- Published
Darwinian and demographic forces affecting human protein coding genes.
Nielsen, Rasmus, Hubisz, M. J., Hellmann, I., Torgerson, D., Andres, A. M., Albrechtsen, Anders, Gutenkunst, R., Adams, M. D., Cargill, M., Boyko, A., Indap, A., Bustamante, C. D. & Clark, A. G., 2009, In: Genome Research. 19, 5, p. 838-49 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Statistical inferences in phylogeography
Nielsen, Rasmus & Beaumont, M. A., 2009, In: Molecular Ecology. 18, 6, p. 1034-47 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
SNP calling, genotype calling, and sample allele frequency estimation from new-generation sequencing data
Nielsen, Rasmus, Korneliussen, Thorfinn Sand, Albrechtsen, Anders, Li, Y. & Wang, J., 2012, In: PLoS ONE. 7, 7, 11 p., e37558.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein destabilization and degradation as a mechanism for hereditary disease
Nielsen, S. V., Schenstrøm, S. M., Christensen, Caspar Elo, Stein, Amelie, Lindorff-Larsen, Kresten & Hartmann-Petersen, Rasmus, 2020, Protein Homeostasis Diseases: Mechanisms and Novel Therapies. Pey, A. L. (ed.). Elsevier, p. 111-125Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Multiplexed assays reveal effects of missense variants in MSH2 and cancer predisposition
Nielsen, S. V., Hartmann-Petersen, Rasmus, Stein, Amelie & Lindorff-Larsen, Kresten, 2021, In: PLOS Genetics. 17, 4, 6 p., e1009496.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Mapping the human genetic architecture of COVID-19
Niemi, M. E. K., Karjalainen, J., Liao, R. G., Neale, B. M., Daly, M., Ganna, A., Pathak, G. A., Andrews, S. J., Kanai, M., Veerapen, K., Fernandez-Cadenas, I., Schulte, E. C., Striano, P., Marttila, M., Minica, C., Marouli, E., Karim, M. A., Wendt, F. R., Savage, J., Sloofman, L. & 41 others, , 2021, In: Nature. 600, p. 472-477Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Binning microbial genomes using deep learning
Nissen, J. N., Sønderby, C. K., Armenteros, J. J. A., Grønbech, Christopher Heje, Nielsen, H. B., Petersen, T. N., Winther, Ole & Rasmussen, Simon, 2018, (bioRxiv).Research output: Working paper › Preprint
- Published
Improved metagenome binning and assembly using deep variational autoencoders
Nissen, J. N., Johansen, Joachim, Allesoe, R. L., Sonderby, C. K., Armenteros, J. J. A., Grønbech, Christopher Heje, Jensen, Lars Juhl, Nielsen, H. B., Petersen, T. N., Winther, Ole & Rasmussen, Simon, 2021, In: Nature Biotechnology. 39, p. 555-560Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Effect of supercoiling on the λ switch
Norregaard, K., Andersson, M., Sneppen, Kim, Nielsen, Peter E., Brown, Stanley & Oddershede, L. B., 1 Jan 2014, In: Bacteriophage. 4, 2, p. 1-5 5 p., e27517.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
DNA supercoiling enhances cooperativity and efficiency of an epigenetic switch
Norregaard, K., Andersson, M., Sneppen, Kim, Nielsen, Peter E., Brown, Stanley & Oddershede, L. B., 22 Oct 2013, In: Proceedings of the National Academy of Sciences USA (PNAS). 110, 43, p. 17386-91 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The whole-genome landscape of medulloblastoma subtypes
Northcott, P. A., Buchhalter, I., Morrissy, A. S., Hovestadt, V., Weischenfeldt, J., Ehrenberger, T., Gröbner, S., Segura-Wang, M., Zichner, T., Rudneva, V. A., Warnatz, H. J., Sidiropoulos, N., Phillips, A. H., Schumacher, S., Kleinheinz, K., Waszak, S. M., Erkek, S., Jones, D. T. W., Worst, B. C., Kool, M. & 67 others, , 19 Jul 2017, In: Nature. 547, 7663, p. 311-317 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality
Ntini, E., Järvelin, A. I., Lange, Jette Bornholdt, Chen, Y., Boyd, M., Jørgensen, M., Andersson, Robin, Hoof, I., Schein, A., Andersen, P. R., Andersen, P. K., Preker, P., Valen, E., Zhao, X., Pelechano, V., Steinmetz, L. M., Sandelin, Albin Gustav & Jensen, T. H., 2013, In: Nature Structural and Molecular Biology. 20, p. 923-928 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Joint identification of sex and sex-linked scaffolds in non-model organisms using low depth sequencing data
