Cohen, L., Hou, Y. & Jensen, Lars Juhl, 2012, In : Molecular Systems Biology. 8, p. 572

    Research output: Contribution to journalJournal articleResearchpeer-review

  104. E-pub ahead of print

    JIB.tools 2.0 - A Bioinformatics Registry for Journal Published Tools with Interoperability to bio.tools

    Friedrichs, M., Shoshi, A., Chmura, Piotr Jaroslaw, Ison, J., Schwammle, V., Schreiber, F., Hofestadt, R. & Sommer, B., 2020, In : Journal of integrative bioinformatics. 16, 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  105. Published

    Identification of known and novel recurrent viral sequences in data from multiple patients and multiple cancers

    Friis-Nielsen, J., Kjartansdóttir, K. R., Mollerup, S., Asplund, M., Mourier, T., Jensen, R. H., Hansen, T. A., Rey de la Iglesia, Alba, Richter, S. R., Nielsen, Ida Broman, Alquezar Planas, D. E., Olsen, Pernille Vibeke Selmer, Vinner, Lasse, Fridholm, E. M. H., Nielsen, L. P., Willerslev, Eske, Sicheritz-Pontén, T., Lund, O., Hansen, Anders Johannes, Izarzugaza, J. M. G. & Brunak, Søren, 2016, In : Viruses. 8, 2, 16 p., 53.

    Research output: Contribution to journalJournal articleResearchpeer-review

  106. Published

    Protein-protein interactions: analysis and prediction

    Frishman, D., Albert, M., Blankenburg, H., Bork, P., Harrington, E. D., Hermjakob, H., Jensen, Lars Juhl, Juan, D. A., Pagel, P., Schachter, V. & Valencia, A., 2009, Modern Genome Annotation: The BioSapien Network. Springer Publishing Company, p. 353-410 (Modern Genome Annotation: The BioSapiens network).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearch

  107. Published

    Cyclebase.org: version 2.0, an updated comprehensive, multi-species repository of cell cycle experiments and derived analysis results

    Gauthier, N. P., Jensen, Lars Juhl, Wernersson, R., Brunak, Søren & Jensen, T. S., 2010, In : Nucleic Acids Research. 38, Database issue, p. D699-702

    Research output: Contribution to journalJournal articleResearchpeer-review

  108. Published

    Protein features as determinants of wild-type glycoside hydrolase thermostability

    Geertz-Hansen, H. M., Kiemer, L., Nielsen, M., Stanchev, K., Blom, N., Brunak, Søren & Petersen, T. N., Nov 2017, In : Proteins: Structure, Function, and Bioinformatics. 85, 11, p. 2036-2044 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  109. Published

    Cofactory: Sequence-based prediction of cofactor specificity of Rossmann folds

    Geertz-Hansen, H. M., Blom, N., Feist, A., Brunak, Søren & Petersen, T. N., 13 Feb 2014, In : Proteins: Structure, Function, and Bioinformatics. 82, 9, p. 1819-1828 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  110. Published

    Quantifying environmental adaptation of metabolic pathways in metagenomics

    Gianoulis, T. A., Raes, J., Patel, P. V., Bjornson, R., Korbel, J. O., Letunic, I., Yamada, T., Paccanaro, A., Snyder, M., Bork, P., Gerstein, M. B. & Jensen, Lars Juhl, 2009, In : Proceedings of the National Academy of Science of the United States of America. 106, 5, p. 1374-9 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  111. Published

    Mammary alveolar epithelial cells convert to brown adipocytes in post-lactating mice

    Giordano, A., Perugini, J., Kristensen, D. M., Sartini, L., Frontini, A., Kajimura, S., Kristiansen, Karsten & Cinti, S., 2017, In : Journal of Cellular Physiology. 232, 11, p. 2923-2928 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  112. Published

    A systematic study of site-specific GalNAc-type O-glycosylation modulating proprotein convertase processing

    Schjoldager, Katrine Ter-Borch Gram, Vester-Christensen, M. B., Goth, Christoffer Knak, Petersen, T. N., Brunak, Søren, Bennett, Eric Paul, Levery, S. B. & Clausen, Henrik, 18 Nov 2011, In : Journal of Biological Chemistry. 286, 46, p. 40122-32 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  113. Published

    Heterogeneity of treatment effect of prophylactic pantoprazole in adult ICU patients: a post hoc analysis of the SUP-ICU trial

    Granholm, A., Marker, S., Krag, M., Zampieri, F. G., Thorsen-Meyer, H., Kaas-Hansen, Benjamin Skov, van der Horst, I. C. C., Lange, Theis, Wetterslev, J., Perner, Anders & Møller, Morten Hylander, 2020, In : Intensive Care Medicine. 46, p. 717–726 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  114. Published

    High-resolution transcription atlas of the mitotic cell cycle in budding yeast

    Granovskaia, M. V., Jensen, Lars Juhl, Ritchie, M. E., Toedling, J., Ning, Y., Bork, P., Huber, W. & Steinmetz, L. M., 1 Jan 2010, In : Genome Biology (Online Edition). 11, 3, p. R24

    Research output: Contribution to journalJournal articleResearchpeer-review

  115. Published

    Toxicogenomics directory of rat hepatotoxicants in vivo and in cultivated hepatocytes

    Grinberg, M., Stöber, R. M., Albrecht, W., Edlund, K., Schug, M., Godoy, P., Cadenas, C., Marchan, R., Lampen, A., Braeuning, A., Buhrke, T., Leist, M., Oberemm, A., Hellwig, B., Kamp, H., Gardner, I., Escher, S., Taboureau, Olivier Thierry, Aguayo Orozco, Alejandro, Sachinidis, A., Ellinger-Ziegelbauer, H., Rahnenführer, J. & Hengstler, J. G., 2018, In : Archives of Toxicology. 92, 12, p. 3517-3533 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  116. Published

    Integrative network analysis highlights biological processes underlying GLP-1 stimulated insulin secretion: A DIRECT study

    Gudmundsdottir, V., Pedersen, H. K., Allebrandt, K. V., Brorsson, C. A., van Leeuwen, N., Banasik, Karina, Mahajan, A., Groves, C. J., van de Bunt, M., Dawed, A. Y., Fritsche, A., Staiger, H., Simonis-Bik, A. M. C., Deelen, J., Kramer, M. H. H., Dietrich, A., Hübschle, T., Willemsen, G., Häring, H., de Geus, E. J. C., Boomsma, D. I., Eekhoff, E. M. W., Ferrer, J., McCarthy, M. I., Pearson, E. R., Gupta, R., Brunak, Søren & 't Hart, L. M., 2018, In : P L o S One. 13, 1, p. 1-19 e0189886.

    Research output: Contribution to journalJournal articleResearchpeer-review

  117. Published

    Modules, networks and systems medicine for understanding disease and aiding diagnosis

    Gustafsson, M., Nestor, C. E., Zhang, H., Barabási, A., Baranzini, S., Brunak, Søren, Chung, K. F., Federoff, H. J., Gavin, A., Meehan, R. R., Picotti, P., Pujana, M. À., Rajewsky, N., Smith, K. G., Sterk, P. J., Villoslada, P. & Benson, M., Oct 2014, In : Genome Medicine. 6, 10, p. 82

    Research output: Contribution to journalJournal articleResearchpeer-review

  118. Published

    Comparison of quantitative trait loci methods: Total expression and allelic imbalance method in brain RNA-seq

    Gådin, J. R., Buil, A., Colantuoni, C., Jaffe, A. E., Nielsen, J., Shin, J., Hyde, T. M., Kleinman, J. E., Plath, N., Eriksson, P., Brunak, Søren, Didriksen, M., Weinberger, D. R., Folkersen, L. & BrainSeq Consortium, B. C., 2019, In : PLoS ONE. 14, 6, 16 p., e0217765.

    Research output: Contribution to journalJournal articleResearchpeer-review

  119. Published

    Analysis of human acetylation stoichiometry defines mechanistic constraints on protein regulation

    Hansen, B. K., Gupta, R., Baldus, L., Lyon, D., Narita, Takeo, Lammers, M., Choudhary, Chuna Ram & Weinert, B. T., 2019, In : Nature Communications. 10, 11 p., 1055.

    Research output: Contribution to journalJournal articleResearchpeer-review

  120. Published

    Genetic and environmental risk factors in congenital heart disease functionally converge in protein networks driving heart development

    Hansen, K. L., Greenway, S. C., Rosenfeld, J. A., Wakimoto, H., Gorham, J. M., Segrè, A. V., Roberts, A. E., Smoot, L. B., Pu, W. T., C Pereira, A., Mesquita, S. M., Tommerup, Niels, Brunak, Søren, Ballif, B. C., Shaffer, L. G., Donahoe, P. K., Daly, M. J., Seidman, J. G., Seidman, C. E. & Larsen, Lars Allan, 2012, In : Proceedings of the National Academy of Sciences USA (PNAS). 109, 35, p. 14035-40 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  121. Published

    A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes

    Hansen, K. L., Hansen, N. T., Karlberg, E. O., Eklund, A. C., Roque, F. S., Donahoe, P. K., Szallasi, Z., Jensen, T. S. & Brunak, Søren, 2008, In : Proceedings of the National Academy of Science of the United States of America. 105, 52, p. 20870-5 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  122. Published

    Dissecting spatio-temporal protein networks driving human heart development and related disorders

    Hansen, K. L., Møllgård, Kjeld, Greenway, S., Wakimoto, H., Gorham, J. M., Workman, C. T., Bendsen, E., Hansen, N. T., Rigina, O., Roque, F. S., Wiese, C., Christoffels, V. M., Roberts, A. E., Smoot, L. B., Pu, W. T., Donahoe, P. K., Tommerup, Niels, Brunak, Søren, Seidman, C. E., Seidman, J. G. & Larsen, Lars Allan, 2010, In : Molecular Systems Biology. 6, p. 381

    Research output: Contribution to journalJournal articleResearchpeer-review

  123. Published

    Acquisition of docetaxel resistance in breast cancer cells reveals upregulation of ABCB1 expression as a key mediator of resistance accompanied by discrete upregulation of other specific genes and pathways

    Hansen, S. N., Westergaard, David, Thomsen, M. B. H., Vistesen, M. V., Do, K. N., Fogh, L., Belling, Kirstine G, Wang, J., Yang, H., Gupta, R., Ditzel, H. J., Moreira, José, Brünner, Nils, Stenvang, Jan & Rasmussen, A. S., 2015, In : Tumor Biology. 36, 6, p. 4327-4338 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  124. Published

    The first step towards personalized risk prediction for common epilepsies

    Hansen, Thomas Folkmann & Møller, R. S., 2019, In : Brain. 142, p. 3316-3318 3 p.

    Research output: Contribution to journalComment/debateResearch

  125. Published

    Predicting treatment response using pharmacy register in migraine

    Hansen, Thomas Folkmann, Chalmer, M. A., Haspang, T. M., Kogelman, L. & Olesen, Jes, 2019, In : The Journal of Headache and Pain. 20, p. 31 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  126. Published

    DBDS Genomic Cohort, a prospective and comprehensive resource for integrative and temporal analysis of genetic, environmental and lifestyle factors affecting health of blood donors

    Hansen, Thomas Folkmann, Banasik, Karina, Erikstrup, C., Pedersen, Ole Birger Vesterager, Westergaard, David, Chmura, P. J., Nielsen, K., Thørner, L., Hjalgrim, H., Paarup, H., Larsen, M. A. H., Petersen, M., Jennum, Poul, Andersen, S., Nyegaard, M., Jemec, Gregor, Olesen, Jes, Werge, Thomas, Johansson, P. I., Sørensen, E., Brunak, Søren, Ullum, Henrik & Burgdorf, K. S., 9 Jun 2019, In : BMJ Open. 9, 6, p. 1-7 7 p., e028401.

    Research output: Contribution to journalJournal articleResearchpeer-review

  127. Published

    Comorbidity of migraine with ADHD in adults

    Hansen, Thomas Folkmann, Hoeffding, L. K., Kogelman, L., Haspang, T. M., Ullum, Henrik, Sørensen, E., Erikstrup, C., Pedersen, O. B., Nielsen, K. R., Hjalgrim, H., Paarup, H. M., Werge, Thomas & Burgdorf, K., 2018, In : BMC Neurology. 18, 1, p. 1-9 147.

    Research output: Contribution to journalJournal articleResearchpeer-review

  128. Published

    Molecular determinants of subtype-selective efficacies of cytisine and the novel compound NS3861 at heteromeric nicotinic acetylcholine receptors

    Harpsøe, Kasper, Hald, H., Timmermann, D. B., Jensen, M. L., Dyhring, T., Nielsen, E. Ø., Peters, D., Balle, T., Gajhede, Michael, Kastrup, Jette Sandholm Jensen & Ahring, P. K., 25 Jan 2013, In : Journal of Biological Chemistry. 288, 4, p. 2559-2570 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  129. Published

    Predicting biological networks from genomic data

    Harrington, E. D., Jensen, Lars Juhl & Bork, P., 2008, In : F E B S Letters. 582, 8, p. 1251-8 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  130. Published

    Præcisionskardiologi

    Haue, Amalie Dahl, Vissing, C. R., Tfelt-Hansen, Jacob, Brunak, Søren, Bundgård, Henning & Weeke, P. E., 1 Oct 2018, In : Ugeskrift for Laeger. 180, 20A, p. 1851-54

    Research output: Contribution to journalJournal articleResearchpeer-review

  131. Published

    Are graph databases ready for bioinformatics?

    Have, C. T. & Jensen, Lars Juhl, 21 Oct 2013, In : Bioinformatics (Online). 2 p.

