- 2012
- Published
mRNA pseudoknot structures can act as ribosomal roadblocks
Hansen, J. T., Oddershede, L. B. & Sørensen, Michael Askvad, 2012, In: Nucleic Acids Research. 40, 1, p. 303-313 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
An efficient null model for conformational fluctuations in proteins
Harder, T. P., Bottaro, S., Boomsma, Wouter, Olsson, S., Ferkinghoff-Borg, J. & Hamelryck, Thomas Wim, 2012, In: Structure. 20, 6, p. 1028-1039 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Fast large-scale clustering of protein structures using Gauss integrals
Harder, T. P., Borg, M., Boomsma, Wouter, Røgen, P. & Hamelryck, Thomas Wim, 2012, In: Bioinformatics. 28, 4, p. 510-515 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Cape buffalo mitogenomics reveals a holocene shift in the African human-megafauna dynamics
Heller, Rasmus, Brüniche-Olsen, A. & Siegismund, Hans Redlef, 2012, In: Molecular Ecology. 21, 16, p. 3947-3959 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Predictive active set selection methods for Gaussian processes
Henao, R. & Winther, Ole, 2012, In: Neurocomputing. 80, p. 10-18 9 p.Research output: Contribution to journal › Conference article › Research › peer-review
- Published
Extensive X-linked adaptive evolution in central chimpanzees
Hvilsom, C., Qian, Y., Bataillon, T., Li, Y., Mailund, T., Sallé, B., Carlsen, F., Li, R., Zheng, H., Jiang, T., Jiang, H., Jin, X., Terkelsen, K. M., Hobolth, A., Siegismund, Hans Redlef, Wang, J. & Schierup, M. H., 2012, In: Proceedings of the National Academy of Sciences USA (PNAS). 109, 6, p. 2054-2059 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
An effort to use human-based exome capture methods to analyze chimpanzee and macaque exomes
Jin, X., He, M., Ferguson, B., Meng, Y., Ouyang, L., Ren, J., Mailund, T., Sun, F., Sun, L., Shen, J., Zhuo, M., Song, L., Wang, J., Ling, F., Zhu, Y., Hvilsom, C., Siegismund, H. R., Liu, X., Gong, Z., Ji, F. & 15 others, , 2012, In: P L o S One. 7, 7, 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Computational cancer biology: from carcinogenesis to metastasis
Kaczkowski, B., 2012, Department of Biology, Faculty of Science, University of Copenhagen. 125 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
Integrative analyses reveal novel strategies in HPV11,-16 and -45 early infection
Kaczkowski, B., Rossing, M., Andersen, D. K., Dreher, A., Morevati, M., Visser, M. A., Winther, Ole, Nielsen, Finn Cilius & Norrild, B., 2012, In: Scientific Reports. 2, p. 515Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Serotype identification and VP1 coding sequence analysis of foot-and-mouth disease viruses from outbreaks in Eastern and Northern Uganda in 2008/9
Kasambula, L., Belsham, G., Siegismund, Hans Redlef, Muwanika, V. B., Ademun-Okurut, A. R. & Masembe, C., 2012, In: Transboundary and Emerging Diseases. 59, 4, p. 323-330 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The role of miRNAs in human papilloma virus (HPV)-associated cancers: bridging between HPV-related head and neck cancer and cervical cancer
Lajer, C. B., Garnæs, E., Friis-Hansen, Lennart Jan, Norrild, B., Therkildsen, M. H., Glud, M., Rossing, M., Lajer, H., Svane, D., Skotte, L., Specht, Lena, von Buchwald, Christian & Nielsen, Finn Cilius, 2012, In: B J C. 106, p. 1526-1534 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Metazoan promoters: emerging characteristics and insights into transcriptional regulation
Lenhard, B., Sandelin, Albin Gustav & Carninci, P., 2012, In: Nature Reviews. Genetics. 13, 4, p. 233-245 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
AdapterRemoval: easy cleaning of next generation sequencing reads
Lindgreen, S., 2012, In: BMC Research Notes. 5, 337, 7 p., 337.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Comparative phylogeography of African savannah ungulates