Nursyifa, Casia, Brüniche-Olsen, Anna, Garcia Erill, Genís, Heller, Rasmus & Albrechtsen, Anders, 2022, In: Molecular Ecology Resources. 22, 2, p. 458-467 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Application of whole genome sequencing data in population genetics: identifying sex-linked scaffolds and inferring admixture in a unique cattle population
Nursyifa, Casia, 2023, Department of Biology, Faculty of Science, University of Copenhagen. 225 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
Long- and short-term selective forces on malaria parasite genomes
Nygaard, S., Braunstein, A., Malsen, G., Van Dongen, S., Gardner, P. P., Krogh, Anders, Otto, T. D., Pain, A., Berriman, M., McAuliffe, J., Dermitzakis, E. T. & Jeffares, D. C., 1 Sep 2010, In: P L o S Genetics. 6, 9Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The genome of the leaf-cutting ant Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming
Nygaard, S., Zhang, G., Schiøtt, M., Li, C., Wurm, Y., Hu, H., Zhou, J., Ji, L., Qiu, F., Rasmussen, M., Pan, H., Hauser, Frank, Krogh, Anders, Grimmelikhuijzen, Cornelis (Cok), Wang, J. & Boomsma, Jacobus J., 2011, In: Genome Research. 21, 8, p. 1339-1348 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
NGSremix: A software tool for estimating pairwise relatedness between admixed individuals from next-generation sequencing data
Nøhr, A. K., Hanghøj, Kristian Ebbesen, Garcia Erill, Genís, Li, Zilong, Moltke, Ida & Albrechtsen, Anders, 2021, In: G3: Genes, Genomes, Genetics. 11, 8, 8 p., jkab174.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Exploring antidepressant treatment response using biological and clinical measurements
Nøhr, A. K., 2023, Department of Biology, Faculty of Science, University of Copenhagen. 125 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
Polygenic heterogeneity in antidepressant treatment and placebo response
Nøhr, A. K., Forsingdal, A., Moltke, Ida, Howes, O. D., Vitezic, M., Albrechtsen, Anders & Dalby, M., 2022, In: Translational Psychiatry. 12, 8 p., 456.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Predictors and trajectories of treatment response to SSRIs in patients suffering from PTSD
Nøhr, A. K., Eriksson, H., Hobart, M., Moltke, Ida, Buller, R., Albrechtsen, Anders & Lindgreen, S., 2021, In: Psychiatry Research. 301, 8 p., 113964.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A large-scale genome-wide gene expression analysis in peripheral blood identifies very few differentially expressed genes related to antidepressant treatment and response in patients with major depressive disorder
Nøhr, A. K., Lindow, M., Forsingdal, A., Demharter, S., Nielsen, T., Buller, R., Moltke, Ida, Vitezic, M. & Albrechtsen, Anders, 2021, In: Neuropsychopharmacology. 46, 7, p. 1324-1332 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
E. coli dihydroorotate dehydrogenase reveals structural and functional distinctions between different classes of dihydroorotate dehydrogenases.
Nørager, S., Jensen, K. F., Björnberg, O. & Larsen, Sine, 2002, In: Structure. 10, p. 1211-1223Research output: Contribution to journal › Journal article › Research › peer-review
- Published
SPT6-driven error-free DNA repair safeguards genomic stability of glioblastoma cancer stem-like cells
Obara, E. A. A., Aguilar-Morante, D., Rasmussen, R. D., Frias, A., Vitting-Serup, K., Lim, Y. C., Elbæk, K. J., Pedersen, H., Vardouli, L., Jensen, K. E., Skjoth-Rasmussen, J., Brennum, J., Tuckova, L., Strauss, R., Dinant, C., Bartek, J. & Hamerlik, P., 2020, In: Nature Communications. 11, 14 p., 4709.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Motion of a Single Molecule, the Lambda-Receptor, in the Bacterial Outer Membrane
Oddershede, L., Dreyer, J. K., Grego, S., Brown, Stanley & Berg-Sørensen, K., 2002, In: Biophysical Journal. 83, 6, p. 3152-61 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Initiation of MLL-rearranged AML is dependent on C/EBPα
Ohlsson, E., Hasemann, M. S., Willer, A., Lauridsen, F. K. B., Rapin, N. P. J., Jendholm, L. J. & Porse, Bo Torben, 13 Jan 2014, In: The Journal of Experimental Medicine. 211, 1, p. 5-13 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE)
Ohmiya, H., Vitezic, M., Frith, M. C., Itoh, M., Carninci, P., Forrest, A. R. R., Hayashizaki, Y., Lassmann, T. & The FANTOM Consortium, T. F. C., 2014, In: B M C Genomics. 15, 15 p., 269.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Marine genomics: news and views