    Research output: Contribution to journalEditorialResearch

  132. Published

    Prenatal exposure to paracetamol/acetaminophen and precursor aniline impairs masculinisation of male brain and behaviour

    Hay-Schmidt, Anders, Finkielman, O. T. E., Jensen, Benjamin Anderschou Holbech, Høgsbro, C. F., Holm, J. B., Johansen, K. H., Jensen, T. K., Andrade, A. M., Swan, S. H., Bornehag, C., Brunak, Søren, Jegou, B., Kristiansen, Karsten & Kristensen, D. M., 2017, In : Reproduction. 154, 2, p. 145-152 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  133. Published

    TIMP-1 increases expression and phosphorylation of proteins associated with drug resistance in breast cancer cells

    Hekmat, O., Munk, S., Fogh, L., Yadav, R., Francavilla, C., Horn, H., Würtz, S. Ø., Schrohl, A., Damsgaard, B., Romer, M. U., Belling, Kirstine G, Jensen, N. F., Gromova, I., Bekker-Jensen, D. B., Moreira, José, Jensen, Lars Juhl, Gupta, R., Lademann, U. A., Brünner, Nils, Olsen, Jesper Velgaard & Stenvang, Jan, 5 Aug 2013, In : Journal of Proteome Research. 12, 9, p. 4136-4151 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  134. Published

    Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation

    Hendriks, Ivo Alexander, Lyon, D., Young, C., Jensen, Lars Juhl, Vertegaal, A. C. O. & Nielsen, Michael Lund, Mar 2017, In : Nature Structural and Molecular Biology. 24, 3, p. 325-336 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  135. Published

    Site-specific characterization of endogenous SUMOylation across species and organs

    Hendriks, Ivo Alexander, Lyon, D., Su, D., Skotte, Niels Henning, Daniel, J. A., Jensen, Lars Juhl & Nielsen, Michael Lund, 2018, In : Nature Communications. 9, p. 1-17 2456.

    Research output: Contribution to journalJournal articleResearchpeer-review

  136. Published

    Identification of hyper-rewired genomic stress non-oncogene addiction genes across 15 cancer types

    Hjaltelin, Jessica Xin, Izarzugaza, J. M. G., Jensen, Lars Juhl, Russo, Francesco, Westergaard, David & Brunak, Søren, 2019, In : npj Systems Biology and Applications. 5, 10 p., 27.

    Research output: Contribution to journalJournal articleResearchpeer-review

  137. Published

    Cyprus Women's Health Research (COHERE) initiative: determining the relative burden of women's health conditions and related co-morbidities in an Eastern Mediterranean population

    Hocaoglu, M. B., Gurkas, S., Karaderi, Tugce, Taneri, B., Erguler, K., Barin, B., Bilgin, E. M., Eralp, G., Allison, M., Findikli, N., Boynukalin, K., Bahceci, M., Naci, H., Vincent, K., Missmer, S. A., Becker, C. M., Zondervan, K. T. & Rahmioglu, N., 2019, In : BMC Women's Health. 19, 7 p., 50.

    Research output: Contribution to journalJournal articleResearchpeer-review

  138. Published

    Selective autophagy maintains centrosome integrity and accurate mitosis by turnover of centriolar satellites

    Holdgaard, S. G., Cianfanelli, V., Pupo, E., Lambrughi, M., Lubas, M., Nielsen, J. C., Eibes, S., Maiani, E., Harder, L. M., Wesch, N., Foged, M. M., Maeda, K., Nazio, F., de la Ballina, L. R., Dötsch, V., Brech, A., Frankel, Lisa, Jäättelä, M., Locatelli, F., Barisic, Marin, Andersen, J. S., Bekker-Jensen, Simon Holst, Lund, Anders H., Rogov, V. V., Papaleo, Elena, Lanzetti, L., De Zio, D. & Cecconi, F., 2019, In : Nature Communications. 10, 1, p. 1-19 19 p., 4176.

    Research output: Contribution to journalJournal articleResearchpeer-review

  139. Published

    The type 2 diabetes associated minor allele of rs2237895 KCNQ1 associates with reduced insulin release following an oral glucose load

    Holmkvist, J., Banasik, K., Andersen, G., Unoki, H., Jensen, T. S., Pisinger, Charlotta Holm, Borch-Johnsen, K., Sandbaek, A., Lauritzen, T., Brunak, Søren, Maeda, S., Hansen, T. & Pedersen, Oluf Borbye, 2009, In : PLoS ONE. 4, 6, p. e5872

    Research output: Contribution to journalJournal articleResearchpeer-review

  140. Published

    KinomeXplorer: an integrated platform for kinome biology studies

    Horn, H., Schoof, E. M., Kim, J., Robin, X., Miller, M. L., Diella, F., Palma, A., Cesareni, G., Jensen, Lars Juhl & Linding, R., 29 May 2014, In : Nature Methods. 11, 6, p. 603-4 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  141. Published

    DoReMi: context-based prioritization of linear motif matches

    Horn, H., Haslam, N. & Jensen, Lars Juhl, 20 Mar 2014, In : PeerJ. 2, 10 p., e315.

    Research output: Contribution to journalJournal articleResearchpeer-review

  142. Published

    A large-cohort, longitudinal study determines pre-cancer disease routes across different cancer types

    Hjaltelin, Jessica Xin, Helleberg, M., Jensen, A. B., Brunak, Søren & Lundgren, Jens, 2019, In : Cancer Research. 79, 4, p. 864-872

    Research output: Contribution to journalJournal articleResearchpeer-review

  143. Published

    Network biology concepts in complex disease comorbidities

    Hjaltelin, Jessica Xin, Thomas, C. E. & Brunak, Søren, Oct 2016, In : Nature Reviews. Genetics. 17, p. 615–629

    Research output: Contribution to journalReviewResearchpeer-review

  144. Published

    eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

    Huerta-Cepas, J., Szklarczyk, D., Forslund, K., Cook, H., Heller, D., Walter, M. C., Rattei, T., Mende, D. R., Sunagawa, S., Kuhn, M., Jensen, Lars Juhl, von Mering, C. & Bork, P., 4 Jan 2016, In : Nucleic Acids Research. 44, D1, p. D286-93

    Research output: Contribution to journalJournal articleResearchpeer-review

  145. Published

    Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

    Huerta-Cepas, J., Forslund, K., Coelho, L. P., Szklarczyk, D., Jensen, Lars Juhl, von Mering, C. & Bork, P., 1 Aug 2017, In : Molecular Biology and Evolution. 34, 8, p. 2115-2122 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  146. Published

    eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

    Huerta-Cepas, J., Szklarczyk, D., Heller, D., Hernández-Plaza, A., Forslund, S. K., Cook, H., Mende, D. R., Letunic, I., Rattei, T., Jensen, Lars Juhl, von Mering, C. & Bork, P., 2019, In : Nucleic Acids Research. 47, D1, p. D309-D314 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  147. Published

    Melanin concentrating hormone receptor 1 (MCHR1) antagonists - Still a viable approach for obesity treatment?

    Högberg, T., Frimurer, Thomas Michael & Sasmal, P. K., 1 Oct 2012, In : Bioorganic & Medicinal Chemistry Letters. 22, 19, p. 6039-6047 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  148. Published

    Transcriptome and metabolite changes during hydrogen cyanamide-induced floral bud break in sweet cherry

    Ionescu, I. A., Lopez-Ortega, G., Burow, Meike, Bayo-Canha, A., Junge, A., Gericke, Oliver, Møller, Birger Lindberg & Sánchez Pérez, R., 2017, In : Frontiers in Plant Science. 8, 17 p., 1233.

    Research output: Contribution to journalJournal articleResearchpeer-review

  149. Published

    Drug-induced regulation of target expression

    Iskar, M., Campillos, M., Kuhn, M., Jensen, Lars Juhl, van Noort, V. & Bork, P., 1 Jan 2010, In : PloS Computational Biology. 6, 9

    Research output: Contribution to journalJournal articleResearchpeer-review

  150. Published

    The bio.tools registry of software tools and data resources for the life sciences

    Ison, J., Ienasescu, H., Chmura, Piotr Jaroslaw, Rydza, E., Ménager, H., Kalaš, M., Schwämmle, V., Grüning, B., Beard, N., Lopez, R., Duvaud, S., Stockinger, H., Persson, B., Vařeková, R. S., Raček, T., Vondrášek, J., Peterson, H., Salumets, A., Jonassen, I., Hooft, R., Nyrönen, T., Valencia, A., Capella, S., Gelpí, J., Zambelli, F., Savakis, B., Leskošek, B., Rapacki, K., Blanchet, C., Jimenez, R., Oliveira, A., Vriend, G., Collin, O., van Helden, J., Løngreen, P. & Brunak, Søren, 2019, In : Genome Biology. 20, 1, 4 p., 164.

    Research output: Contribution to journalLetterResearchpeer-review

  151. Published

    Tools and data services registry: a community effort to document bioinformatics resources

    Ison, J., Rapacki, K., Ménager, H., Kalaš, M., Rydza, E., Chmura, P., Anthon, Christian, Beard, N., Berka, K., Bolser, D., Booth, T., Bretaudeau, A., Brezovsky, J., Casadio, R., Cesareni, G., Coppens, F., Cornell, M., Cuccuru, G., Davidsen, K., Vedova, G. D., Dogan, T., Doppelt-Azeroual, O., Emery, L., Gasteiger, E., Gatter, T., Goldberg, T., Grosjean, M., Grüning, B., Helmer-Citterich, M., Ienasescu, H., Ioannidis, V., Jespersen, M. C., Jimenez, R., Juty, N., Juvan, P., Koch, M., Laibe, C., Li, J., Licata, L., Mareuil, F., Mičetić, I., Friborg, R. M., Moretti, S., Morris, C., Möller, S., Nenadic, A., Peterson, H., Profiti, G., Rice, P., Romano, P., Roncaglia, P., Saidi, R., Schafferhans, A., Schwämmle, V., Smith, C., Sperotto, M. M., Stockinger, H., Vařeková, R. S., Tosatto, S. C. E., de la Torre, V., Uva, P., Via, A., Yachdav, G., Zambelli, F., Vriend, G., Rost, B., Parkinson, H., Løngreen, P. & Brunak, Søren, 2016, In : Nucleic Acids Research. 44, D1, p. D38-D47 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  152. Published

    Similar genomic patterns of clinical infective endocarditis and oral isolates of Streptococcus sanguinis and Streptococcus gordonii

    Iversen, Katrine Højholt, Rasmussen, L. H., Al-Nakeeb, K., Armenteros, J. J. A., Jensen, C. S., Dargis, R., Lukjancenko, O., Justesen, U. S., Moser, Claus Ernst, Rosenvinge, F. S., Nielsen, X. C., Christensen, J. J. & Rasmussen, Simon, 17 Feb 2020, In : Scientific Reports. 10, 1, p. 2728

    Research output: Contribution to journalJournal articleResearchpeer-review

  153. Published

    Increase in clinically recorded type 2 diabetes after colectomy

    Jensen, A. B., Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Jess, T., Brunak, Søren & Allin, Kristine Højgaard, 2018, In : eLife. 7, e37420.

    Research output: Contribution to journalJournal articleResearchpeer-review

  154. Published

    Temporal disease trajectories condensed from population-wide registry data covering 6.2 million patients

    Jensen, A. B., Moseley, Pope Lloyd, Oprea, T. I., Ellesøe, S. G., Eriksson, Robert, Schmock, H., Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 24 Jun 2014, In : Nature Communications. 5, 10 p., 4022.

    Research output: Contribution to journalJournal articleResearchpeer-review

  155. Published

    Long-term risk of cardiovascular and cerebrovascular disease after removal of the colonic microbiota by colectomy: a cohort study based on the Danish National Patient Register from 1996 to 2014

    Jensen, A. B., Ajslev, T. A., Brunak, Søren & Sørensen, Thorkild I.A., 15 Dec 2015, In : B M J Open. 5, 8 p., e008702.

    Research output: Contribution to journalJournal articleResearchpeer-review

  156. Published

    Assembly and analysis of 100 full MHC haplotypes from the Danish population

    Jensen, J. M., Villesen, P., Friborg, R. M., Mailund, T., Besenbacher, S., Sørensen, L. M., Petersen, Bent, Sibbesen, J. A., Liu, S., Skov, L., Belling, Kirstine G, Have, C. T., Izarzugaza, J. M. G., Grosjean, M., Bork-Jensen, J., Grove, J., Als, T. D., Huang, S., Chang, Y., Xu, R., Ye, W., Rao, J., Guo, X., Sun, J., Cao, H., Ye, C., Beusekom, J. V., Espeseth, T., Flindt, E., Halager, A. E., Hellard, S. L., Hultman, C. M., Lescai, F., Li, S., Lund, O., Løngren, P., Matey-Hernandez, M. L., Mors, O., Pedersen, C. N. S., Sicheritz-Pontén, T., Sullivan, P., Syed, A., Westergaard, D., Yadav, R., Li, N., Xu, X., Hansen, Torben, Bolund, L., Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Gupta, R., Rasmussen, Simon, Børglum, A. D., Wang, J., Eiberg, Hans Rudolf Lytchoff, Kristiansen, Karsten, Brunak, Søren & Schierup, M. H., Sep 2017, In : Genome Research. 27, 9, p. 1597-1607 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  157. Published

    Analysis of a gene panel for targeted sequencing of colorectal cancer samples

    Jensen, K. H., Izarzugaza, J. M. G., Juncker, A. S., Hansen, R. B., Hansen, T. F., Timshel, P., Blondal, T., Jensen, T. S., Rygaard-Hjalsted, E., Mouritzen, P., Thorsen, M., Wernersson, R., Nielsen, H. B., Jakobsen, A., Brunak, Søren & Sørensen, F. B., 2018, In : OncoTarget. 9, 10, p. 9043-9060 18 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  158. Published

    Ontologies in quantitative biology: a basis for comparison, integration, and discovery

    Jensen, Lars Juhl & Bork, P., 1 May 2010, In : PLoS Biology. 8, 5, p. e1000374

    Research output: Contribution to journalJournal articleResearchpeer-review

  159. Published

    Biochemistry. Not comparable, but complementary

    Jensen, Lars Juhl & Bork, P., 3 Oct 2008, In : Science (New York, N.Y.). 322, 5898, p. 56-7 2 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  160. Published

    STRING 8--a global view on proteins and their functional interactions in 630 organisms

    Jensen, Lars Juhl, Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., Doerks, T., Julien, P., Roth, A., Simonovic, M., Bork, P. & von Mering, C., 2008, In : Nucleic Acids Research. 37, suppl 1, p. D412-D416 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  161. Published

    Circular reasoning rather than cyclic expression

    Jensen, Lars Juhl, de Lichtenberg, U., Jensen, T. S., Brunak, Søren & Bork, P., 2008, In : Genome Biology. 9, 6, p. 403

    Research output: Contribution to journalJournal articleResearchpeer-review

  162. Published

    The rise and fall of supervised machine learning techniques

    Jensen, Lars Juhl & Bateman, A., 2011, In : Bioinformatics (Online). 27, 24, p. 3331-2 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  163. Published

    One tagger, many uses: Illustrating the power of ontologies in dictionary-based named entity recognition

    Jensen, Lars Juhl, 2016, In : CEUR Workshop Proceedings. 1747, 2 p.

