- Published
"Out of the Can": A Draft Genome Assembly, Liver Transcriptome, and Nutrigenomics of the European Sardine, Sardina pilchardus
Machado, A. M., Tørresen, O. K., Kabeya, N., Couto, A., Petersen, Bent, Felicio, M., Campos, P. F., Fonseca, E., Bandarra, N., Lopes-Marques, M., Ferraz, R., Ruivo, R., Fonseca, M. M., Jentoft, S., Monroig, Ó., Rodrigues da Fonseca, Rute Andreia & Castro, L. F. C., 2018, In: Genes. 9, 10, p. 1-13 485.Research output: Contribution to journal › Journal article › Research › peer-review
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24 Messages on a Sustainable Career in Research at UCPH
Larsen, K. R. (ed.), Wegener, H. C., Stein, A., Bach, A., Williams, A. R., Gall, C., Gravert, C., Gloriam, D. E., Lorenzen, E., Yvanez, E., Cappellini, E., Poulsen, F., Mortensen, J., Bentzen, J. S., Shik, J. Z., Miskowiak, K. W., Elgaard, K. K. E., Jønsson, K. A., Won, K. J., Nørgaard, L. C. & 9 others, , 2020, University of Copenhagen. 31 p.Research output: Book/Report › Report › Communication
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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
57miRNA regulation during oncogene-induced senescence
Christoffersen, N. R., Frankel, Lisa, Klausen, M., Jacobsen, A., Krogh, Anders & Lund, Anders H., May 2008.Research output: Contribution to conference › Conference abstract for conference › Research
- Published
Chlorobium Tepidum: Insights into the Structure, Physiology, and Metabolism of a Green Sulfur Bacterium Derived from the Complete Genome Sequence
Frigaard, Niels-Ulrik, Chew, A. G. M., Li, H., Maresca, J. A. & Bryant, D. A., 2003, In: Photosynthesis Research. 78, 2, p. 93-117 24 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Chlorobium tepidum mutant lacking bacteriochlorophyll c made by inactivation of the bchK gene, encoding bacteriochlorophyll c synthase
Frigaard, Niels-Ulrik, Voigt, G. D. & Bryant, D. A., 2002, In: Journal of Bacteriology. 184, 12, p. 3368-3376 8 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
De novo pathway-based biomarker identification
Alcaraz, N., List, M., Batra, R., Vandin, F., Ditzel, H. J. & Baumbach, J., 19 Sep 2017, In: Nucleic Acids Research. 45, 16, 11 p., e151.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
De novo assembly of a haplotype-resolved human genome
Cao, H., Wu, H., Luo, R., Huang, S., Sun, Y., Tong, X., Xie, Y., Liu, B., Yang, H., Zheng, H., Li, J., Li, B., Wang, Y., Yang, F., Sun, P., Liu, S., Gao, P., Huang, H., Sun, J., Chen, D. & 21 others, , 2015, In: Nature Biotechnology. 33, 6, p. 617-626 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
De novo whole-genome assembly and resequencing resources for the roan (Hippotragus equinus), an iconic African antelope
Gonçalves, M., Siegismund, Hans Redlef, Van Vuuren, B. J., Koepfli, K., Ferrand, N. & Godinho, R., 2021, In: G3: Genes, Genomes, Genetics. 11, 2, 9 p., jkab002.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Drosophila Imp iCLIP identifies an RNA assemblage coordinating F-actin formation
Hansen, H. T., Rasmussen, S. H., Adolph, S. K., Plass, M., Krogh, Anders, Sanford, J., Nielsen, Finn Cilius & Christiansen, Jan, 2015, In: Genome Biology (Online Edition). 16, 16 p., 123.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
FUT2–ABO epistasis increases the risk of early childhood asthma and Streptococcus pneumoniae respiratory illnesses
Ahluwalia, T. S., Eliasen, A. U., Sevelsted, A., Pedersen, C-E. T., Stokholm, J., Chawes, B., Bork-Jensen, J., Grarup, N., Pedersen, O., Hansen, T., Linneberg, A., Sharma, A., Weiss, S. T., Evans, M. D., Jackson, D. J., Morin, A., Krogfelt, K. A., Schjørring, S., Mortensen, P. B., Hougaard, D. M. & 13 others, , 2020, In: Nature Communications. 11, 12 p., 6398.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Giraffa camelopardalis
Liu, C., Gao, J., Huang, J., Wang, W., Heller, Rasmus & Qiu, Q., 2021, In: Trends in Genetics. 37, 9, p. 860-861 2 p.Research output: Contribution to journal › Letter › Research › peer-review
- Published