Oliveira Ribeiro, Â. M., Foote, A. D., Kupczok, A., Frazão, B., Limborg, Morten Tønsberg, Piñeiro, R., Abalde, S., Rocha, S. & Rodrigues da Fonseca, Rute Andreia, Feb 2017, In: Marine Genomics. 31, p. 1-8 8 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
Current and emerging approaches to define intestinal epithelium-specific transcriptional networks
Olsen, A. K., Boyd, M., Danielsen, E. T. & Troelsen, J. T., Feb 2012, In: American Journal of Physiology: Gastrointestinal and Liver Physiology. 302, 3, p. G277-86Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Tumor antigens as proteogenomic biomarkers in invasive ductal carcinomas
Olsen, L. R., Campos, B., Winther, Ole, Sgroi, D. C., Karger, B. L. & Brusic, V., 2014, In: B M C Medical Genomics. 7, 3, p. 1-13 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
BlockLogo: visualization of peptide and sequence motif conservation
Olsen, L. R., Kudahl, U. J., Simon, C., Sun, J., Schönbach, C., Reinherz, E. L., Zhang, G. L. & Brusic, V., 2013, In: Journal of Immunological Methods. 400-401, p. 37-44 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Prognostic, Diagnostic, and Therapeutic Potential of Tumor Antigens
Olsen, L. R., 2013, Department of Biology, Faculty of Science, University of Copenhagen. 271 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
Literature classification for semi-automated updating of biological knowledgebases
Olsen, L. R., Kudahl, U. J., Winther, Ole & Brusic, V., 2013, In: B M C Genomics. 14(Suppl 5), 10 p., S14.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Bioinformatics for cancer immunotherapy target discovery
Olsen, L. R., Campos, B., Stein Barnkob, M., Winther, Ole, Brusic, V. & Andersen, M. H., 2014, In: Cancer Immunology, Immunotherapy. 63, 12, p. 1235-1249 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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 journal › Journal article › Research › peer-review
- Published
Integrating genetic data and population viability analyses for the identification of harbour seal (Phoca vitulina) populations and management units
Olsen, Morten Tange, Andersen, L. W., Dietz, R., Teilmann, J., Härkönen, T. & Siegismund, Hans Redlef, 2014, In: Molecular Ecology. 23, 4, p. 815-831 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Probabilistic determination of native state ensembles of proteins
Olsson, S., Vögeli, B. R., Cavalli, A., Boomsma, Wouter, Ferkinghoff-Borg, J., Lindorff-Larsen, Kresten & Hamelryck, Thomas Wim, 2014, In: Journal of Chemical Theory and Computation. 10, 8, p. 3484-3491 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Inference of structure ensembles of flexible biomolecules from sparse, averaged data
Olsson, S., Frellsen, J., Boomsma, Wouter, Mardia, K. V. & Hamelryck, Thomas Wim, 2013, In: PLoS ONE. 8, 11, 7 p., e79439.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Generative probabilistic models extend the scope of inferential structure determination
Olsson, S., Boomsma, Wouter, Frellsen, J., Bottaro, S., Harder, T. P., Ferkinghoff-Borg, J. & Hamelryck, Thomas Wim, 2011, In: Journal of Magnetic Resonance. 213, 1, p. 182-186 5 p.Research output: Contribution to journal › Letter › Research › peer-review
- Published
Inference problems in structural biology: protein structures and protein structure ensembles
Olsson, S., 2013, Department of Biology, Faculty of Science, University of Copenhagen. 138 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
A community proposal to integrate structural bioinformatics activities in ELIXIR (3D-Bioinfo Community) [version 1; peer review: 1 approved, 3 approved with reservations]
Orengo, C., Velankar, S., Wodak, S., Zoete, V., Bonvin, A. M. J. J., Elofsson, A., Feenstra, K. A., Gerloff, D. L., Hamelryck, T., Hancock, J. M., Helmer-Citterich, M., Hospital, A., Orozco, M., Perrakis, A., Rarey, M., Soares, C., Sussman, J. L., Thornton, J. M., Tuffery, P., Tusnady, G. & 3 others, , 2020, In: F1000Research. 9, 27 p., 278.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
True single-molecule DNA sequencing of a pleistocene horse bone