    Research output: Contribution to journalConference articleResearchpeer-review

  164. Published

    Protein interaction-based genome-wide analysis of incident coronary heart disease

    Jensen, Majken Karoline, Pers, Tune H, Dworzynski, P., Girman, C. J., Brunak, Søren & Rimm, E. B., 2011, In : Circulation: Cardiovascular Genetics. 4, 5, p. 549-56 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  165. Published

    Early detection of response to experimental chemotherapeutic Top216 with [18F]FLT and [18F]FDG PET in human ovary cancer xenografts in mice

    Wessel, Mette Munk, Erichsen, K. D., Björkling, Fredrik, Madsen, J., Jensen, P. B., Højgaard, Liselotte, Sehested, M. & Kjær, Andreas, 1 Jan 2010, In : P L o S One. 5, 9, p. e12965

    Research output: Contribution to journalJournal articleResearchpeer-review

  166. Published

    Mining electronic health records: towards better research applications and clinical care

    Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 2012, In : Nature Reviews. Genetics. 13, 6, p. 395-405 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  167. Published

    Reply to 'Mining electronic health records: An additional perspective'

    Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 1 Jan 2013, In : Nature Reviews. Genetics. 14, 1 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  168. Published
  169. Published

    Quantitative metaproteomics of medieval dental calculus reveals individual oral health status

    Jersie-Christensen, R. R., Lanigan, Liam Thomas, Lyon, D., Mackie, Meaghan, Belstrøm, Daniel, Kelstrup, C. D., Fotaki, Anna Katerina, Willerslev, Eske, Lynnerup, Niels, Jensen, Lars Juhl, Cappellini, Enrico & Olsen, Jesper Velgaard, 2018, In : Nature Communications. 9, p. 1-12 4744.

    Research output: Contribution to journalJournal articleResearchpeer-review

  170. Published

    Heterogeneity in the perirenal region of humans suggests presence of dormant brown adipose tissue that contains brown fat precursor cells

    Jespersen, N. Z., Feizi, A., Andersen, E. S., Heywood, S., Hattel, H. B., Daugaard, S., Peijs, Lone, Bagi, P., Feldt-Rasmussen, Bo, Schultz, H. S., Hansen, N. S., Krogh-Madsen, Rikke, Pedersen, Bente Klarlund, Petrovic, N., Nielsen, S. & Schéele, Camilla Charlotte, 2019, In : Molecular Metabolism. 24, p. 30-43 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  171. Published

    Estimating heritability and genetic correlations from large health datasets in the absence of genetic data

    Jia, G., Li, Y., Zhang, H., Chattopadhyay, I., Jensen, A. B., Blair, D. R., Davis, L., Robinson, P. N., Dahlen, T., Brunak, Søren, Benson, M., Edgren, G., Cox, N. J., Gao, X. & Rzhetsky, A., 2019, In : Nature Communications. 10, 11 p., 5508.

    Research output: Contribution to journalJournal articleResearchpeer-review

  172. Published

    Conflicting associations between dietary patterns and changes of anthropometric traits across subgroups of middle-aged women and men

    Jiang, L., Audouze, K., Romero Herrera, Jose Alejandro, Ängquist, Lars, Kjærulff, S. K., Izarzugaza, J. M. G., Tjønneland, Anne, Halkjær, J., Overvad, K., Sørensen, Thorkild I.A. & Brunak, Søren, 2020, In : Clinical Nutrition. 39, 1, p. 265-275

    Research output: Contribution to journalJournal articleResearchpeer-review

  173. Published

    iAnn: an event sharing platform for the life sciences

    Jimenez, R. C., Albar, J. P., Bhak, J., Blatter, M., Blicher, T., Brazas, M. D., Brooksbank, C., Budd, A., De Las Rivas, J., Dreyer, J., van Driel, M. A., Dunn, M. J., Fernandes, P. L., van Gelder, C. W. G., Hermjakob, H., Ioannidis, V., Judge, D. P., Kahlem, P., Korpelainen, E., Kraus, H., Loveland, J., Mayer, C., McDowall, J., Moran, F., Mulder, N., Nyronen, T., Rother, K., Salazar, G. A., Schneider, R., Via, A., Villaveces, J. M., Yu, P., Schneider, M. V., Attwood, T. K. & Corpas, M., 5 Jun 2013, In : Bioinformatics (Online). 29, 15, p. 1919-1921

    Research output: Contribution to journalJournal articleResearchpeer-review

  174. Published

    Prediction of disease causing non-synonymous SNPs by the Artificial Neural Network Predictor NetDiseaseSNP

    Johansen, M. B., Izarzugaza, J. M. G., Brunak, Søren, Petersen, T. N. & Gupta, R., Jul 2013, In : P L o S One. 8, 7, p. e68370

    Research output: Contribution to journalJournal articleResearchpeer-review

  175. Published

    Toppar: an interactive browser for viewing association study results

    Juliusdottir, T., Banasik, Karina, Robertson, N. R., Mott, R. & McCarthy, M. I., 2018, In : Bioinformatics. 34, 11, p. 1922-1924 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  176. Published

    CoCoScore: Context-aware co-occurrence scoring for text mining applications using distant supervision

    Junge, A. & Jensen, Lars Juhl, 2019, In : Bioinformatics. 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  177. Published

    RAIN: RNA-protein Association and Interaction Networks

    Junge, A., Refsgaard, J. C., Garde, C., Pan, X., Santos, A., Alkan, F., Anthon, Christian, von Mering, C., Workman, C. T., Jensen, Lars Juhl & Gorodkin, Jan, 2017, In : Database. 2017, 9 p., baw167.

    Research output: Contribution to journalJournal articleResearchpeer-review

  178. Published

    Increasing insulin resistance accentuates the effect of triglyceride-associated loci on serum triglycerides during 5 years

    Justesen, Johanne Marie, Andersson, E. A., Allin, Kristine Højgaard, Sandholt, C. H., Jørgensen, T., Linneberg, Allan René, Jørgensen, M. E., Hansen, Torben, Pedersen, Oluf Borbye & Grarup, Niels, Dec 2016, In : Journal of Lipid Research. 57, 12, p. 2193-2199 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  179. Published

    Comorbidity landscape of the Danish patient population affected by chromosome abnormalities

    Jørgensen, Isabella Friis, Russo, Francesco, Jensen, A. B., Westergaard, David, zmw894, zmw894, Hjaltelin, Jessica Xin, Brunak, Søren & Belling, Kirstine G, 2019, In : Genetics In Medicine. 21, 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  180. Published

    Cometin is a novel neurotrophic factor that promotes neurite outgrowth and neuroblast migration in vitro and supports survival of spiral ganglion neurons in vivo

    Jørgensen, J. R., Fransson, A., Fjord-Larsen, L., Thompson, L. H., Houchins, J. P., Andrade, N., Torp, M., Kalkkinen, N., Andersson, E., Lindvall, O., Ulfendahl, M., Brunak, Søren, Johansen, T. E. & Wahlberg, L. U., 2012, In : Experimental Neurology. 233, 1, p. 172-81 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  181. Published

    Design and characterization of dimeric ligands cross-linking two identical modulatory AMPA receptor sites

    Kaae, B. H., Harpsøe, Kasper, Sanz, A. C., Pickering, Darryl S, Sauerberg, P., Clausen, Rasmus Prætorius, Kastrup, Jette Sandholm Jensen, Liljefors, T. & Madsen, Ulf, 19 Aug 2007, In : American Chemical Society. Abstracts of Papers (at the National Meeting). 234

    Research output: Contribution to journalConference abstract in journalResearch

  182. Published

    Prediction of pancreatic fat and analysis of its determining factors using multi-omics datasets: an IMI DIRECTstudy

    Karaderi, Tugce, Mazzoni, Gianluca, Brorsson, Caroline Anna, Westergaard, David, Banasik, Karina, Koivula, R., Thomas, L., Bell, J., Franks, P., Pearson, E. & Brunak, Søren, 2019, In : Diabetologia. 62, p. S166-S166

    Research output: Contribution to journalConference abstract in journalResearch

  183. Published

    NetMHCIIpan-3.0, a common pan-specific MHC class II prediction method including all three human MHC class II isotypes, HLA-DR, HLA-DP and HLA-DQ

    Karosiene, E., Rasmussen, M., Blicher, T., Lund, O., Buus, Søren & Nielsen, M., Oct 2013, In : Immunogenetics. 65, 10, p. 711-24 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  184. Published

    The 3rd DBCLS BioHackathon: improving life science data integration with semantic Web technologies

    Katayama, T., Wilkinson, M. D., Micklem, G., Kawashima, S., Yamaguchi, A., Nakao, M., Yamamoto, Y., Okamoto, S., Oouchida, K., Chun, H., Aerts, J., Afzal, H., Antezana, E., Arakawa, K., Aranda, B., Belleau, F., Bolleman, J., Bonnal, R. J., Chapman, B., Cock, P., Eriksson, T., Gordon, P., Goto, N., Hayashi, K., Horn, H., Ishiwata, R., Kaminuma, E., Kasprzyk, A., Kawaji, H., Kido, N., Kim, Y. J., Kinjo, A. R., Konishi, F., Kwon, K., Labarga, A., Lamprecht, A., Lin, Y., Lindenbaum, P., McCarthy, L., Morita, H., Murakami, K., Nagao, K., Nishida, K., Nishimura, K., Nishizawa, T., Ogishima, S., Ono, K., Oshita, K., Park, K., Prins, P., Saito, T. L., Samwald, M., Satagopam, V. P., Shigemoto, Y., Smith, R., Splendiani, A., Sugawara, H., Taylor, J., Vos, R., Withers, D., Yamasaki, C., Zmasek, C. M., Kawamoto, S., Okubo, K., Asai, K. & Takagi, T., 11 Feb 2013, In : Journal of Biomedical Semantics. 4, 1, p. 6 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  185. Published

    Reduced Hsp70 and Glutamine in Pediatric Severe Malaria Anemia: Role of Hemozoin in Suppressing Hsp70 and NF-κB activation

    Kempaiah, P., Dokladny, K., Karim, Z., Raballah, E., Ong'echa, J. M., Moseley, Pope Lloyd & Perkins, D. J., 2016, In : Molecular Medicine. 22, p. 570-584 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  186. Published

    Transfection of small RNAs globally perturbs gene regulation by endogenous microRNAs

    Khan, A. A., Betel, D., Miller, M. L., Sander, C., Leslie, C. S. & Marks, D. S., 2009, In : Nature Biotechnology. 27, 6, p. 549-55 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  187. Published

    Evolution reveals a glutathione-dependent mechanism of 3-hydroxypropionic acid tolerance

    Kildegaard, K. R., Hallström, B. M., Blicher, T. H., Sonnenschein, N., Jensen, N. B., Sherstyk, S., Harrison, S. J., Maury, J., Herrgård, M. J., Juncker, A. S., Forster, J., Nielsen, J. & Borodina, I., Sep 2014, In : Metabolic Engineering. 26C, p. 57-66 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  188. Published

    Development of Computational Methods for Cancer Research: Strategies for closing the feedback loop in omics workflows

    Kirik, U., 2015, Lund University Publications.

    Research output: Book/ReportPh.D. thesisResearch

  189. Published

    Multimodel pathway enrichment methods for functional evaluation of expression regulation

    Kirik, U., Cifani, P., Albrekt, A., Lindstedt, M., Heyden, A. & Levander, F., 4 May 2012, In : Journal of Proteome Research. 11, 5, p. 2955-67 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  190. Published

    Improving Peptide-Spectrum Matching by Fragmentation Prediction Using Hidden Markov Models

    Kirik, U., Refsgaard, J. C. & Jensen, Lars Juhl, 2019, In : Journal of Proteome Research. 18, 6, p. 2385-2396

    Research output: Contribution to journalJournal articleResearchpeer-review

  191. Published

    The impact of the protein interactome on the syntenic structure of mammalian genomes

    Kirk, I. K., Weinhold, N., Brunak, Søren & Belling, Kirstine G, 2017, In : PLOS ONE. 12, 9, 14 p., e0179112.

    Research output: Contribution to journalJournal articleResearchpeer-review

  192. Published

    Linking glycemic dysregulation in diabetes to symptoms, comorbidities, and genetics through EHR data mining

    Kirk, I. K., Simon, C., Banasik, Karina, Holm, Peter Christoffer, Haue, Amalie Dahl, Jensen, P. B., Jensen, Lars Juhl, Leal Rodriguez, Cristina, Pedersen, M. K., Eriksson, Robert, Andersen, H. U., Almdal, Thomas Peter, Bork-Jensen, J., Grarup, Niels, Borch-Johnsen, K., Pedersen, Oluf Borbye, Pociot, Flemming, Hansen, Torben, Bergholdt, R., Rossing, Peter & Brunak, Søren, 2019, In : eLife. 8, 19 p., e44941.