In vivo, genome-wide profiling of endogenously tagged chromatin-binding proteins with spatial and temporal resolution using NanoDam in Drosophila
Tang, J. L. Y., Krautz, Robert, Llorà-Batlle, O., Hakes, A. E., Fox, P. M. & Brand, A. H., 2022, In: STAR Protocols. 3, 4, 30 p., 101788.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Lactobacillus rhamnosus GG Genomic and Phenotypic Stability in an Industrial Production Process
Strickertsson, Marianne Stage, Wichmann, A., Jørgensen, M., Vera-Jimenéz, N. I., Wielje, M., Nielsen, Dennis Sandris, Sandelin, Albin Gustav, Chen, Y. & Baker, A., 2020, In: Applied and Environmental Microbiology. 86, 6, 15 p., e02780-19.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
SNHG5 promotes colorectal cancer cell survival by counteracting STAU1-mediated mRNA destabilization
Damas, N. D., Marcatti, M., Côme, Christophe Roger Michel, Christensen, L., Nielsen, M. M., Baumgartner, R., Gylling, H. M., Maglieri, G., Friis, Carsten, Seemann, Ernst Stefan, Rapin, N., Thézenas, S., Vang, S., Ørntoft, T., Andersen, C. L., Pedersen, J. S. & Lund, Anders H., 22 Dec 2016, In: Nature Communications. 7, 14 p., 13875.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
SigniSite: identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments
Jessen, L. E., Hoof, I., Lund, O. & Nielsen, M., 2013, In: Nucleic Acids Research. 41, W1, p. W286-W291 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
ngsTools : methods for population genetics analyses from next-generation sequencing data
Fumagalli, M., Vieira, Filipe Garrett, Linderoth, T. & Nielsen, Rasmus, 2014, In: Bioinformatics. 30, 10, p. 1486-1487 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Alle bakterier deler gener ved horisontal overførsel
Frigaard, Niels-Ulrik, 2007, In: Dansk Kemi. 88, 5, p. 28-31 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A Chinese indicine pangenome reveals a wealth of novel structural variants introgressed from other Bos species
Dai, X., Bian, P., Hu, D., Luo, F., Huang, Y., Jiao, S., Wang, X., Gong, M., Li, R., Cai, Y., Wen, J., Yang, Q., Deng, W., Nanaei, H. A., Wang, Y., Wang, F., Zhang, Z., Rosen, B. D., Heller, Rasmus & Jiang, Y., Aug 2023, In: Genome Research. 33, 8, p. 1284-1298 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A Combined Transmembrane Topology and Signal Peptide Prediction Method
Kall, L., Krogh, Anders & Sonnhammer, E. L., 2004, In: Journal of Molecular Biology. Vol. 338 (5), p. 1027-36Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A Functional Link between Nuclear RNA Decay and Transcriptional Control Mediated by the Polycomb Repressive Complex 2
Garland, W., Comet, I., Wu, M., Radzisheuskaya, A., Rib, Leonor, Vitting-Seerup, K., Lloret-Llinares, M., Sandelin, Albin Gustav, Helin, K. & Jensen, T. H., 2019, In: Cell Reports. 29, 7, p. 1800-1811 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A Generative Angular Model of Protein Structure Evolution
Golden, M., Garcia-Portugues, E., Sørensen, Michael, Mardia, K. V., Hamelryck, Thomas Wim & Hein, J., Aug 2017, In: Molecular Biology and Evolution. 34, 8, p. 2085-2100Research 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
A Probabilistic Programming Approach to Protein Structure Superposition
Sanz Moreta, Lys, Al-Sibahi, A. S., Theobald, D., Bullock, W., Rommes, B. N., Manoukian, Andreas & Hamelryck, Thomas Wim, 2019, 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019. Baruzzo, G., Daberdaku, S., Di Camillo, B., Furini, S., Giordano, E. D. & Nicosia, G. (eds.). IEEE, 5 p. 8791469Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
- Published
A Targeted Multiomics Approach to Identify Biomarkers Associated with Rapid eGFR Decline in Type 1 Diabetes
Limonte, C. P., Valo, E., Montemayor, D., Afshinnia, F., Ahluwalia, T. S., Costacou, T., Darshi, M., Forsblom, C., Hoofnagle, A. N., Groop, P-H., Miller, R. G., Orchard, T. J., Pennathur, S., Rossing, P., Sandholm, N., Snell-Bergeon, J. K., Ye, H., Zhang, J., Natarajan, L., De Boer, I. H. & 1 others, , 2020, In: American Journal of Nephrology. 51, 10, p. 839-848 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A Two-Layered Targeting Mechanism Underlies Nuclear RNA Sorting by the Human Exosome