Orlando, L. A. A., Ginolhac, A., Raghavan, M., Mouatt, J. T. V., Rasmussen, M., Magnussen, K., Steinmann, K. E., Kapranov, P., Thompson, J. F., Zazula, G., Froese, D., Moltke, Ida, Shapiro, B., Hofreiter, M., Al-Rasheid, K. A. S., Gilbert, M Thomas P & Willerslev, Eske, 2011, In: Genome Research. 21, 10, p. 1705-1719 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, A., Stiller, M., Schubert, M., Cappellini, E., Petersen, B., Moltke, I., Johnson, P. L. F., Fumagalli, M., Mouatt, J. T. V., Raghavan, M., Korneliussen, T. S., Malaspinas, A. S., Vogt, J., Szklarczyk, D. M., Kelstrup, C., Vinther, J. & 36 others, , 4 Jul 2013, In: Nature. 499, 7456, p. 74-78 5 p.Research output: Contribution to journal › Letter › Research › peer-review
- Published
Bacterial natural transformation by highly fragmented and damaged DNA
Overballe-Petersen, S., Harms, K., Orlando, L. A. A., Moreno Mayar, J. Víctor, Rasmussen, Simon, Dahl, Tais Wittchen, Rosing, Minik Thorleif, Poole, A. M., Sicheritz-Ponten, T., Brunak, S., Inselmann, S., de Vries, J., Wackernagel, W., Pybus, O. G., Nielsen, Rasmus, Johnsen, P. J., Nielsen, K. M. & Willerslev, Eske, 3 Dec 2013, In: Proceedings of the National Academy of Sciences of the United States of America. 110, 49, p. 19860–19865 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The effect of diabetes and the common diabetogenic TBC1D4 p.Arg684Ter variant on cardiovascular risk in Inuit in Greenland
Overvad, M., Diaz, L. J., Bjerregaard, P., Pedersen, M. L., Larsen, C. V. L., Senftleber, N., Grarup, Niels, Hansen, Torben & Jørgensen, M. E., 2020, In: Scientific Reports. 10, 9 p., 22081.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
netDx: Software for building interpretable patient classifiers by multi-'omic data integration using patient similarity networks [version 2; peer review: 2 approved]
Pai, S., Weber, P., Isserlin, R., Kaka, H., Hui, S., Shah, M. A., Giudice, L., Giugno, R., Nøhr, A. K., Baumbach, J. & Bader, G. D., 2021, In: F1000Research. 9, 42 p., 1239.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Uncovering commensal bacteria-plant interaction: characterisation of bacterial endophytes and their population structures in the model plant Arabidopsis thaliana
Paiva, D. S., Klepac-Ceraj, V., Lemon, K., Kolter, R., Frigaard, Niels-Ulrik, Gautier, L. & Sakuragi, Y., 2009.Research output: Contribution to conference › Conference abstract for conference › Research
- Published
Mocapy++ - a toolkit for inference and learning in dynamic Bayesian networks
Paluszewski, M. & Hamelryck, Thomas Wim, 2010, In: BMC Bioinformatics. 11, Suppl 1, 6 p., 126.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Reconstructing protein structure from solvent exposure using tabu search
Paluszewski, M., Hamelryck, Thomas Wim & Winter, Pawel, 2006, In: Algorithms for Molecular Biology. 1, p. 14Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A New Paradigm for General Architecture Routing
Paluszewski, M., Winter, Pawel & Zachariasen, M., 2004, Proceedings of the 14th ACM Great Lakes Symposium on VLSI. New York, NY, USA: Association for Computing Machinery, p. 202-207Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research
- Published
Protein Decoy Generation Using Branch and Bound with Efficient Bounding
Paluszewski, M. & Winter, Pawel, 2008, Algorithms in Bioinformatics: 8th International Workshop, WABI 2008, Karlsruhe, Germany, September 15-19, 2008, Proceedings. Crandall, K. A. & Lagergren, J. (eds.). Springer, p. 382-393 12 p. (Lecture Notes in Computer Science : Lecture Notes in Bioinformatics; No. 5251).Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
- Published
Protein structure prediction using tabu search and half-sphere exposure measure
Paluszewski, M., Hamelryck, Thomas Wim & Winter, Pawel, 2006.Research output: Contribution to conference › Poster › Research
- Published
Modes of genetic adaptations underlying functional innovations in the rumen
Pan, X., Cai, Y., Li, Z., Chen, X., Heller, R., Wang, N., Wang, Y., Zhao, C., Wang, Y., Xu, H., Li, S., Li, M., Li, C., Hu, S., Li, H., Wang, K., Chen, L., Wei, B., Zheng, Z., Fu, W. & 20 others, , 2021, In: Science China Life Sciences. 64, 1, p. 1-21 21 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