    Research output: Contribution to journalJournal articleResearchpeer-review

  193. Published

    Chromosome-wise Protein Interaction Patterns and Their Impact on Functional Implications of Large-Scale Genomic Aberrations

    Kirk, I. K., Weinhold, N., Belling, Kirstine G, Skakkebæk, Niels Erik, Jensen, T. S., Leffers, H., Juul, Anders & Brunak, Søren, 22 Mar 2017, In : Cell Systems. 4, 3, 11 p., 357-364.e3.

    Research output: Contribution to journalJournal articleResearchpeer-review

  194. Published

    Transcriptome analysis in patients with temporal lobe epilepsy

    Kjær, C., Barzaghi, G., Bak, Lasse Kristoffer, Goetze, Jens P. , Yde, C. W., Woldbye, David Paul Drucker, Pinborg, Lars Hageman & Jensen, Lars Juhl, 2019, In : Brain. 142, 10, p. 49-64 16 p., e55.

    Research output: Contribution to journalLetterResearchpeer-review

  195. E-pub ahead of print

    Disease Trajectories for Hidradenitis Suppurativa in the Danish Population

    Kjærsgaard Andersen, R., Jørgensen, Isabella Friis, Reguant, Roc, Jemec, Gregor & Brunak, Søren, 20 May 2020, In : JAMA Dermatology.

    Research output: Contribution to journalJournal articleResearchpeer-review

  196. Published

    Comparative Study of Different Methods for the Prediction of Drug-Polymer Solubility

    Knopp, M. M., Tajber, L., Tian, Y., Olesen, N. E., Jones, D. S., Kozyra, A., Löbmann, Korbinian, Paluch, K., Brennan, C. M., Holm, R., Healy, A. M., Andrews, G. P. & Rades, Thomas, 8 Sep 2015, In : Molecular Pharmaceutics. 12, 9, p. 3408-19 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  197. Published

    Migraine polygenic risk score associates with efficacy of migraine-specific drugs

    Kogelman, L. J. A., Esserlind, A., Christensen, A. F., Awasthi, S., Ripke, S., Ingason, A., Davidsson, O. B., Erikstrup, C., Hjalgrim, H., Ullum, Henrik, Olesen, Jes, Hansen, Thomas Folkmann, Gudbjartsson, D., Gastafsson, O., Stefansson, K., Stefansson, H., Porsteinsdottir, U., Andersen, S., Banasik, Karina, Brunak, Søren, Buil, A., Burgdorf, K., Gregor, J., Jennum, Poul, Nielsen, K. R., Nyegaard, M., Paarup, H. M., Pedersen, O. B., Sørensen, E., Werge, Thomas, Anttila, V., Artto, V., Belin, A. C., de Boer, I., Boomsma, D. I., Borte, S., Chasman, D. I., Cherkas, L., Cormand, B., Cuenca-Leon, E., Davey-Smith, G., Dichgans, M., van Duijn, C., Esko, T., Ferrari, M., Frants, R. R., Freilinger, T., Furlotte, N., Gormley, P., Griffiths, L., Hamalainen, E., Hiekkala, M., Ikram, M. A., Jarvelin, M., Kajanne, R., Kallela, M., Kaprio, J., Kaunisto, M., Kubisch, C., Kurki, M., Kurth, T., Launer, L., Lehtimaki, T., Lessel, D., Ligthart, L., Litterman, N., van den Maagdenberg, A., Macaya, A., Malik, R., Mangino, M., McMahon, G., Muller-Myhsok, B., Neale, B. M., Northover, C., Nyholt, D. R., Palotie, A., Palta, P., Pedersen, L., Pedersen, N., Posthuma, D., Pozo-Rosich, P., Pressman, A., Raitakari, O., Schurks, M., Sintas, C., Steinberg, S., Strachan, D., Terwindt, G., Vila-Pueyo, M., Wessman, M., Winsvold, B. S., Zhao, H. & Zwart, J., 2019, In : Neurology: Genetics. 5, 6, 12 p., e364.

    Research output: Contribution to journalJournal articleResearchpeer-review

  198. Published

    Comparing migraine with and without aura to healthy controls using RNA sequencing

    Kogelman, L. J. A., Falkenberg, K., Halldorsson, G. H., Poulsen, L. U., Worm, J., Ingason, A., Stefansson, H., Stefansson, K., Hansen, Thomas Folkmann & Olesen, Jes, 2019, In : Cephalalgia. 39, 11, p. 1435-1444

    Research output: Contribution to journalJournal articleResearchpeer-review

  199. Published

    The role of physical activity in metabolic homeostasis before and after the onset of type 2 diabetes: an IMI DIRECT study

    IMI-DIRECT consortium, I. C., Apr 2020, In : Diabetologia. 63, 4, p. 744-756 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  200. Published

    Discovery of biomarkers for glycaemic deterioration before and after the onset of type 2 diabetes: descriptive characteristics of the epidemiological studies within the IMI DIRECT Consortium

    Koivula, R. W., Forgie, I. M., Kurbasic, A., Viñuela, A., Heggie, A., Giordano, G. N., Hansen, Tue Haldor, Hudson, M., Koopman, A. D. M., Rutters, F., Siloaho, M., Allin, Kristine Højgaard, Brage, S., Brorsson, C. A., Dawed, A. Y., De Masi, F., Groves, C. J., Kokkola, T., Mahajan, A., Perry, M. H., Rauh, S. P., Ridderstråle, M., Teare, H. J. A., Thomas, E. L., Tura, A., drb459, drb459, White, T., Adamski, J., Bell, J. D., Beulens, J. W., Brunak, Søren, Dermitzakis, E. T., Froguel, P., Frost, G., Gupta, R., Hansen, Torben, Hattersley, A., Jablonka, B., Kaye, J., Laakso, M., McDonald, T. J., Pedersen, Oluf Borbye, Schwenk, J. M., Pavo, I., Mari, A., McCarthy, M. I., Ruetten, H., Walker, M., Pearson, E., Franks, P. W. & IMI-DIRECT consortium, I. C., 2019, In : Diabetologia. 62, 9, p. 1601-1615

    Research output: Contribution to journalJournal articleResearchpeer-review

  201. Published

    Alterations of the interactome of Bcl-2 proteins in breast cancer at the transcriptional, mutational and structural level

    Konig, S. M., Rissler, V., Terkelsen, T., Lambrughi, M. & Papaleo, Elena, 2019, In : P L o S One. 15, 12, 28 p., e1007485.

    Research output: Contribution to journalJournal articleResearchpeer-review

  202. Published

    Proceedings of the EuBIC Winter School 2019

    Kopczynski, D., Bittremieux, W., Bouyssié, D., Dorfer, V., Locard-Paulet, Marie, Van Puyvelde, B., Schwämmle, V., Soggiu, A., Willems, S. & Uszkoreit, J., 2019, In : EuPA Open Proteomics. 22-23, p. 4-7 4 p.

    Research output: Contribution to journalConference articleResearchpeer-review

  203. Published

    Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics

    Kouskoumvekaki, I., Shublaq, N. & Brunak, Søren, 1 Aug 2013, In : Briefings in Bioinformatics. 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  204. Published

    On the hunt for the alternate host of Hemileia vastatrix

    Koutouleas, Tina, Jørgensen, Hans Jørgen Lyngs, Jensen, Birgit, Lillesø, Jens-Peter Barnekow, Junge, A. & Ræbild, Anders, 2019, In : Ecology and Evolution. 9, 23, p. 13619-13631 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  205. Published

    ChemProt-3.0: a global chemical biology diseases mapping

    Kringelum, J. V., Kjærulff, S. K., Brunak, Søren, Lund, O., Oprea, T. I. & Taboureau, Olivier Thierry, 2016, In : Database. 2016, 7 p., bav123.

    Research output: Contribution to journalJournal articleResearchpeer-review

  206. Published

    Ibuprofen alters human testicular physiology to produce a state of compensated hypogonadism

    Kristensen, D. M., Desdoits-Lethimonier, C., Mackey, Abigail, Dalgaard, M. D., De Masi, F., Munkbøl, C. H., Styrishave, Bjarne, Antignac, J., Le Bizec, B., Platel, C., Hay-Schmidt, Anders, Jensen, T. K., Lesné, L., Mazaud-Guittot, S., Kristiansen, Karsten, Brunak, Søren, Kjær, Michael, Juul, Anders & Jégou, B., 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 4, p. e715-e724 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  207. Published

    miRNAs in Human Subcutaneous Adipose Tissue: Effects of Weight Loss Induced by Hypocaloric Diet and Exercise

    Kristensen, M. M., Davidsen, P. K., Vigelso, A., Hansen, C. N., Jensen, Lars Juhl, Jessen, N., Bruun, Jens Meldgaard, Dela, Flemming & Helge, Jørn Wulff, Mar 2017, In : Obesity. 25, 3, p. 572-580 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  208. Published

    Compass: A hybrid method for clinical and biobank data mining

    Krysiak-Baltyn, K., Nordahl Petersen, T., Audouze, K. M. L., Jørgensen, N., Ängquist, Lars & Brunak, Søren, Feb 2014, In : Journal of Biomedical Informatics. 47, p. 160-170

    Research output: Contribution to journalJournal articleResearchpeer-review

  209. Published

    Large-scale prediction of drug-target relationships

    Kuhn, M., Campillos, M., González, P., Jensen, Lars Juhl & Bork, P., 2008, In : F E B S Letters. 582, 8, p. 1283-90 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  210. Published

    STITCH 2: an interaction network database for small molecules and proteins

    Kuhn, M., Szklarczyk, D., Franceschini, A., Campillos, M., von Mering, C., Jensen, Lars Juhl, Beyer, A. & Bork, P., 2010, In : Nucleic Acids Research. 38, Database issue, p. D552-6

    Research output: Contribution to journalJournal articleResearchpeer-review

  211. Published

    A side effect resource to capture phenotypic effects of drugs

    Kuhn, M., Campillos, M., Letunic, I., Jensen, Lars Juhl & Bork, P., 1 Jan 2010, In : Molecular Systems Biology. 6, p. 343

    Research output: Contribution to journalJournal articleResearchpeer-review

  212. Published

    STITCH 4: integration of protein-chemical interactions with user data

    Kuhn, M., Szklarczyk, D. M., Pletscher-Frankild, S., Blicher, T. H., von Mering, C., Jensen, Lars Juhl & Bork, P., 28 Nov 2013, In : Nucleic Acids Research. 42, D1, p. D401-D407 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  213. Published

    Systematic identification of proteins that elicit drug side effects

    Kuhn, M., Al Banchaabouchi, M., Campillos, M., Jensen, Lars Juhl, Gross, C., Gavin, A. & Bork, P., 30 Apr 2013, In : Molecular Systems Biology. 9, p. 663 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  214. Published

    The SIDER database of drugs and side effects

    Kuhn, M., Letunic, I., Jensen, Lars Juhl & Bork, P., 4 Jan 2016, In : Nucleic Acids Research. 44, p. D1075-9

    Research output: Contribution to journalJournal articleResearchpeer-review

  215. Published

    STITCH 3: zooming in on protein-chemical interactions

    Kuhn, M., Szklarczyk, D., Franceschini, A., von Mering, C., Jensen, Lars Juhl & Bork, P., 2012, In : Nucleic Acids Research. 40, Database issue, p. D876-80

    Research output: Contribution to journalJournal articleResearchpeer-review

  216. Published

    Incorporating symptom data in longitudinal disease trajectories for more detailed patient stratification

    Lademann, M., zmw894, zmw894, Boeck Jensen, A. & Brunak, Søren, 2019, In : International Journal of Medical Informatics. 129, p. 107-113 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  217. Published

    Variability in the incidence of miRNAs and genes in fragile sites and the role of repeats and CpG islands in the distribution of genetic material

    Laganà, A., Russo, Francesco, Sismeiro, C., Giugno, R., Pulvirenti, A. & Ferro, A., 11 Aug 2010, In : PLoS ONE. 5, 6, e11166.

    Research output: Contribution to journalJournal articleResearchpeer-review

  218. Published

    Computational design of artificial RNA molecules for gene regulation

    Laganà, A., Veneziano, D., Russo, Francesco, Pulvirenti, A., Giugno, R., Croce, C. M. & Ferro, A., 10 Jan 2015, RNA Bioinformatics. Springer New York LLC, p. 393-412 20 p.

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  219. Published

    Extracellular circulating viral microRNAs: Current knowledge and perspectives

    Laganà, A., Russo, Francesco, Veneziano, D., Bella, S. D., Giugno, R., Pulvirenti, A., Croce, C. M. & Ferro, A., 11 Sep 2013, In : Frontiers in Genetics. 4, JUN, Article 120.

    Research output: Contribution to journalReviewResearchpeer-review

  220. Published

    MiR-EdiTar: A database of predicted A-to-I edited miRNA target sites

    Laganà, A., Paone, A., Veneziano, D., Cascione, L., Gasparini, P., Carasi, S., Russo, Francesco, Nigita, G., MacCa, V., Giugno, R., Pulvirenti, A., Shasha, D., Ferro, A. & Croce, C. M., 1 Dec 2012, In : Bioinformatics. 28, 23, p. 3166-3168 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  221. Published

    Computational design of artificial RNA molecules for gene regulation

    Laganà, A., Veneziano, D., Russo, Francesco, Pulvirenti, A., Giugno, R., Croce, C. M. & Ferro, A., 1 Jan 2015, In : Methods in Molecular Biology. 1269, p. 393-410 18 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  222. Published

    Prediction of human targets for viral-encoded microRNAs by thermodynamics and empirical constraints

    Laganá, A., Forte, S., Russo, Francesco, Giugno, R., Pulvirenti, A. & Ferro, A., 2010, In : Journal of RNAi and Gene Silencing.