Lorenzen, Eline, Heller, Rasmus & Siegismund, Hans Redlef, 2012, In: Molecular Ecology. 21, 15, p. 3656-3670 15 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
DGCR8 HITS-CLIP reveals novel functions for the microprocessor
Macias, S., Plass, M., Stajuda, A., Michlewski, G., Eyras, E. & Cáceres, J. F., 2012, In: Nature Structural and Molecular Biology. 19, 8Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Mixtures of concentrated multivariate sine distributions with applications to bioinformatics
Mardia, K. V., Kent, J. T., Zhang, Z., Taylor, C. C. & Hamelryck, Thomas Wim, 2012, In: Journal of Applied Statistics. 39, 11, p. 2475-2492 18 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Statistics of bivariate von mises distributions
Mardia, K. V. & Frellsen, J., 2012, Bayesian methods in structural bioinformatics. Hamelryck, T., Mardia, K. & Ferkinghoff-Borg, J. (eds.). Springer, p. 159-178 20 p. (Statistics for Biology and Health).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
RILogo: visualising RNA-RNA interactions
Menzel, K. P., Seemann, Ernst Stefan & Gorodkin, Jan, 2012, In: Bioinformatics. 28, 19, p. 2523-2526 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genetic diversity in the desert warthog (Phacochoerus aethiopicus delameri) population of eastern Africa
Muwanika, V. B., Kock, R., Masembe, C. & Siegismund, Hans Redlef, 2012, In: South African Journal of Wildlife Research. 42, 1, p. 54-59 6 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
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
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
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
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
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
Down-regulation of microRNAs controlling tumourigenic factors in follicular thyroid carcinoma
Rossing, M., Helweg-Larsen, R. B., Henao Giraldo, R., Winther, Ole, Vikeså, J., Niazi, O., Godballe, C., Krogdahl, A., Glud, M., Sørensen, C. H., Kiss, K., Bennedbæk, F. N. & Nielsen, Finn Cilius, 2012, In: Journal of Molecular Endocrinology. 48, 1, p. 11-23 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Cross-species ChIP-seq studies provide insights into regulatory strategies of PPAR¿ in adipocytes
Schmidt, S. F., Jørgensen, M., Sandelin, Albin Gustav & Mandrup, S., 2012, In: Transcription. 3, 1, p. 19-24 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Improving ancient DNA read mapping against modern reference genomes
Schubert, Mikkel, Ginolhac, A., Lindgreen, S., Thompson, J. F., Al-Rasheid, K. A. S., Willerslev, Eske, Krogh, Anders & Orlando, L. A. A., 2012, In: BMC Genomics. 13, 15 p., 178.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Association testing for next-generation sequencing data using score statistics
Skotte, L., Korneliussen, Thorfinn Sand & Albrechtsen, Anders, 2012, In: Genetic Epidemiology. 36, 5, p. 430-437 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Interaction of antidepressants with the serotonin and norepinephrine transporters: mutational studies of the S1 substrate binding pocket
Sørensen, L., Andersen, J., Thomsen, M., Hansen, S. M. R., Zhao, X., Sandelin, Albin Gustav, Strømgaard, Kristian & Kristensen, Anders Skov, 2012, In: The Journal of Biological Chemistry. 287, 52, p. 43694-43707 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Interaction of antidepressants with the serotonin and norepinephrine transporters: mutational studies of the S1 substrate binding pocket
Sørensen, L., Andersen, J., Thomsen, M., Hansen, S. M. R., Zhao, X., Sandelin, Albin Gustav, Strømgaard, Kristian & Kristensen, Anders Skov, 2012, In: Journal of Biological Chemistry. 287, p. 43694-43707 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Mediator regulates non-coding RNA transcription at fission yeast centromeres