CNEReg Interprets Ruminant-specific Conserved Non-coding Elements by Developmental Gene Regulatory Network
Pan, X., Ma, Z., Sun, X., Li, H., Zhang, T., Zhao, C., Wang, N., Heller, Rasmus, Hung Wong, W., Wang, W., Jiang, Y. & Wang, Y., 2023, In: Genomics, Proteomics and Bioinformatics. 21, 3, p. 632-648 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Massively targeted evaluation of therapeutic CRISPR off-targets in cells
Pan, X., Qu, K., Yuan, H., Xiang, X., Anthon, C., Pashkova, L., Liang, X., Han, P., Corsi, G. I., Xu, F., Liu, P., Zhong, J., Zhou, Y., Ma, T., Jiang, H., Liu, J., Wang, J., Jessen, N., Bolund, L., Yang, H. & 5 others, , 2022, In: Nature Communications. 13, 14 p., 4049.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
miR-509-3p is clinically significant and strongly attenuates cellular migration and multi-cellular spheroids in ovarian cancer
Pan, Y., Robertson, G., Pedersen, L., Lim, E., Hernandez-Herrera, A., Rowat, A. C., Patil, S. L., Chan, C. K., Wen, Y., Zhang, X., Basu-Roy, U., Mansukhani, A., Chu, A., Sipahimalani, P., Bowlby, R., Brooks, D., Thiessen, N., Coarfa, C., Ma, Y., Moore, R. A. & 8 others, , 2016, In: OncoTarget. 7, 18, p. 25930-25948 19 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Significance of calcium binding, tyrosine phosphorylation, and lysine trimethylation for the essential function of calmodulin in vertebrate cells analyzed in a novel gene replacement system
Panina, S., Stephan, A., la Cour, J. M., Jacobsen, K., Kallerup, L. K., Bumbuleviciute, R., Knudsen, K. V. K., Sanchez-Gonzalez, P., Villalobo, A., Olesen, U. H. & Berchtold, Martin Werner, 2012, In: Journal of Biological Chemistry. 287, 22, p. 18173-18181 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
3-methylcholanthrene induces differential recruitment of aryl hydrocarbon receptor to human promoters
Pansoy, A., Ahmed, S., Valen, E., Sandelin, Albin Gustav & Matthews, J., 2010, In: Toxicological Sciences. 117, 1, p. 90-100 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
New families of human regulatory RNA structures identified by comparative analysis of vertebrate genomes.
Parker, B. J., Moltke, Ida, Roth, A., Washietl, S., Wen, J., Kellis, M., Breaker, R. & Pedersen, Jakob Skou, 2011, In: Genome Research. 21, 11, p. 1929-1943 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
m6A modification of U6 snRNA modulates usage of two major classes of pre-mRNA 5' splice site
Parker, M. T., Soanes, B. K., Kusakina, J., Larrieu, A., Knop, K., Joy, N., Breidenbach, F., Sherwood, Anna, Barton, G. J., Fica, S. M., Davies, B. H. & Simpson, G. G., 2022, In: eLife. 11, 34 p., 78808.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Radiation and speciation of pelagic organisms during periods of global warming: the case of the common minke whale, Balaenoptera acutorostrata
Pastene, L. A., Goto, M., Kanda, N., Zerbini, A. N., Kerem, D., Watanabe, K., Bessho, Y., Hasegawa, M., Nielsen, Rasmus, Larsen, F. & Palsbøll, P. J., 2007, In: Molecular Ecology. 16, 7, p. 1481-1495 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Neuronal Gene Arc Encodes a Repurposed Retrotransposon Gag Protein that Mediates Intercellular RNA Transfer
Pastuzyn, E. D., Day, C. E., Kearns, R. B., Kyrke-Smith, M., Taibi, A. V., McCormick, J., Yoder, N., Belnap, D. M., qrc243, qrc243, Morado, D. R., Briggs, J. A. G., Feschotte, C. & Shepherd, J. D., 2018, In: Cell. 172, 1-2, p. 275-288, E18 33 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
MiR-492 impairs the angiogenic potential of endothelial cells
Patella, F., Leucci, E., Evangelista, M., Parker, B., Wen, J., Mercatanti, A., Rizzo, M., Chiavacci, E., Lund, Anders H. & Rainaldi, G., Aug 2013, In: Journal of Cellular and Molecular Medicine. 17, 8, p. 1006-15 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
Pauli, A., Valen, E., Lin, M. F., Garber, M., Vastenhouw, N. L., Levin, J. Z., Fan, L., Sandelin, Albin Gustav, Rinn, J. L., Regev, A. & Schier, A. F., 2012, In: Genome Research. 22, p. 577-591 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Diversity of nature's assembly lines - recent discoveries in non-ribosomal peptide synthesis