    Research output: Contribution to journalJournal articleResearchpeer-review

  223. Published

    Suppression of water as a nucleophile in Candida antarctica lipase B catalysis

    Larsen, M. W., Zielinska, D. F., Martinelle, M., Hidalgo, A., Jensen, Lars Juhl, Bornscheuer, U. T. & Hult, K., 12 Apr 2010, In : ChemBioChem. 11, 6, p. 796-801 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  224. Published

    Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

    Buch-Larsen, Sara Charlotte, Sylvestersen, K. B., Mund, Andreas, Lyon, D., Mullari, Meeli, Vistrup-Parry, Maria, Daniel, J. A., Jensen, Lars Juhl & Nielsen, Michael Lund, 30 Aug 2016, In : Science signaling. 9, 443, 14 p., rs9.

    Research output: Contribution to journalJournal articleResearchpeer-review

  225. Published

    Systems-wide Analysis of Serine ADP-Ribosylation Reveals Widespread Occurrence and Site-Specific Overlap with Phosphorylation

    Buch-Larsen, Sara Charlotte, Hendriks, Ivo Alexander, Lyon, D., Jensen, Lars Juhl & Nielsen, Michael Lund, 2018, In : Cell Reports. 24, 9, p. 2493-2505

    Research output: Contribution to journalJournal articleResearchpeer-review

  226. Published

    Visualize omics data on networks with Omics Visualizer, a Cytoscape App

    Legeay, Marc, Doncheva, Nadezhda Tsankova, Morris, J. H. & Jensen, Lars Juhl, 2020, In : F1000Research. 9, 1 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  227. Published

    Adverse outcome pathways: opportunities, limitations and open questions

    Leist, M., Ghallab, A., Graepel, R., Marchan, R., Hassan, R., Bennekou, S. H., Limonciel, A., Vinken, M., Schildknecht, S., Waldmann, T., Danen, E., van Ravenzwaay, B., Kamp, H., Gardner, I., Godoy, P., Bois, F. Y., Braeuning, A., Reif, R., Oesch, F., Drasdo, D., Höhme, S., Schwarz, M., Hartung, T., Braunbeck, T., Beltman, J., Vrieling, H., Sanz, F., Forsby, A., Gadaleta, D., Fisher, C., Kelm, J., Fluri, D., Ecker, G., Zdrazil, B., Terron, A., Jennings, P., van der Burg, B., Dooley, S., Meijer, A. H., Willighagen, E., Martens, M., Evelo, C., Mombelli, E., Taboureau, Olivier Thierry, Mantovani, A., Hardy, B., Koch, B., Escher, S., van Thriel, C., Cadenas, C., Kroese, D., van de Water, B. & Hengstler, J. G., Nov 2017, In : Archives of Toxicology. 91, 11, p. 3477-3505 29 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  228. Published

    Top-Down and Intact Protein Mass Spectrometry Data Visualization for Proteoform Analysis Using VisioProt-MS

    Lesne, J., Bousquet, M., Marcoux, J. & Locard-Paulet, Marie, 2019, In : Bioinformatics and Biology Insights. 13, 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  229. Published

    Ibuprofen is deleterious for the development of first trimester human fetal ovary ex vivo

    Leverrier-Penna, S., Mitchell, R. T., Becker, E., Lecante, L., Ben Maamar, M., Homer, N., Lavoue, V., Kristensen, D. M., Dejucq-Rainsford, N., Jegou, B. & Mazaud-Guittot, S., 2018, In : Human Reproduction. 33, 3, p. 482-493

    Research output: Contribution to journalJournal articleResearchpeer-review

  230. Published

    A scored human protein-protein interaction network to catalyze genomic interpretation

    Li, T., Wernersson, R., Hansen, R. B., Horn, H., Mercer, J., Slodkowicz, G., Workman, C. T., Rigina, O., Rapacki, K., Stærfeldt, H. H., Brunak, Søren, Jensen, T. S. & Hansen, K. L., Jan 2017, In : Nature Methods. 14, 1, p. 61–64

    Research output: Contribution to journalLetterResearchpeer-review

  231. Published

    Drug target ontology to classify and integrate drug discovery data

    Lin, Y., Mehta, S., Küçük-McGinty, H., Turner, J. P., Vidovic, D., Forlin, M., Koleti, A., Nguyen, D., Jensen, Lars Juhl, Guha, R., Mathias, S. L., Ursu, O., Stathias, V., Duan, J., Nabizadeh, N., Chung, C., Mader, C., Visser, U., Yang, J. J., Bologa, C. G., Oprea, T. I. & Schürer, S. C., 9 Nov 2017, In : Journal of Biomedical Semantics. 8, 1, 16 p., 50.

    Research output: Contribution to journalJournal articleResearchpeer-review

  232. Published

    Comparing 22 Popular Phosphoproteomics Pipelines for Peptide Identification and Site Localization

    Locard-Paulet, Marie, Bouyssié, D., Froment, C., Burlet-Schiltz, O. & Jensen, Lars Juhl, 6 Mar 2020, In : Journal of Proteome Research. 19, 3, p. 1338-1345 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  233. Published

    Congenital diaphragmatic hernia interval on chromosome 8p23.1 characterized by genetics and protein interaction networks

    Longoni, M., Hansen, K. L., Russell, M. K., Loscertales, M., Abdul-Rahman, O. A., Baynam, G., Bleyl, S. B., Brady, P. D., Breckpot, J., Chen, C. P., Devriendt, K., Gillessen-Kaesbach, G., Grix, A. W., Rope, A. F., Shimokawa, O., Strauss, B., Wieczorek, D., Zackai, E. H., Coletti, C. M., Maalouf, F. I., Noonan, K. M., Park, J. H., Tracy, A. A., Lee, C., Donahoe, P. K. & Pober, B. R., Dec 2012, In : American Journal of Medical Genetics. Part A. 158A, 12, p. 3148-58 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  234. Published

    Comparison of global gene expression profiles of microdissected human foetal Leydig cells with their normal and hyperplastic adult equivalents

    Lottrup, G., Belling, Kirstine G, Leffers, H., Nielsen, J. E., Dalgaard, M. D., Juul, Anders, Skakkebæk, Niels Erik, Brunak, Søren & Meyts, E. R., 1 May 2017, In : Molecular Human Reproduction. 23, 5, p. 339-354 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  235. Published

    Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response

    Lucchetta, M., da Piedade, I., Mounir, M., Vabistsevits, M., Terkelsen, T. & Papaleo, Elena, 2019, In : BMC Cancer. 19, 824.

    Research output: Contribution to journalJournal articleResearchpeer-review

  236. Published

    Annotation of loci from genome-wide association studies using tissue-specific quantitative interaction proteomics

    Lundby, Alicia, Rossin, E. J., Steffensen, Annette Buur, Acha, M. R., Newton-Cheh, C., Pfeufer, A., Lynch, S. N., Olesen, Søren-Peter, Brunak, Søren, Ellinor, P. T., Jukema, J. W., Trompet, S., Ford, I., Macfarlane, P. W., Krijthe, B. P., Hofman, A., Uitterlinden, A. G., Stricker, B. H., Nathoe, H. M., Spiering, W., Daly, M. J., Asselbergs, F. W., van der Harst, P., Milan, D. J., de Bakker, P. I. W., Hansen, K. L., Olsen, Jesper Velgaard & The QT Interval International GWAS Consortium (QT-IGC), T. Q. I. I. G. C. (., 22 Jun 2014, In : Nature Methods. 11, 8, p. 868-874 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  237. Published

    Oncogenic Mutations Rewire Signaling Pathways by Switching Protein Recruitment to Phosphotyrosine Sites

    Lundby, Alicia, Franciosa, Giulia, Emdal, Kristina Bennet, Refsgaard, J. C., Gnosa, Sebastian Peter, Bekker-Jensen, D. B., Secher, A., Maurya, S. R., Paul, I., Mendez, B. L., Kelstrup, C. D., Francavilla, C., Kveiborg, Marie, Montoya, Guillermo, Jensen, Lars Juhl & Olsen, Jesper Velgaard, 2019, In : Cell. 179, 2, p. 543-560

    Research output: Contribution to journalJournal articleResearchpeer-review

  238. Published

    In Vivo Phosphoproteomics Analysis Reveals the Cardiac Targets of β-Adrenergic Receptor Signaling

    Lundby, Alicia, Andersen, M. N., Steffensen, Annette Buur, Horn, H., Kelstrup, C. D., Francavilla, C., Jensen, Lars Juhl, Schmitt, Nicole, Thomsen, Morten Bækgaard & Olsen, Jesper Velgaard, 4 Jun 2013, In : Science Signaling. 6, 278, p. rs11 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  239. Published

    Structure-based discovery of novel US28 small molecule ligands with different modes of action

    Lückmann, Michael, Amarandi, R., Papargyri, N., Jakobsen, M. H., Ulven, Elisabeth Rexen, Jensen, Lars Juhl, Pui, A., Schwartz, Thue W., Rosenkilde, Mette & Frimurer, Thomas Michael, 2017, In : Chemical Biology & Drug Design. 89, 3, p. 289–296

    Research output: Contribution to journalJournal articleResearchpeer-review

  240. Published

    Molecular dynamics-guided discovery of an ago-allosteric modulator for GPR40/FFAR1

    Lückmann, Michael, Trauelsen, Mette, Bentsen, Marie Aare, Nissen, Tinne Amalie Damgaard, Martins, J., Fallah, Z., Nygaard, Mads Mørup, Papaleo, Elena, Lindorff-Larsen, Kresten, Schwartz, Thue W. & Frimurer, Thomas Michael, 2 Apr 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 14, p. 7123-7128

    Research output: Contribution to journalJournal articleResearchpeer-review

  241. Published

    A genomic history of aboriginal Australia

    Malaspinas, A. S., Westaway, M. C., Muller, C. E., Sousa, V. C., Lao, O., Alves, I., Bergström, A., Athanasiadis, G., Cheng, J. Y., Crawford, J. E., Heupink, T. H., Macholdt, E., Peischl, S., Rasmussen, Simon, Schiffels, S., Subramanian, S., Wright, J. L., Albrechtsen, Anders, Barbieri, C., Dupanloup, I., Eriksson, A., Margaryan, Ashot, Moltke, Ida, Pugach, I., Korneliussen, Thorfinn Sand, Levkivskyi, I. P., Moreno Mayar, José Victor, Ni, S., Racimo, F., Sikora, Martin, Xue, Y., Aghakhanian, F. A., Brucato, N., Brunak, Søren, Campos, P., Clark, W., Ellingvåg, S., Fourmile, G., Gerbault, P., Injie, D., Koki, G., Leavesley, M., Logan, B., Lynch, A., Matisoo-Smith, E. A., McAllister, P. J., Mentzer, A. J., Metspalu, M., Migliano, A. B., Murgha, L., Phipps, M. E., Pomat, W., Reynolds, D., Ricaut, F., Siba, P., Thomas, M. G., Wales, T., Wall, C. M., Oppenheimer, S. J., Tyler-Smith, C., Durbin, R., Dortch, J., Manica, A., Schierup, M. H., Foley, R. A., Lahr, M. M., Bowern, C., Wall, J. D., Mailund, T., Stoneking, M., Nielsen, Rasmus, Sandhu, M. S., Excoffier, L., Lambert, D. M. & Willerslev, Eske, 2016, In : Nature. 538, 7624, p. 207-214 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  242. Published

    Identification of BRAF 3'UTR isoforms in melanoma

    Marranci, A., Tuccoli, A., Vitiello, M., Mercoledi, E., Sarti, S., Lubrano, S., Evangelista, M., Fogli, A., Valdes, C., Russo, Francesco, Dal Monte, M., Caligo, M. A., Pellegrini, M., Capobianco, E., Tsinoremas, N. & Poliseno, L., 1 Jan 2015, In : Journal of Investigative Dermatology. 135, 6, p. 1694-1697 4 p.

    Research output: Contribution to journalLetterResearchpeer-review

  243. Published

    Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios

    Matey-Hernandez, M. L., Danish Pan Genome Consortium, D. P. G. C., Brunak, Søren, Izarzugaza, J. M. G., Sørensen, L. M., Petersen, Bent, Sibbesen, J. A., Liu, S., Belling, Kirstine G, Have, C. T., Bork-Jensen, J., Sun, J., Hansen, Torben, Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Wang, J., Eiberg, Hans Rudolf Lytchoff & Kristiansen, Karsten, 2018, In : BMC Bioinformatics. 19, p. 1-12 239.