Thorsen, M., Hansen, H., Venturi, M., Holmberg, Steen & Thon, Genevieve, 2012, In: Epigenetics & Chromatin. 5, p. 1-10 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
MicroRNAs and Their Antagonists as Novel Therapeutics
Vinther, Jeppe, Rukov, J. & Shomron, N., 2012, From Nucleic Acids Sequences to Molecular Medicine. Erdmann, V. A. & Barciszewski, J. (eds.). Springer Publishing Company, p. 503-523 21 p. (RNA Technologies).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Mammalian tissues defective in nonsense-mediated mRNA decay display highly aberrant splicing patterns
Weischenfeldt, Joachim Lütken, Waage, J. E., Tian, G., Zhao, J., Damgaard, I., Jakobsen, J. S., Kristiansen, Karsten, Krogh, Anders, Wang, J. & Porse, Bo Torben, 2012, In: Genome Biology (Online Edition). 13, 5, 19 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
Xu, X., Liu, X., Ge, S., Jensen, J. D., Hu, F., Li, X., Dong, Y., Gutenkunst, R. N., Fang, L., Huang, L., Li, J., He, W., Zhang, G., Zheng, X., Zhang, F., Li, Y., Yu, C., Kristiansen, K., Zhang, X., Wang, J. & 5 others, , 2012, In: Nature Biotechnology. 30, 1, p. 105-111 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
GMD: measuring the distance between histograms with applications on high-throughput sequencing reads
Zhao, X. & Sandelin, Albin Gustav, 2012, In: Bioinformatics. 28, 8, p. 1164-1165 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
On gene regulation in eukaryotes: computational approaches to decipher transcriptional regulation at genetic and epigenetic level
Zhao, X., 2012, Department of Biology, Faculty of Science, University of Copenhagen. 170 p.Research output: Book/Report › Ph.D. thesis › Research
- 2013
- Published
Exome sequencing-driven discovery of coding polymorphisms associated with common metabolic phenotypes
Albrechtsen, A., Grarup, N., Li, Y., Sparsø, T. H., Tian, G., Cao, H., Jiang, T., Kim, S. Y., Korneliussen, T. S., Li, Q., Nie, C., Wu, R., Skotte, L., Morris, A. P., Ladenvall, C., Cauchi, S., Stancáková, A., Andersen, G., Astrup, A., Banasik, K. & 86 others, , 2013, In: Diabetologia. 56, 2, p. 298-310 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Probabilistic Equilibrium Sampling of Protein Structures from SAXS Data and a Coarse Grained Debye Formula
Andreetta, C., 2013, Department of Biology, Faculty of Science, University of Copenhagen.Research output: Book/Report › Ph.D. thesis › Research
- Published
Parallel GPGPU Evaluation of Small Angle X-ray Scattering Profiles in a Markov Chain Monte Carlo Framework
Antonov, L. D., Andreetta, C. & Hamelryck, Thomas Wim, 2013, Biomedical Engineering Systems and Technologies. Gabriel, J., Schier, J. & Huffel, S. V. (eds.). Springer Science+Business Media, Vol. 357. p. 222-235 14 p. (Communications in Computer and Information Science).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
HemaExplorer: a database of mRNA expression profiles in normal and malignant haematopoiesis
Bagger, F. O., Rapin, N. P. J., Theilgaard-Mønch, Kim, Kaczkowski, B., Thorén, L. A. M., Jendholm, L. J., Winther, Ole & Porse, Bo Torben, 2013, In: Nucleic Acids Research. 41, Database issue, p. D1034-D1039 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Phaistos user manual
Boomsma, Wouter, Bottaro, S., Hamelryck, Thomas Wim, Frellsen, J., Andreetta, C., Borg, M., Harder, T., Johansson, Kristoffer Enøe, Stovgaard, K. & Tian, P., 2013, 90 p.Research output: Book/Report › Book › Education
- Published
PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure
Boomsma, Wouter, Frellsen, J., Harder, T. P., Bottaro, S., Johansson, Kristoffer Enøe, Tian, P., Stovgaard, K., Andreetta, C., Olsson, S., Valentin, J., Antonov, L. D., Christensen, A. S., Borg, M., Jensen, Jan Halborg, Lindorff-Larsen, Kresten, Ferkinghoff-Borg, J. & Hamelryck, Thomas Wim, 2013, In: Journal of Computational Chemistry. 34, 19, p. 1697-1705 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A short-read multiplex sequencing method for reliable, cost-effective and high-throughput genotyping in large-scale studies: [plus] Erratum
Cao, H., Wang, Y., Zhang, W., Chai, X., Zhang, X., Chen, S., Yang, F., Zhang, C., Guo, Y., Liu, Y., Tang, Z., Chen, C., Xue, Y., Zhen, H., Xu, Y., Rao, B., Liu, T., Zhao, M., Zhang, W., Li, Y. & 6 others, , 2013, In: Human Mutation. 34, 12, p. 1715-1720 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein structure validation and refinement using amide proton chemical shifts derived from quantum mechanics
Christensen, A. S., Linnet, T. E., Borg, M., Boomsma, Wouter, Lindorff-Larsen, Kresten, Hamelryck, Thomas Wim & Jensen, Jan Halborg, 2013, In: PLoS ONE. 8, 12, 10 p., e84123.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
mTOR complex 2 phosphorylates IMP1 cotranslationally to promote IGF2 production and the proliferation of mouse embryonic fibroblasts.
Dai, N., Christiansen, Jan, Nielsen, F. & Avruch, J., 2013, In: Genes & Development. 27, 3, p. 301-312 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Combining the multicanonical ensemble with generative probabilistic models of local biomolecular structure
Frellsen, J., Hamelryck, Thomas Wim & Ferkinghoff-Borg, J., 2013, Proceedings of the 59th World Statistics Congress of the International Statistical Institute, 2013 . Hague, p. 139-144 6 p.Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research
- Published
Quantifying population genetic differentiation from next-generation sequencing data
Fumagalli, M., Vieira, Filipe Garrett, Korneliussen, Thorfinn Sand, Linderoth, T., Huerta-Sánchez, E., Albrechtsen, Anders & Nielsen, Rasmus, Nov 2013, In: Genetics. 195, 3, p. 979-992 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Estimating inbreeding coefficients from NGS data: impact on genotype calling and allele frequency estimation
Vieira, Filipe Garrett, Fumagalli, M., Albrechtsen, Anders & Nielsen, Rasmus, 2013, In: Genome Research. 23, p. 1852-1861 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Detection of Active Matriptase using a Biotinylated Chloromethyl Ketone Peptide
Godiksen, S., Soendergaard, C., Friis, S., Jensen, J. K., Lange, Jette Bornholdt, Sales, K. U., Huang, M., Bugge, T. H. & Vogel, Lotte, 2013, In: P L o S One. 8, 10, 10 p., e77146.Research output: Contribution to journal › Journal article › Research › peer-review
Most downloads
-
6192
downloads
Reconstructing genome evolution in historic samples of the Irish potato famine pathogen
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
5492
downloads
Natural selection affects multiple aspects of genetic variation at putatively peutral sites across the human genome
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
5254
downloads
True single-molecule DNA sequencing of a pleistocene horse bone
Research output: Contribution to journal › Journal article › Research › peer-review
Published
Latest publications
Characterizing glucokinase variant mechanisms using a multiplexed abundance assay
Research output: Contribution to journal › Journal article › Research › peer-review
Genetic diversity of lion populations in Kenya: Evaluating past management practices and recommendations for future conservation actions
Research output: Contribution to journal › Journal article › Research › peer-review
MYC activity at enhancers drives prognostic transcriptional programs through an epigenetic switch
Research output: Contribution to journal › Journal article › Research › peer-review