Payne, J. A. E., Schoppet, M., Hansen, M. H. & Cryle, M. J., 2017, In: Molecular BioSystems. 13, 1, p. 9-22 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Monitoring of species’ genetic diversity in Europe varies greatly and overlooks potential climate change impacts
Pearman, P. B., Broennimann, O., Aavik, T., Albayrak, T., Alves, P. C., Aravanopoulos, F. A., Bertola, L. D., Biedrzycka, A., Buzan, E., Cubric-Curik, V., Djan, M., Fedorca, A., Fuentes-Pardo, A. P., Fussi, B., Godoy, J. A., Gugerli, F., Hoban, S., Holderegger, R., Hvilsom, C., Iacolina, L. & 32 others, , 2024, In: Nature Ecology and Evolution. 8, p. 267–281 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Mammuthus sp. (Early and Middle Pleistocene Mammoths)
Chrzanová Pecnerová, Patrícia, Díez-del-Molino, D., van der Valk, T., Dehasque, M., Götherström, A. & Dalén, L., 2021, In: Trends in Genetics. 37, 7, p. 682-683 2 p.Research output: Contribution to journal › Editorial › Research › peer-review
- Published
A southern African origin and cryptic structure in the highly mobile plains zebra
Pedersen, C. T., Albrechtsen, Anders, Etter, P. D., Johnson, E. A., Orlando, L., Chikhi, L., Siegismund, Hans Redlef & Heller, Rasmus, 2018, In: Nature Ecology & Evolution. 2, 3, p. 491-498 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Time clustered sampling can inflate the inferred substitution rate in foot-and-mouth disease virus analyses
Pedersen, C. T., Frandsen, P., Wekesa, S. N., Heller, Rasmus, Sangula, A. K., Wadsworth, J., Knowles, N. J., Muwanika, V. B. & Siegismund, Hans Redlef, 2015, In: PLOS ONE. 10, 12, 13 p., e0143605.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The effect of an extreme and prolonged population bottleneck on patterns of deleterious variation: insights from the Greenlandic Inuit
Pedersen, C. T., Lohmueller, K. E., Grarup, Niels, Bjerregaard, P., Hansen, Torben, Siegismund, Hans Redlef, Moltke, Ida & Albrechtsen, Anders, Feb 2017, In: Genetics. 205, 2, p. 787-801 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Demographic inferences from large-scale NGS data
Pedersen, C. T., 2017, Department of Biology, Faculty of Science, University of Copenhagen.Research output: Book/Report › Ph.D. thesis › Research
- Published
Replication Protein A (RPA) Mediates Radio-Resistance of Glioblastoma Cancer Stem-Like Cells
Pedersen, H., Obara, E. A. A., Elbæk, K. J., Vitting-Serup, K. & Hamerlik, P., 2020, In: International Journal of Molecular Sciences. 21, 5, 13 p., 1588.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome
Pedersen, J. S., Valen, E., Velazquez, A. M. V., Parker, B. J., Rasmussen, M., Lindgreen, S., Lilje, B., Tobin, D. J., Kelly, T. K., Vang, S., Andersson, R., Jones, P. A., Hoover, C. A., Tikhonov, A., Prokhortchouk, E., Rubin, E. M., Sandelin, A. G., Gilbert, M. T. P., Krogh, A., Willerslev, E. & 1 others, , 2014, In: Genome Research. 24, 3, p. 454-466 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Inflammatory pathways of importance for management of inflammatory bowel disease
Pedersen, J., Coskun, M., Soendergaard, C., Salem, M. & Nielsen, Ole Haagen, 7 Jan 2014, In: World Journal of Gastroenterology. 20, 1, p. 64-77 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Inhibitors of apoptosis (IAPs) regulate intestinal immunity and inflammatory bowel disease (IBD) inflammation
Pedersen, J., LaCasse, E. C., Seidelin, Jakob Benedict, Coskun, M. & Nielsen, Ole Haagen, Nov 2014, In: Trends in Molecular Medicine. 20, 11, p. 652-65 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Prey diversity is affected by climate and differs between age classes in the Red-backed Shrike (Lanius collurio)
Pedersen, L., Geertsma, M. & Tøttrup, Anders P., 2012, In: Ornis Fennica. 89, 2, p. 99-108 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Biological systems on a small scale
Pedersen, L., 2012, Center for Ice & Climate: Faculty of Science, University of Copenhagen. 184 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
A kinetic model explains why shorter and less affine enzyme-recruiting oligonucleotides can be more potent
Pedersen, L., Hagedorn, P. H., Lindholm, M. W. & Lindow, M., 2014, In: Molecular Therapy - Nucleic Acids. 3, 8 p., e149.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Postglacial viability and colonization in North America’s ice-free corridor