    Research output: Contribution to journalJournal articleResearchpeer-review

  244. Published

    RNAscClust: Clustering RNA sequences using structure conservation and graph based motifs

    Miladi, M., Junge, A., Costa, F., Seemann, Ernst Stefan, Havgaard, Jakob Hull, Gorodkin, Jan & Backofen, R., 2017, In : Bioinformatics. 33, 14, p. 2089-2096 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  245. Published

    Linear motif atlas for phosphorylation-dependent signaling

    Miller, M. L., Jensen, Lars Juhl, Diella, F., Jørgensen, Claus Bøttcher, Tinti, M., Li, L., Hsiung, M., Parker, S. A., Bordeaux, J., Sicheritz-Ponten, T., Olhovsky, M., Pasculescu, A., Alexander, J., Knapp, S., Blom, N., Bork, P., Li, S., Cesareni, G., Pawson, T., Turk, B. E., Yaffe, M. B., Brunak, Søren & Linding, R., 2008, In : Science signaling. 1, 35, p. ra2

    Research output: Contribution to journalJournal articleResearchpeer-review

  246. Published

    Mutations in FGF17, IL17RD, DUSP6, SPRY4, and FLRT3 are identified in individuals with congenital hypogonadotropic hypogonadism

    Miraoui, H., Dwyer, A. A., Hughes, V. A., Sidis, Y., Pitteloud, N., Sykiotis, G. P., Plummer, L., Feng, B., Keefe, K., Crowley Jr., W. F., Seminara, S. B., Hall, J. E., Chung, W., Tsai, P., Beenken, A., Mohammadi, M., Clarke, J., Rubenstein, J., Pers, T. H., Dworzynski, P., Hansen, K. L., Niedziela, M., Raivio, T., Quinton, R., Kumanov, P., Young, J. F., Yialamas, M. A., Van Vliet, G. & Chanoine, J., 2 May 2013, In : American Journal of Human Genetics. 92, 5, p. 725-743 19 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  247. Published

    Modulation of constitutive activity and signaling bias of the ghrelin receptor by conformational constraint in the second extracellular loop

    Mokrosinski, J., Frimurer, Thomas Michael, Sivertsen, B., Schwartz, Thue W. & Holst, Birgitte, Sep 2012, In : Journal of Biological Chemistry. 287, p. 33488-33502 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  248. Published

    Binding Mode of a Novel MPEP-Derived Metabotropic Glutamate Receptor Subtype 5 (mGluR5) NAM, 1,3-Bis(pyridin-2-ylethynyl)Benzene

    Molck, C., Harpsøe, Kasper, Gloriam, David E., Kaae, B. H., Jimenez, H. N., Uberti, M. A., Topiol, S., Clausen, Rasmus Prætorius, Madsen, Ulf, Nielsen, S. M., Mathiesen, Jesper M. & Bräuner-Osborne, Hans, Sep 2011, In : Current Neuropharmacology. 9, p. 43-43

    Research output: Contribution to journalConference abstract in journalResearch

  249. Published

    Propionibacterium acnes: disease-causing agent or common contaminant? Detection in diverse patient samples by next-generation sequencing

    Mollerup, S., Friis-Nielsen, J., Vinner, Lasse, Hansen, T. A., Richter, S. R., Fridholm, E. M. H., Herrera, J. A. R., Lund, O., Brunak, Søren, Izarzugaza, J. M. G., Mourier, T., Nielsen, L. P. & Hansen, Anders Johannes, 2016, In : Journal of Clinical Microbiology. 54, 4, p. 980-987 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  250. Published

    Cutavirus in cutaneous malignant melanoma

    Mollerup, S., Fridholm, E. M. H., Vinner, Lasse, Kjartansdóttir, K. R., Friis-Nielsen, J., Asplund, M., Romero Herrera, Jose Alejandro, Steiniche, T., Mourier, T., Brunak, Søren, Willerslev, Eske, Izarzugaza, J. M. G., Hansen, Anders Johannes & Nielsen, L. P., Feb 2017, In : Emerging Infectious Diseases . 23, 2, p. 363-365 3 p.

    Research output: Contribution to journalLetterResearchpeer-review

  251. Published

    High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach

    Mollerup, S., Asplund, M., Friis-Nielsen, J., Kjartansdóttir, K. R., Fridholm, H., Hansen, T. A., Romero Herrera, Jose Alejandro, Barnes, Christopher James, Jensen, R. H., Richter, S. R., Nielsen, Ida Broman, Pietroni, C., Alquezar-Planas, D. E., Rey de la Iglesia, Alba, Olsen, Pernille Vibeke Selmer, Rajpert-De Meyts, E., Groth-Pedersen, L., von Buchwald, Christian, Jensen, D. H., Gniadecki, R., Høgdall, Estrid Vilma Solyom, Langhoff, J. L., Pete, I., Vereczkey, I., Baranyai, Z., Dybkaer, K., Johnsen, H. E., Steiniche, T., Hokland, P., Rosenberg, Jacob, Baandrup, U., Sicheritz-Pontén, Thomas, Willerslev, Eske, Brunak, Søren, Lund, O., Mourier, T., Vinner, Lasse, Izarzugaza, J. M. G., Nielsen, L. P. & Hansen, Anders Johannes, 15 Oct 2019, In : The Journal of Infectious Diseases. 220, 8, p. 1312-1324

    Research output: Contribution to journalJournal articleResearchpeer-review

  252. Published

    Identifying Sepsis Phenotypes

    Moseley, Pope Lloyd & Brunak, Søren, 2019, In : J A M A: The Journal of the American Medical Association. 322, 14, p. 1416-1417 2 p.

    Research output: Contribution to journalComment/debateResearch

  253. Published

    New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

    Mounir, M., Lucchetta, M., Silva, T. C., Olsen, C., Bontempi, G., Chen, X., Noushmehr, H., Colaprico, A. & Papaleo, Elena, 2019, In : PLOS Computational Biology. 15, 3, 18 p., e1006701.

    Research output: Contribution to journalJournal articleResearchpeer-review

  254. Published

    Specifying RNA-Binding Regions in Proteins by Peptide Cross-Linking and Affinity Purification

    Mullari, Meeli, Lyon, D., Jensen, Lars Juhl & Nielsen, Michael Lund, 2017, In : Journal of Proteome Research. 16, 8, p. 2762-2772 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  255. Published

    eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations

    Muller, J., Szklarczyk, D., Julien, P., Letunic, I., Roth, A., Kuhn, M., Powell, S., von Mering, C., Doerks, T., Jensen, Lars Juhl & Bork, P., 1 Jan 2010, In : Nucleic Acids Symposium Series. 38, Database issue, p. D190-5

    Research output: Contribution to journalJournal articleResearchpeer-review

  256. Published

    From Phosphosites to Kinases

    Munk, S., Refsgaard, J. C., Olsen, Jesper Velgaard & Jensen, Lars Juhl, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer, Vol. 1355. p. 307-21 15 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  257. Published

    Pharmacological characterization and modeling of the binding sites of novel 1,3-bis(pyridinylethynyl)benzenes as metabotropic glutamate receptor 5-selective negative allosteric modulators

    Mølck, C., Harpsøe, Kasper, Gloriam, David E., Clausen, Rasmus Prætorius, Madsen, Ulf, Pedersen, L., Jimenez, H. N., Nielsen, S. M., Mathiesen, Jesper M. & Bräuner-Osborne, Hans, 2012, In : Molecular Pharmacology. 82, 5, p. 929-37 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  258. Published

    mGluR5: Exploration of Orthosteric and Allosteric Ligand Binding Pockets and Their Applications to Drug Discovery

    Mølck, C., Harpsøe, Kasper, Gloriam, David E., Mathiesen, Jesper M., Nielsen, S. M. & Bräuner-Osborne, Hans, Oct 2014, In : Neurochemical Research. 39, 10, p. 1862-1875 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  259. Published

    Association studies of genetic scores of serum vitamin B12 and folate levels with symptoms of depression and anxiety in two danish population studies

    Møllehave, L. T., Skaaby, T., Simonsen, K. S., Thuesen, B. H., Mortensen, Erik Lykke, Sandholt, C. H., Pedersen, Oluf Borbye, Grarup, Niels, Hansen, Torben & Linneberg, Allan René, 2017, In : European Journal of Clinical Nutrition. 71, p. 1054-1060 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  260. Published

    Protein-driven inference of miRNA-disease associations

    Mørk, S., Pletscher-Frankild, S., Palleja, A., Gorodkin, Jan & Jensen, Lars Juhl, 2014, In : Bioinformatics (Oxford, England). 30, 3, p. 392-397 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  261. Published

    Pharos: Collating protein information to shed light on the druggable genome

    Nguyen, D., Mathias, S., Bologa, C., Brunak, Søren, Fernandez, N., Gaulton, A., Hersey, A., Holmes, J., Jensen, Lars Juhl, Karlsson, A., Liu, G., Ma'ayan, A., Mandava, G., Mani, S., Mehta, S., Overington, J., Patel, J., Rouillard, A. D., Schürer, S., Sheils, T., Simeonov, A., Sklar, L. A., Southall, N., Ursu, O., Vidovic, D., Waller, A., Yang, J., Jadhav, A., Oprea, T. I. & Guha, R., Jan 2017, In : Nucleic Acids Research. 45, D1, p. D995–D1002

    Research output: Contribution to journalJournal articleResearchpeer-review

  262. Published

    Assessment and Challenges of Ligand Docking into Comparative Models of G-Protein Coupled Receptors

    Nguyen, E. D., Meiler, J., Norn, Christoffer & Frimurer, Thomas Michael, 2 Jul 2013, In : PLOS ONE. 8, 7, p. e67302 19 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  263. Published

    Selective use of corifollitropin for controlled ovarian stimulation for IVF in patients with low anti-Müllerian hormone

    Nielsen, Anna Pors, Korsholm, A., Lemmen, J. G., Lykke-Sylvest, Randi, Sopa, N. & Andersen, Anders Nyboe, 18 Feb 2016, In : Gynecological Endocrinology. 32, 8, p. 625–628 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  264. Published

    Survival prediction in intensive-care units based on aggregation of long-term disease history and acute physiology: a retrospective study of the Danish National Patient Registry and electronic patient records

    Nielsen, Annelaura Bach, Thorsen-Meyer, H. C., Belling, Kirstine G, Nielsen, Anna Pors, Thomas, C. E., Chmura, Piotr Jaroslaw, Lademann, M., Moseley, Pope Lloyd, Heimann, M., Dybdahl, L., Spangsege, L., Hulsen, P., Perner, Anders & Brunak, Søren, 2019, In : The Lancet Digital Health. 1, 2, p. e78-e89 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  265. Published

    A Brief History of Protein Sorting Prediction

    Nielsen, H., Tsirigos, Konstantinos, Brunak, Søren & von Heijne, G., 2019, In : The Protein Journal. 38, 3, p. 200-216 17 p.

    Research output: Contribution to journalReviewResearchpeer-review

  266. Published

    Herpes Simplex Virus Type 1 infection is associated with suicidal behavior and first registered psychiatric diagnosis in a healthy population

    Nissen, J., Trabjerg, B., Pedersen, M. G., Banasik, Karina, Pedersen, Ole Birger Vesterager, Sørensen, E., Nielsen, K. R., Erikstrup, C., Petersen, M. S., Paarup, H. M., Bruun-Rasmussen, P., Westergaard, David, Hansen, Thomas Folkmann, Pedersen, C. B., Werge, Thomas, Torrey, F., Hjalgrim, H., Mortensen, P. B., Yolken, R., Brunak, Søren, Ullum, Henrik & Burgdorf, K. S., Oct 2019, In : Psychoneuroendocrinology. 108, p. 150-154

    Research output: Contribution to journalJournal articleResearchpeer-review

  267. Published

    Roadmap for a precision-medicine initiative in the Nordic region

    Njølstad, P. R., Andreassen, O. A., Brunak, Søren, Børglum, A. D., Dillner, J., Esko, T., Franks, P. W., Freimer, N., Groop, L., Heimer, H., Hougaard, D. M., Hovig, E., Hveem, K., Jalanko, A., Kaprio, J., Knudsen, G. P., Melbye, Mads, Metspalu, A., Mortensen, P. B., Palmgren, J., Palotie, A., Reed, W., Stefánsson, H., Stitziel, N. O., Sullivan, P. F., Thorsteinsdóttir, U., Vaudel, M., Vuorio, E., Werge, Thomas, Stoltenberg, C. & Stefánsson, K., 2019, In : Nature Genetics. 51, p. 924-930

    Research output: Contribution to journalComment/debateResearch

  268. Published

    Immunity and mental illness: findings from a Danish population-based immunogenetic study of seven psychiatric and neurodevelopmental disorders

    Nudel, R., Benros, M. E., Krebs, M. D., Allesøe, R. L., Lemvigh, C. K., Bybjerg-Grauholm, J., Børglum, A. D., Daly, M. J., Nordentoft, Merete, Mors, O., Hougaard, D. M., Mortensen, P. B., Buil, A., Werge, Thomas, Rasmussen, Simon & Thompson, W. K., 2019, In : European Journal of Human Genetics. 27, p. 1445-1455

    Research output: Contribution to journalJournal articleResearchpeer-review

  269. Published

    Reflect: a practical approach to web semantics

    O'Donoghue, S. I., Horn, H., Pafilisa, E., Haag, S., Kuhn, M., Satagopam, V. P., Schneider, R. & Jensen, Lars Juhl, Jul 2010, In : Journal of Web Semantics. 8, 2-3, p. 182-189

    Research output: Contribution to journalJournal articleResearchpeer-review

  270. Published

    Persons who have never had a headache. Socio-demographic characteristics

    Olofsson, I. A., Erikstrup, C., Sørensen, E., Paarup, H. M., Mathiasen, H. P., Hjalmgrim, H., Banasik, Karina, Nielsen, K. R., Burgdorf, K. S., Pedersen, Ole Birger Vesterager, Ullum, Henrik, Olesen, Jes & Hansen, Thomas Folkmann, 2019, In : Cephalalgia. 39, 1, suppl., p. 88-89 1 p.

    Research output: Contribution to journalConference abstract in journalResearchpeer-review

  271. Published

    Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

    Olsen, Jesper Velgaard, Vermeulen, M., Santamaria, A., Kumar, C., Miller, M. L., Jensen, Lars Juhl, Gnad, F., Cox, J., Jensen, T. S., Nigg, E. A., Brunak, Søren & Mann, Matthias, 2010, In : Science Signaling. 3, 104, p. ra3 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  272. Published

    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, Ole, Reinherz, E. L., Zhang, G. L. & Brusic, V., 2015, In : B M C Medical Genomics. 8, Suppl 4, 6 p., 5.

    Research output: Contribution to journalJournal articleResearchpeer-review

  273. Published

    Unexplored therapeutic opportunities in the human genome

    Oprea, T. I., Bologa, C. G., Brunak, Søren, Campbell, A., Gan, G. N., Gaulton, A., Gomez, S. M., Guha, R., Hersey, A., Holmes, J., Jadhav, A., Jensen, Lars Juhl, Johnson, G. L., Karlson, A., Leach, A. R., Ma'ayan, A., Malovannaya, A., Mani, S., Mathias, S. L., McManus, M. T., Meehan, T. F., von Mering, C., Muthas, D., Nguyen, D., Overington, J. P., Papadatos, G., Qin, J., Reich, C., Roth, B. L., Schürer, S. C., Simeonov, A., Sklar, L. A., Southall, N., Tomita, S., Tudose, I., Ursu, O., Vidovic, D., Waller, A., Westergaard, David, Yang, J. J. & Zahoránszky-Köhalmi, G., 2018, In : Nature Reviews. Drug Discovery. 17, 5, p. 317-332 16 p.