Wu, G., Schmid, M., Rib, Leonor, Polak, P., Meola, N., Sandelin, Albin Gustav & Jensen, T. H., 2020, In: Cell Reports. 30, 7, p. 2387-2401, e1-e5Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A YTHDF–PABP interaction is required for m6A-mediated organogenesis in plants
Tankmar, Mathias Due, Reichel, M., Arribas Hernandez, Laura & Brodersen, Peter, 2023, In: EMBO Reports. 24, 12, 19 p., e57741.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A code for transcription initiation in mammalian genomes
Frith, M. C., Valen, E. D., Krogh, Anders, Hayashizaki, Y., Carninci, P. & Sandelin, Albin Gustav, 2007, In: Genome Research. 18, 1, p. 1-12 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A common Greenlandic TBC1D4 variant confers muscle insulin resistance and type 2 diabetes
Moltke, I., Grarup, N., Jørgensen, M. E., Bjerregaard, P., Treebak, J. T., Fumagalli, M., Korneliussen, T. S., Andersen, M. A., Nielsen, T. S., Krarup, N. T., Gjesing, A. M. P., Zierath, J. R., Linneberg, A., Wu, X., Sun, G., Jin, X., Al-Aama, J., Wang, J., Borch-Johnsen, K., Pedersen, O. & 3 others, , 2014, In: Nature. 512, 7513, p. 190-193 4 p.Research output: Contribution to journal › Letter › Research › peer-review
- Published
A common Greenlandic Inuit BRCA1 RING domain founder mutation
Hansen, T. V. O., Ejlertsen, Bent Laursen, Albrechtsen, Anders, Bergsten, E., Bjerregaard, P., Hansen, T., Myrhoj, T., Nielsen, P. B., Timmermans-Wielenga, V., Andersen, M. K., Jonson, L. & Nielsen, F. C., 2009, In: Breast Cancer Research and Treatment. 115, 1, p. 69-76 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
A comparison of tools for copy-number variation detection in germline whole exome and whole genome sequencing data
Gabrielaite, M., Torp, M. H., Rasmussen, Malthe Sebro, Andreu-Sánchez, S., Vieira, Filipe Garrett, Pedersen, C. B., Kinalis, S., Madsen, M. B., Kodama, M., Demircan, G. S., Simonyan, A., Yde, C. W., Olsen, L. R., Marvig, R. L., Østrup, O., Rossing, Caroline Maria, Nielsen, Finn Cilius, Winther, Ole & Bagger, F. O., 2021, In: Cancers. 13, 24, 6283.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A comparison of tools for copy-number variation detection in germline whole exome and whole genome sequencing data
Gabrielaite, M., Torp, M., Rasmussen, M., Andreu-Sánchez, S., Vieira, Filipe Garrett, Pedersen, C., Kinalis, S., Madsen, M., Yde, C., Rønn, O. L., Marvig, R., Østrup, O., Rossing, Caroline Maria, Nielsen, Finn Cilius, Winther, Ole & Bagger, F. O., 2021, bioRxiv, 29 p.Research output: Working paper › Preprint › Research
- 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
A conceptual framework for the identification of candidate drugs and drug targets in acute promyelocytic leukemia
Marstrand, T. T., Borup, R., Willer, A., Borregaard, N., Sandelin, Albin Gustav, Porse, Bo Torben & Theilgaard-Mønch, Kim, Jul 2010, In: Leukemia. 24, 7, p. 1265-75 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A draft genome sequence of the elusive giant squid, Architeuthis dux
da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H-J., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, B., Peñaloza, F., Musacchia, F., Alexander, G. C. & 24 others, , 2020, In: GigaScience. 9, 1, 12 p., giz152.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A family of insulin-like growth factor II mRNA-binding proteins represses translation in late development
Nielsen, J., Christiansen, Jan, Lykke-Andersen, J., Johnsen, A. H., Wewer, Ulla M. & Nielsen, Finn Cilius, 1999, In: Molecular and Cellular Biology. 19, 2, p. 1262-1270 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A fluorescent substrate for carbon-phosphorus lyase: towards the pathway for organophosphonate metabolism in bacteria
He, S., Lou, Y., Hove-Jensen, B. & Zechel, D. L., 2009, In: Bioorganic & Medicinal Chemistry Letters. 19, 20, p. 5954-5957Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A generative, probabilistic model of local protein structure