Pedersen, Mikkel Winther, Ruter, Anthony Henry, Schweger, C., Friebe, H., Staff, R. A., Kjeldsen, Kristian Kjellerup, Zepeda Mendoza, M. L., Beaudoin, A. B., Zutter, C., Larsen, Nicolaj Krog, Potter, B. A., Nielsen, Rasmus, Rainville, R. A., Orlando, L. A. A., Meltzer, D. J., Kjær, Kurt H. & Willerslev, Eske, 2016, In: Nature. 537, 7618, p. 45–49 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
RNA sequencing of trigeminal ganglia in Rattus Norvegicus after glyceryl trinitrate infusion with relevance to migraine
Pedersen, S. H., Sørensen, L. M., Ramachandran, R., Sibbesen, Jonas Andreas, Yakimov, V., Christensen, R. E., Hansen, Thomas Folkmann, Krogh, Anders, Olesen, Jes & Olesen, I. J., 2016, In: P L o S One. 11, 5, 13 p., e0155039.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Thermodynamics of heat-shock response. Bourke Arnvig K, Pedersen S, Sneppen K
Pedersen, Steen, 2000, In: Physical Review Letters. p. Phys Rev Lett; 84: 3005-8. 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Fast Translation within the First 45 Codons Decreases mRNA Stability and Increases Premature Transcription Termination in E. coli
Pedersen, Steen, Terkelsen, Thilde Bagger, Eriksen, M., Hauge, M. K., Lund, C. C., Sneppen, Kim & Mitarai, Namiko, 2019, In: Journal of Molecular Biology. 431, 6, p. 1088-1097 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Regulating retrotransposon activity through the use of alternative transcription start sites
Persson, J., Steglich, B., Smialowska, A., Boyd, M., Lange, Jette Bornholdt, Andersson, Robin, Schurra, C., Arcangioli, B., Sandelin, Albin Gustav, Nielsen, Olaf & Ekwall, K., 2016, In: E M B O Reports. 17, 5, p. 753-768 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Pigments and proteins in green bacterial chlorosomes studied by matrix-assisted laser desorption ionization mass spectrometry
Persson, S., Sönksen, C. P., Frigaard, Niels-Ulrik, Cox, R. P., Roepstorff, P. & Miller, M., 2000, In: European Journal of Biochemistry. 267, 2, p. 450-456 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Body fluid identification of blood, saliva and semen using second generation sequencing of micro-RNA
Petersen, C. H., Hjort, B. B., Tvedebrink, T., Kielpinski, L. J., Vinther, Jeppe & Morling, Niels, 2013, In: Forensic Science International: Genetics Supplement Series. 4, 1, p. e204-5 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
RpoD promoters in Campylobacter jejuni exhibit a strong periodic signal instead of a -35 box
Petersen, L., Larsen, T. S., Ussery, D. W., On, S. L. W. & Krogh, Anders, 2003, In: Journal of Molecular Biology. 326(5), p. 1361-1372Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genome-wide and sister chromatid-resolved profiling of protein occupancy in replicated chromatin with ChOR-seq and SCAR-seq
Petryk, N., Reveron-Gomez, Nazaret, González-Aguilera, C., Dalby, M., Andersson, Robin & Groth, Anja, 2021, In: Nature Protocols. 16, p. 4446-4493Research output: Contribution to journal › Journal article › Research › peer-review
- Published
MCM2 promotes symmetric inheritance of modified histones during DNA replication
Petryk, N., Dalby, M., Wenger, Alice, Stromme, C. B., Strandsby, A., Andersson, Robin & Groth, Anja, 2018, In: Science. 361, 6409, p. 1389-1392 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
High genetic diversity and low differentiation reflect the ecological versatility of the African leopard
Chrzanová Pecnerová, Patrícia, Garcia Erill, Genís, Liu, Xiaodong, Nursyifa, Casia, Waples, R. K., Santander, Cindy, Quinn, Liam James Elgaard, Frandsen, P., Meisner, Jonas, Stæger, Frederik Filip Vinggaard, Rasmussen, Malthe Sebro, Brüniche-Olsen, Anna, Jørgensen, C. H. F., Rodrigues da Fonseca, Rute Andreia, Siegismund, Hans Redlef, Albrechtsen, Anders, Heller, Rasmus, Moltke, Ida & Hanghøj, Kristian Ebbesen, 2021, In: Current Biology. 31, 9, p. 1862-1871, e1-e5Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population genomics of the muskox' resilience in the near absence of genetic variation