    Research output: Contribution to journalReviewResearchpeer-review

  274. Published

    Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

    Orlando, L. A. A., Ginolhac, A., Zhang, G., Froese, D., Albrechtsen, Anders, Stiller, M., Schubert, M., Cappellini, Enrico, Petersen, Bent, Moltke, Ida, Johnson, P. L. F., Fumagalli, M., Mouatt, J. T. V., Raghavan, M., Korneliussen, Thorfinn Sand, Malaspinas, A. S., Vogt, J., Szklarczyk, D. M., Kelstrup, C., Vinther, J., Dolocan, A., Stenderup, J., Velazquez, A. M. V., Cahill, J., Rasmussen, M., Wang, X., Min, J., Zazula, G. D., Seguin-Orlando, A., Mortensen, C., Magnussen, K., Thompson, J. F., Weinstock, J., Gregersen, K., Røed, K. H., Eisenmann, V., Rubin, C. J., Miller, D. C., Antczak, D. F., Bertelsen, M. F., Brunak, S., Al-Rasheid, K. A. S., Ryder, O., Andersson, L., Mundy, J., Krogh, Anders, Gilbert, M Thomas P, Kjær, Kurt H., Sicheritz-Pontén, T., Jensen, Lars Juhl, Olsen, Jesper Velgaard, Hofreiter, M., Nielsen, R., Shapiro, B., Wang, J. & Willerslev, Eske, 4 Jul 2013, In : Nature. 499, 7456, p. 74-78 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  275. Published

    In Silico Systems Pharmacology to Assess Drug's Therapeutic and Toxic Effects

    Aguayo Orozco, Alejandro, Audouze, K., Brunak, Søren & Taboureau, Olivier Thierry, 2016, In : Current Pharmaceutical Design. 22, 46, p. 6895-6902 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  276. Published

    ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life

    Pafilis, E., Pletscher-Frankild, S., Schnetzer, J., Fanini, L., Faulwetter, S., Pavloudi, C., Vasileiadou, K., Leary, P., Hammock, J., Schulz, K., Parr, C. S., Arvanitidis, C. & Jensen, Lars Juhl, 2015, In : Bioinformatics. 31, 11, p. 1872-1874

    Research output: Contribution to journalJournal articleResearchpeer-review

  277. Published

    The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text

    Pafilis, E., Pletscher-Frankild, S., Fanini, L., Faulwetter, S., Pavloudi, C., Vasileiadou, A., Arvanitidis, C. & Jensen, Lars Juhl, 18 Jun 2013, In : PloS one. 8, 6, p. e65390

    Research output: Contribution to journalJournal articleResearchpeer-review

  278. Published

    Reflect: augmented browsing for the life scientist

    Pafilis, E., O'Donoghue, S. I., Jensen, Lars Juhl, Horn, H., Kuhn, M., Brown, N. P. & Schneider, R., 2009, In : Nature Biotechnology. 27, 6, p. 508-10 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  279. Published

    EXTRACT: interactive extraction of environment metadata and term suggestion for metagenomic sample annotation

    Pafilis, E., Buttigieg, P. L., Ferrell, B., Pereira, E., Schnetzer, J., Arvanitidis, C. & Jensen, Lars Juhl, 2016, In : Database. 2016, 7 p., baw005.

    Research output: Contribution to journalJournal articleResearchpeer-review

  280. Published

    TISSUES 2.0: an integrative web resource on mammalian tissue expression

    Palasca, O., Santos, A., Stolte, C., Gorodkin, Jan & Jensen, Lars Juhl, 2018, In : Database. 2018, 1, p. 1-12

    Research output: Contribution to journalJournal articleResearchpeer-review

  281. Published

    Roux-en-Y gastric bypass surgery of morbidly obese patients induces swift and persistent changes of the individual gut microbiota

    Palleja, A., Kashani, A., Allin, Kristine Højgaard, Nielsen, Trine, Zhang, C., Li, Y., Brach, Thorsten, Liang, S., Feng, Q., Jørgensen, N. B., Bojsen-Møller, K. N., Dirksen, C., Burgdorf, K. S., Holst, Jens Juul, Madsbad, Sten, Wang, J., Pedersen, Oluf Borbye, Hansen, Torben & Arumugam, Mani, 2016, In : Genome Medicine. 8, 13 p., 67.

    Research output: Contribution to journalJournal articleResearchpeer-review

  282. Published

    HOODS: finding context-specific neighborhoods of proteins, chemicals and diseases

    Palleja, A. & Jensen, Lars Juhl, 2015, In : PeerJ. 3, p. 1-10 10 p., e1057.

    Research output: Contribution to journalJournal articleResearchpeer-review

  283. Published

    Recovery of gut microbiota of healthy adults following antibiotic exposure

    Palleja, A., Mikkelsen, K. H., Forslund, S. K., Kashani, A., Allin, Kristine Højgaard, Nielsen, Trine, Hansen, Tue Haldor, Liang, S., Feng, Q., Zhang, C., Pyl, P. T., Coelho, L. P., Yang, H., Wang, J., Typas, A., Nielsen, M. F., Nielsen, H. B., Bork, P., Wang, J., Vilsbøll, Tina, Hansen, Torben, Knop, Filip Krag, Arumugam, Mani & Pedersen, Oluf Borbye, Nov 2018, In : Nature Microbiology. 3, 11, p. 1255-1265 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  284. Published

    DistiLD Database: diseases and traits in linkage disequilibrium blocks

    Palleja, A., Horn, H., Eliasson, S. & Jensen, Lars Juhl, 2012, In : Nucleic Acids Research. 40, Database issue, p. D1036-40

    Research output: Contribution to journalJournal articleResearchpeer-review

  285. E-pub ahead of print

    Predicting protein-RNA interaction amino acids using random forest based on submodularity subset selection

    Pan, X., Zhu, L., Fan, Y. & Yan, J., 13 Nov 2014, In : Computational Biology and Chemistry. 53PB, p. 324-330 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  286. Published

    Inferring disease-associated long non-coding RNAs using genome - wide tissue expression profiles

    Pan, X., Jensen, Lars Juhl & Gorodkin, Jan, 2019, In : Bioinformatics. 35, 9, p. 1494-1502 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  287. Published

    Genome-wide identification of clusters of predicted microRNA binding sites as microRNA sponge candidates

    Pan, X., Wenzel, Anne, Jensen, Lars Juhl & Gorodkin, Jan, 2018, In : PLoS ONE. 13, 8, 15 p., e0202369.

    Research output: Contribution to journalJournal articleResearchpeer-review

  288. Published

    WebCircRNA: Classifying the Circular RNA Potential of Coding and Noncoding RNA.

    Pan, X., Xiong, K., Anthon, Christian, Hyttel, Poul, Freude, Kristine, Jensen, Lars Juhl & Gorodkin, Jan, 6 Nov 2018, In : Genes. 9, 11, 11 p., 536.

    Research output: Contribution to journalJournal articleResearchpeer-review

  289. Published

    ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization

    Pappalardo, F., Halling-Brown, M. D., Rapin, N., Zhang, P., Alemani, D., Emerson, A., Paci, P., Duroux, L. P., Pennisi, M., Palladini, A., Miotto, O., Churchill, D., Rossi, E., Shepherd, A. J., Moss, D. S., Castiglione, F., Bernaschi, M., Lefranc, M., Brunak, Søren, Motta, S., Lollini, P., Basford, K. E. & Brusic, V., 2009, In : Briefings in Bioinformatics. 10, 3, p. 330-40 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  290. Published

    BioStar: an online question & answer resource for the bioinformatics community

    Parnell, L. D., Lindenbaum, P., Shameer, K., Dall'Olio, G. M., Swan, D. C., Jensen, Lars Juhl, Cockell, S. J., Pedersen, B. S., Mangan, M. E., Miller, C. A. & Albert, I., 2011, In : P L o S Computational Biology (Online). 7, 10, p. e1002216

    Research output: Contribution to journalJournal articleResearchpeer-review

  291. Published

    Assessment of the analgesic dipyrone as a possible (anti) androgenic endocrine disruptor

    Passoni, M. T., Kristensen, Maja Nørgaard, Morais, R. N., Woitkowiak, C., Boareto, A. C., da Silva Amaral, B. A., Grechi, N., Dalsenter, P. R., Munkboel, C. H., Styrishave, Bjarne, Kristensen, D. M., Gomes, C., van Ravenzwaay, B. & Martino-Andrade, A. J., 15 Mar 2018, In : Toxicology Letters. 285, p. 139-147

    Research output: Contribution to journalJournal articleResearchpeer-review

  292. Published

    Impact of microRNA-130a on the neutrophil proteome

    Pedersen, C. C., Refsgaard, J. C., Østergaard, Ole, Jensen, Lars Juhl, Heegaard, N. H. H., Borregaard, N. & Cowland, J. B., 25 Nov 2015, In : B M C Immunology. 16, 10 p., 70.

    Research output: Contribution to journalJournal articleResearchpeer-review

  293. Published

    Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes

    Pedersen, Helle Krogh, Gudmundsdottir, V. & Brunak, Søren, 2017, In : Frontiers in Genetics. 8, 43.

    Research output: Contribution to journalJournal articleResearchpeer-review

  294. Published

    Ranking factors involved in diabetes remission after bariatric surgery using machine-learning integrating clinical and genomic biomarkers

    Pedersen, Helle Krogh, Gudmundsdottir, V., Pedersen, M. K., Brorsson, C., Brunak, Søren & Gupta, R., 2016, In : npj Genomic Medicine. 1, 16035.

    Research output: Contribution to journalJournal articleResearchpeer-review

  295. Published

    A computational framework to integrate high-throughput "-omics" datasets for the identification of potential mechanistic links

    Pedersen, Helle Krogh, Forslund, S. K., Gudmundsdottir, V., Petersen, A. Ø., Hildebrand, F., Hyötyläinen, T., Nielsen, Trine, Hansen, Torben, Bork, P., Ehrlich, S. D., Brunak, Søren, Oresic, M., Pedersen, Oluf Borbye & Nielsen, H. B., 2018, In : Nature Protocols. 13, 12, p. 2781-2800 20 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  296. Published

    Human gut microbes impact host serum metabolome and insulin sensitivity

    Pedersen, H. K., Gudmundsdottir, V., Nielsen, H. B., Hyotylainen, T., Nielsen, Trine, Jensen, Benjamin Anderschou Holbech, Forslund, K., Hildebrand, F., Prifti, E., Falony, G., Le Chatelier, E., Levenez, F., Doré, J., Mattila, I., Plichta, D. R., Pöhö, P., Hellgren, L. I., Arumugam, Mani, Sunagawa, S., Vieira-Silva, S., Jørgensen, T., Holm, J. B., Trošt, K., Kristiansen, Karsten, Brix, Susanne, Raes, J., Wang, J., Hansen, Torben, Bork, P., Brunak, Søren, Oresic, M., Ehrlich, S. D., Pedersen, Oluf Borbye & MetaHIT Consortium, M. C., 2016, In : Nature. 535, 7612, p. 376-381 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  297. Published

    MetaRanker 2.0: a web server for prioritization of genetic variation data

    Pers, T. H., Dworzynski, P., Thomas, C. E., Hansen, K. L. & Brunak, Søren, 1 Jul 2013, In : Nucleic Acids Research. 41, W1, p. W104-W108

    Research output: Contribution to journalJournal articleResearchpeer-review

  298. Published

    Meta-analysis of heterogeneous data sources for genome-scale identification of risk genes in complex phenotypes

    Pers, Tune H, Hansen, N. T., Hansen, K. L., Koefoed, P., Dworzynski, P., Miller, M. L., Flint, T. J., Mellerup, Erling Thyge, Dam, Henrik, Andreassen, O. A., Djurovic, S., Melle, I., Børglum, A. D., Werge, Thomas, Purcell, S., Ferreira, M. A., Kouskoumvekaki, I., Workman, C., Hansen, Torben, Mors, O. & Brunak, Søren, 11 Apr 2011, In : Genetic Epidemiology. 35, 5, p. 318-332 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  299. Published

    SignalP 4.0: discriminating signal peptides from transmembrane regions

    Petersen, T. N., Brunak, Søren, von Heijne, G. & Nielsen, H., 2011, In : Nature Methods. 8, 10, p. 785-6 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  300. Published

    Design, implementation, and operation of a rapid, robust named entity recognition web service

    Pletscher-Frankild, S. & Jensen, Lars Juhl, 2019, In : Journal of Cheminformatics. 11, 6 p., 19.

    Research output: Contribution to journalJournal articleResearchpeer-review

  301. Published

    DISEASES: Text mining and data integration of disease-gene associations

    Pletscher-Frankild, S., Pallejà, A., Tsafou, K., Binder, J. X. & Jensen, Lars Juhl, Mar 2015, In : Methods. 74, p. 83-9 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  302. Published

    Transcriptional interactions suggest niche segregation among microorganisms in the human gut

    Plichta, D. R., Juncker, A. S., Bertalan, M., Rettedal, E., Gautier, L., Varela, E., Manichanh, C., Fouqueray, C., Levenez, F., Nielsen, Trine, Doré, J., Machado, A. M. D., de Evgrafov, M. C. R., Hansen, Torben, Jørgensen, T., Bork, P., Guarner, F., Pedersen, Oluf Borbye, Metagenomics of the Human Intestinal Tract (MetaHIT) Consortium, M. O. T. H. I. T. (. C., Sommer, M. O. A., Ehrlich, S. D., Sicheritz-Pontén, T., Brunak, Søren & Nielsen, H. B., 26 Aug 2016, In : Nature Microbiology. 1, p. 1-6 6 p., 16152.