Boomsma, Wouter, Mardia, K. V., Taylor, C. C., Ferkinghoff-Borg, J., Krogh, Anders & Hamelryck, Thomas Wim, 2008, In: Proceedings of the National Academy of Science of the United States of America. 105, 26, p. 8932-8937 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A genetic analysis of carbon-nanotube-binding proteins
Brown, Stanley, Jespersen, T. S. & Nygård, Jesper, 2008, In: Small. 4, 4, p. 416-420Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A genome-wide scan in affected sib-pairs with idiopathic recurrent miscarriage suggests genetic linkage
Kolte, A. M., Nielsen, Henriette Svarre, Moltke, Ida, Degn, B., Pedersen, B., Sunde, L., Nielsen, Finn Cilius & Christiansen, O. B., 2011, In: Molecular Human Reproduction. 17, 6, p. 379-385 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, S., Schiffels, S., Subramanian, S., Wright, J. L., Albrechtsen, A., Barbieri, C., Dupanloup, I. & 55 others, , 2016, In: Nature. 538, 7624, p. 207-214 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A hidden Markov model approach for determining expression from genomic tiling micro arrays
Terkelsen, K. M., Gardner, P. P., Arctander, P. & Krogh, Anders, 2006, In: BMC Bioinformatics. 7, 239Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A high-resolution map of human evolutionary constraint using 29 mammals
Lindblad-Toh, K., Garber, M., Zuk, O., Lin, M. F., Parker, B. J., Jordan, G., Mauceli, E., Ward, L. D., Lowe, C. B., Holloway, A. K., Clamp, M., Gnerre, S., Moltke, Ida, Wen, J. & Pedersen, J. S., 27 Oct 2011, In: Nature. 478, 7370, p. 476-82 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
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
A likelihood method for estimating present-day human contamination in ancient male samples using low-depth X-chromosome data
Moreno-Mayar, J. V., Korneliussen, Thorfinn Sand, Dalal, J., Renaud, Gabriel, Albrechtsen, Anders, Nielsen, Rasmus & Malaspinas, A., 2020, In: Bioinformatics. 36, 3, p. 828-841 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A long-standing Pleistocene refugium in southern Africa and a mosaic of refugia in East Africa: insights from mtDNA and the common eland antelope
Lorenzen, Eline, Masembe, C., Arctander, P. & Siegismund, Hans Redlef, 2010, In: Journal of Biogeography. 37, 3, p. 571-581 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A method for detecting IBD regions simultaneously in multiple individuals--with applications to disease genetics
Moltke, Ida, Albrechtsen, Anders, Hansen, Thomas van Overeem, Nielsen, Finn Cilius & Nielsen, Rasmus, 2011, In: Genome Research. 21, 7, p. 1168-80 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A new class of genic nuclear RNA species in Arabidopsis
van Wonterghem, M., Thieffry, A., Boyd, M., Lange, Jette Bornholdt & Brodersen, Peter, 2018, In: FEBS Letters. 592, 4, p. 631-643 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A non-conserved miRNA regulates lysosomal function and impacts on a human lysosomal storage disorder
Frankel, Lisa, Di Malta, C., Wen, J., Eskelinen, E., Ballabio, A. & Lund, Anders H., 2014, In: Nature Communications. 5, 11 p., 5840.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A novel splice-affecting HNF1A variant with large population impact on diabetes in Greenland
Thuesen, A. C. B., Stæger, F. F., Kaci, A., Solheim, M. H., Aukrust, I., Jørsboe, E., Santander, C. G., Andersen, M. K., Li, Z., Gilly, A., Stinson, S. E., Gjesing, A. P., Bjerregaard, P., Pedersen, M. L., Larsen, C. V. L., Grarup, N., Jørgensen, M. E., Zeggini, E., Bjørkhaug, L., Njølstad, P. R. & 3 others, , 2023, In: The Lancet Regional Health - Europe. 24, 12 p., 100529.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A perdeuterated cryoprotectant for neutron studies and a demonstration of its use for neutron powder diffraction on L-(--)-ephedrine hemihydrate
Krebs, F. C., Jørgensen, M., Lebech, B. & Frydenvang, Karla Andrea, 2001, In: Journal of Applied Crystallography. 34, 2, p. 203-207 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A perspective on inverse design of battery interphases using multi-scale modelling, experiments and generative deep learning