Pečnerová, P., Lord, E., Garcia-Erill, G., Hanghøj, K., Rasmussen, M. S., Meisner, J., Liu, X., van der Valk, T., Santander, C. G., Quinn, L., Lin, L., Liu, S., Carøe, C., Dalerum, F., Götherström, A., Måsviken, J., Vartanyan, S., Raundrup, K., Al-Chaer, A., Rasmussen, L. & 11 others, , 2024, In: Molecular Ecology. 33, 2, 25 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Transcriptional and epigenomic profiling identifies YAP signaling as a key regulator of intestinal epithelium maturation
Pikkupeura, Laura Maarit, Bardini Bressan, Raul, Guiu, J., Chen, Y., Maimets, Martti, Mayer, Daniela, Schweiger, P. J., Hansen, Stine Lind, Maciag, Grzegorz Jerzy, Larsen, Hjalte List, Lõhmussaar, Kadi, Pedersen, M. T., Teves, Joji Marie Yap, Lange, Jette Bornholdt, Benes, V., Sandelin, Albin Gustav & Jensen, Kim Bak, 2023, In: Science Advances. 9, 28, 16 p., eadf9460.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
First estimates of genetic diversity for the highly endangered giant sable antelope using a set of 57 microsatellites
Pinto, P. V., Lopes, S., Mourao, S., Baptista, S., Siegismund, Hans Redlef, Van Vuuren, B. J., Beja, P., Ferrand, N. & Godinho, R., 2015, In: European Journal of Wildlife Research. 61, 2, p. 313-317 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Precise integration of inducible transcriptional elements (PrIITE) enables absolute control of gene expression
Pinto, R., Hansen, Lars, Hintze, John, Almeida, R., Larsen, S., Coskun, M., Davidsen, J., Mitchelmore, C., David, L., Troelsen, J. T. & Bennett, Eric Paul, 2017, In: Nucleic Acids Research. 45, 13, 15 p., e123.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Highly accessible AU-rich regions in 3' untranslated regions are hotspots for binding of regulatory factors
Plass, M., Rasmussen, S. H. & Krogh, Anders, 14 Apr 2017, In: PLoS Computational Biology. 13, 4, 26 p., e1005460.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Approaches to link RNA secondary structures with splicing regulation
Plass, M. & Eyras, E., 2014, Spliceosomal Pre-mRNA Splicing. Hertel, K. J. (ed.). Springer Science+Business Media, Vol. 1126. p. 341-356 16 p. (Methods in Molecular Biology, Vol. 1126).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
MicroRNA expression profiling of the porcine developing brain
Podolska, A., Kaczkowski, B., Busk, P. K., Søkilde, R., Litman, T., Fredholm, Merete & Cirera, Susanna, 2011, In: P L o S One. 6, p. e14494 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
How the RNA isolation method can affect microRNA microarray results
Podolska, A., Kaczkowski, B., Litman, Thomas, Fredholm, Merete & Cirera, Susanna, 2011, In: Acta Biochimica Polonica. 58, 4, p. 535-540 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Expression, purification and preliminary diffraction studies of PhnP
Podzelinska, K., He, S., Soares, A., Zechel, D., Hove-Jensen, B. & Jia, Z., 2008, In: Acta Crystallographica. Section F : Structural Biology and Crystallization Communications. 64, Pt 6, p. 554-7 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Structure of PhnP: a phosphodiesterase of the carbon-phosphorous lyase pathway for phosphonate degradation
Podzelinska, K., He, S., Wathier, M., Yakunin, A., Proudfoot, M., Hove-Jensen, B., Zechel, D. L. & Jia, Z., 2009, In: Journal of Biological Chemistry. 284, 25, p. 17216-17226Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Inference of historical changes in migration rate from the lengths of migrant tracts
Pool, J. E. & Nielsen, Rasmus, 2009, In: Genetics. 181, 2, p. 711-9 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Functions of m6A-YTH modules in plants: Lessons from high-throughput sequencing analyses
Porcelli, C., 2023, Department of Biology, Faculty of Science, University of Copenhagen. 178 p.Research output: Book/Report › Ph.D. thesis › Research
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Reconstructing genome evolution in historic samples of the Irish potato famine pathogen
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Natural selection affects multiple aspects of genetic variation at putatively peutral sites across the human genome
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True single-molecule DNA sequencing of a pleistocene horse bone
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