    Research output: Contribution to journalLetterResearchpeer-review

  303. Published

    KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

    Pons, T., Vazquez, M., Matey-Hernandez, M. L., Brunak, Søren, Valencia, A. & Izarzugaza, J. M., 23 Jun 2016, In : BMC Genomics. 17, Suppl 2, 11 p., 396.

    Research output: Contribution to journalJournal articleResearchpeer-review

  304. Published

    Comprehensive profiling of proteome changes upon sequential deletion of deubiquitylating enzymes

    Poulsen, J. W., Madsen, C. T., Young, C., Kelstrup, C. D., Grell, H. C., Henriksen, P., Jensen, Lars Juhl & Nielsen, Michael Lund, 2012, In : Journal of Proteomics. 75, 13, p. 3886-97 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  305. Published

    eggNOG v3.0: Orthologous groups covering 1133 organisms at 41 different taxonomic ranges

    Powell, S., Trachana, K., Letunic, I., Doerks, T., Bork, P., Szklarczyk, D., Jensen, Lars Juhl, Roth, A., Von Mering, C., Kuhn, M., Muller, J., Arnold, R. & Rattei, T., 2012, In : Nucleic Acids Research. 40, D1, p. D284-9

    Research output: Contribution to journalJournal articleResearchpeer-review

  306. Published

    eggNOG v4.0: nested orthology inference across 3686 organisms

    Powell, S., Forslund, K., Szklarczyk, D. M., Trachana, K., Roth, A., Huerta-Cepas, J., Gabaldón, T., Rattei, T., Creevey, C., Kuhn, M., Jensen, Lars Juhl, von Mering, C. & Bork, P., 1 Dec 2013, In : Nucleic Acids Research. 42, D1, p. D231-D239 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  307. Published

    Toward molecular trait-based ecology through integration of biogeochemical, geographical and metagenomic data

    Raes, J., Letunic, I., Yamada, T., Jensen, Lars Juhl & Bork, P., 2011, In : Molecular Systems Biology. 7, p. 473

    Research output: Contribution to journalJournal articleResearchpeer-review

  308. Published

    Higher burden of rare frameshift indels in genes related to synaptic transmission separate familial hemiplegic migraine from common types of migraine

    Rasmussen, A. H., Olofsson, I., Chalmer, M. A., Olesen, Jes & Hansen, Thomas Folkmann, 1 Jan 2020, In : Journal of Medical Genetics. 106640.

    Research output: Contribution to journalJournal articleResearchpeer-review

  309. Published

    Nomenclature for alleles of the human carboxylesterase 1 gene

    INDICES Consortium, I. C., 1 Jan 2017, In : Pharmacogenetics and Genomics. 27, 2, p. 78-80 3 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  310. Published

    Individualization of treatments with drugs metabolized by CES1: combining genetics and metabolomics

    Rasmussen, H. B., Bjerre, D., Linnet, Kristian, Jürgens, G., Dalhoff, Kim, Stefansson, H., Hankemeier, T., Kaddurah-Daouk, R., Taboureau, O., Brunak, Søren, Houmann, T., Jeppesen, Pia, Pagsberg, Anne Katrine, Plessen, K., Dyrborg, J., Hansen, Peter Riis, Hansen, P. E., Hughes, T., Werge, Thomas & INDICES Consortium, I. C., Apr 2015, In : Pharmacogenomics. 16, 6, p. 649-65

    Research output: Contribution to journalReviewResearchpeer-review

  311. Published

    An Aboriginal Australian genome reveals separate human dispersals into Asia

    Rasmussen, M., Guo, X., Wang, Y., Lohmueller, K. E., Rasmussen, Simon, Albrechtsen, Anders, Skotte, L., Lindgreen, Stinus, Metspalu, M., Jombart, T., Kivisild, T., Zhai, W., Eriksson, A., Manica, A., Orlando, L., De La Vega, F. M., Tridico, S., Metspalu, E., Nielsen, K., Avila Arcos, M. D. C., Moreno Mayar, José Victor, Muller, C., Dortch, J., Gilbert, M Thomas P, Lund, O., Wesolowska, A., Karmin, M., Weinert, L. A., Wang, B., Li, J., Tai, S., Xiao, F., Hanihara, T., van Driem, G., Jha, A. R., Ricaut, F., de Knijff, P., Migliano, A. B., Gallego Romero, I., Kristiansen, Karsten, Lambert, D. M., Brunak, Søren, Forster, P., Brinkmann, B., Nehlich, O., Bunce, M., Richards, M., Gupta, R., Bustamante, C. D., Krogh, Anders, Foley, R. A., Lahr, M. M., Balloux, F., Sicheritz-Pontén, T., Villems, R., Nielsen, Rasmus, Wang, J. & Willerslev, Eske, 2011, In : Science. 334, 6052, p. 94-98 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  312. Published

    Ancient human genome sequence of an extinct Palaeo-Eskimo

    Rasmussen, M., Li, Y., Lindgreen, Stinus, Pedersen, J. S., Albrechtsen, Anders, Moltke, Ida, Metspalu, M., Metspalu, E., Kivisild, T., Gupta, R., Bertalan, M., Nielsen, K., Gilbert, M Thomas P, Wang, Y., Raghavan, M., Campos, P., Kamp, Hanne Louise Munkholm, Wilson, A. S., Gledhill, A., Tridico, S., Bunce, M., Lorenzen, Eline, Binladen, J. K. M. A., Guo, X., Zhao, J., Zhang, X., Zhang, H., Li, Z., Chen, M., Orlando, L. A. A., Kristiansen, Karsten, Bak, Mads, Tommerup, Niels, Bendixen, C., Pierre, T. L., Grønnow, B., Meldgaard, Morten, Andreasen, C., Fedorova, S. A., Osipova, L. P., Higham, T. F. G., Ramsey, C. B., Hansen, T. V. O., Nielsen, Finn Cilius, Crawford, M. H., Brunak, Søren, Sicheritz-Pontén, T., Villems, R., Nielsen, Rasmus, Krogh, Anders, Wang, J. & Willerslev, Eske, 11 Feb 2010, In : Nature. 463, 7282, p. 757-762 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  313. Published

    Early divergent strains of Yersinia pestis in Eurasia 5,000 years ago

    Rasmussen, Simon, Allentoft, Morten Erik, Nielsen, K., Orlando, L. A. A., Sikora, Martin, Sjögren, K., Pedersen, A. G., Schubert, M., Van Dam, A., Kapel, Christian, Nielsen, H. B., Brunak, Søren, Avetisyan, P., Epimakhov, A., Khalyapin, M. V., Gnuni, A., Kriiska, A., Lasak, I., Metspalu, M., Moiseyev, V., Gromov, A., Pokutta, D., Saag, L., Varul, L., Yepiskoposyan, L., Sicheritz-Ponten, T., Foley, R. A., Lahr, M. M., Nielsen, R., Kristiansen, K. & Willerslev, Eske, 2015, In : Cell. 163, 3, p. 571-582 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  314. Published

    Characterization of Familial and Sporadic Migraine

    Ravn, J., Chalmer, M. A., Oehrstroem, E. L., Kogelman, L. J. A. & Hansen, Thomas Folkmann, 2019, In : Headache. 59, 10, p. 1802-1807 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  315. Published

    Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

    Re, A., Workman, C. T., Waldron, L., Quattrone, A. & Brunak, Søren, 4 Aug 2014, In : Stem Cell Research. 13, 2, p. 316-328 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  316. Published

    Search Databases and Statistics: Pitfalls and Best Practices in Phosphoproteomics

    Refsgaard, J. C., Munk, S. & Jensen, Lars Juhl, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer Publishing Company, Vol. 1355. p. 323-39 17 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  317. Published

    Prevalence of patients with self‐reported hidradenitis suppurativa in a cohort of Danish blood donors: a cross‐sectional study

    Riis, P. T., Pedersen, O. B., Sigsgaard, V., Erikstrup, C., Paarup, H. M., Nielsen, K. R., Burgdorf, K. S., Hjalgrim, H., Rostgaard, K., Banasik, Karina, Ullum, Henrik & Jemec, Gregor, 2019, In : British Journal of Dermatology. 180, 4, p. 774-781

    Research output: Contribution to journalJournal articleResearchpeer-review

  318. Published

    The miRNA Pull Out Assay as a Method to Validate the miR-28-5p Targets Identified in Other Tumor Contexts in Prostate Cancer

    Rizzo, M., Berti, G., Russo, Francesco, Evangelista, M., Pellegrini, M. & Rainaldi, G., 2017, In : International Journal of Genomics. 2017, 7 p., 5214806.

    Research output: Contribution to journalJournal articleResearchpeer-review

  319. Published

    Discovering the miR-26a-5p Targetome in Prostate Cancer Cells

    Rizzo, M., Berti, G., Russo, Francesco, Fazio, S., Evangelista, M., D'Aurizio, R., Pellegrini, M. & Rainaldi, G., 2017, In : Journal of Cancer. 8, 14, p. 2729-2739 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  320. Published

    Patient stratification and identification of adverse event correlations in the space of 1190 drug related adverse events

    Roitmann, E., Eriksson, Robert & Brunak, Søren, 11 Sep 2014, In : Frontiers in Physiology. 5, 14 p., 332.

    Research output: Contribution to journalJournal articleResearchpeer-review

  321. Published

    Transcriptional regulation is a major controller of cell cycle transition dynamics

    Romanel, A., Jensen, Lars Juhl, Cardelli, L. & Csikász-Nagy, A., 2012, In : P L o S One. 7, 1, p. e29716

    Research output: Contribution to journalJournal articleResearchpeer-review

  322. Published

    A proteomic study of the regulatory role for STAT-1 in cytokine-induced beta-cell death

    Rondas, D., Gudmundsdottir, V., D'Hertog, W., Crèvecoeur, I., Waelkens, E., Brunak, Søren, Mathieu, C. & Overbergh, L., Oct 2015, In : Proteomics - Clinical Applications. 9, 9-10, p. 938–952 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  323. Published

    Using electronic patient records to discover disease correlations and stratify patient cohorts

    Roque, F. S., Jensen, P. B., Schmock, H., Dalgaard, M., Andreatta, M., Hansen, T., Søeby, K., Bredkjær, S., Juul, Anders, Werge, Thomas, Jensen, Lars Juhl & Brunak, Søren, 2011, In : P L o S Computational Biology. 7, 8, p. e1002141 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  324. Published

    A variant in the G6PC2/ABCB11 locus is associated with increased fasting plasma glucose, increased basal hepatic glucose production and increased insulin release after oral and intravenous glucose loads

    Rose, C. S., Grarup, Niels, Krarup, N. T., Poulsen, P., Wegner, L., Nielsen, Trine, Banasik, Karina, Færch, Kristine, Andersen, G., Albrechtsen, Anders, Borch-Johnsen, K., Clausen, J. O., Jørgensen, T., Vaag, A., Pedersen, Oluf Borbye & Hansen, Torben, 2009, In : Diabetologia. 52, 10, p. 2122-2129 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  325. Published

    A comparison of protein kinases inhibitor screening methods using both enzymatic activity and binding affinity determination

    Rudolf, A. F., Skovgaard, T., Knapp, S., Jensen, Lars Juhl & Berthelsen, J., 2014, In : PloS one. 9, 6, p. 1-5 6 p., e98800.

    Research output: Contribution to journalJournal articleResearchpeer-review

  326. Published

    Comorbidity landscape of the Danish patient population affected by chromosomal abnormalities

    Russo, Francesco, Jørgensen, Isabella Friis, Westergaard, David, Jensen, A. B., Hjaltelin, Jessica Xin, Belling, Kirstine G & Brunak, Søren, 2018, In : European Journal of Human Genetics. 26, p. 697-698

    Research output: Contribution to journalConference abstract in journalResearch

  327. Published

    Interplay Between Long Noncoding RNAs and MicroRNAs in Cancer

    Russo, Francesco, Fiscon, G., Conte, F., Rizzo, M., Paci, P. & Pellegrini, M., 2018, Computational Cell Biology. von Stechow, L. & Delgado, A. S. (eds.). Humana Press, p. 75-92 18 p. (Methods in Molecular Biology, Vol. 1819).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  328. Published

    The hunt for fatal myocardial infarction biomarkers: predictive circulating microRNAs

    Russo, Francesco, Rizzo, M., Belling, Kirstine G, Brunak, Søren & Folkersen, L., Oct 2016, In : Journal of Translational Medicine. 4, Suppl 1, 4 p., S1.

    Research output: Contribution to journalEditorialResearch

  329. Published

    Combing the Hairball: Improving Visualization of miRNA-Target Interaction Networks

    Russo, Francesco, Hjaltelin, Jessica Xin, Romero Herrera, Jose Alejandro & Brunak, Søren, 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 279-289 11 p. (Methods in Molecular Biology, Vol. 1970).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  330. Published

    A knowledge base for the discovery of function, diagnostic potential and drug effects on cellular and extracellular miRNAs

    Russo, Francesco, Di Bella, S., Bonnici, V., Laganà, A., Rainaldi, G., Pellegrini, M., Pulvirenti, A., Giugno, R. & Ferro, A., 1 Jan 2014, In : BMC Genomics. 15, S4.

    Research output: Contribution to journalJournal articleResearchpeer-review

  331. Published

    The Interplay of Non-coding RNAs and X Chromosome Inactivation in Human Disease

    Russo, Francesco, De Masi, F., Brunak, Søren & Belling, Kirstine G, 2018, Systems Biology. Rajewsky, N., Jurga, S. & Barciszewski, J. (eds.). Springer, p. 229-238 (RNA Technologies).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  332. Published

    MicroRNAs, Regulatory Networks, and Comorbidities: Decoding Complex Systems

    Russo, Francesco, Belling, Kirstine G, Jensen, A. B., Scoyni, F., Brunak, Søren & Pellegrini, M., 2017, In : Methods in molecular biology (Clifton, N.J.). 1580, p. 281-295 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  333. Published