Bhowmik, A., Castelli, I. E., Garcia-Lastra, J. M., Bjørn-Jørgensen, P., Winther, Ole & Vegge, T., 2019, In: Energy Storage Materials. 21, p. 446-456Research output: Contribution to journal › Review › Research › peer-review
- Published
A polygenic architecture with habitat-dependent effects underlies ecological differentiation in Silene
Gramlich, S., Liu, Xiaodong, Favre, A., Buerkle, C. A. & Karrenberg, S., 2022, In: New Phytologist. 235, 4, p. 1641-1652 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A population of stem cells with strong regenerative potential discovered in deer antlers
Qin, T., Zhang, G., Zheng, Y., Li, S., Yuan, Y., Li, Q., Hu, M., Si, H., Wei, G., Gao, X., Cui, X., Xia, B., Ren, J., Wang, K., Ba, H., Liu, Z., Heller, R., Li, Z., Wang, W., Huang, J. & 2 others, , 2023, In: Science (New York, N.Y.). 379, 6634, p. 840-847 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A pragmatic approach for integrating molecular tools into biodiversity conservation
Bertola, L. D., Brüniche-Olsen, A., Kershaw, F., Russo, I. R. M., MacDonald, A. J., Sunnucks, P., Bruford, M. W., Cadena, C. D., Ewart, K. M., de Bruyn, M., Eldridge, M. D. B., Frankham, R., Guayasamin, J. M., Grueber, C. E., Hoareau, T. B., Hoban, S., Hohenlohe, P. A., Hunter, M. E., Kotze, A., Kuja, J. & 21 others, , 2024, In: Conservation Science and Practice. 6, 1, 15 p., e13053.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A probabilistic approach to protein structure prediction: PHAISTOS in CASP8
Borg, M., Boomsma, Wouter, Ferkinghoff-Borg, J., Frellsen, J., Harder, T. P., Mardia, K., Røgen, P., Stovgaard, K. & Hamelryck, Thomas Wim, 2009, LASR 2009 — Statistical Tools for Challenges in Bioinformatics. Proceedings. Gusnanto, A., Mardia, K. V. & Fallaize, C. J. (eds.). University of Leeds, p. 65-70 6 p.Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
- Published
A probabilistic approach to protein structureprediction: PHAISTOS in CASP8
Borg, M., Boomsma, Wouter, Ferkinghoff-Borg, J., Frellsen, J., Harder, T. P., Mardia, K. V., Røgen, P., Stovgaard, K. & Hamelryck, Thomas Wim, 2009, In: School of Mathematics. p. 65-70Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A probabilistic model of RNA conformational space
Frellsen, J., Moltke, Ida, Thiim, M., Mardia, K. V., Ferkinghoff-Borg, J. & Hamelryck, Thomas Wim, 2009, In: PLoS Computational Biology. 5, 6, p. e1000406Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A promoter-level mammalian expression atlas
Forest, A. R. R., Kawaji, H., Rehli, M., Baillie, J. K., De Hoon, M. J. L., Haberle, V., Lassmann, T., Kulakovskiy, I. V., Lizio, M., Itoh, M., Andersson, R., Mungall, C. J., Meehan, T. F., Schmeier, S., Bertin, N., Jørgensen, M., Dimont, E., Arner, E., Schmidl, C., Schaefer, U. & 241 others, , 2014, In: Nature. 507, 7493, p. 462-470 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A reference-free approach to analyse RADseq data using standard next generation sequencing toolkits
Heller, Rasmus, Nursyifa, Casia, Garcia Erill, Genís, Salmona, J., Chikhi, L., Meisner, Jonas, Korneliussen, Thorfinn Sand & Albrechtsen, Anders, 2021, In: Molecular Ecology Resources. 21, 4, p. 1085-1097 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis
Ribeiro, Â. M., Zepeda Mendoza, M. L., Bertelsen, Mads Frost, Kristensen, Annemarie T., Jarvis, E. D., Gilbert, M Thomas P & Rodrigues da Fonseca, Rute Andreia, 2015, In: B M C Evolutionary Biology. 15, 8 p., 124.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
Machado, A. M., Felício, M., Fonseca, E., Rodrigues da Fonseca, Rute Andreia & Castro, L. F. C., 2018, In: Data in Brief. 18, p. 276-284 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A review on ethnobotany, phytochemistry, and pharmacology of the genus Didymocarpus wall. (Gesneriaceae)
Nanjala, C., Odago, W. O., Rono, P. C., Waswa, E. N., Mutinda, E. S., Oulo, M. A., Muema, F. W., Wanga, V. O., Mkala, E. M., Kuja, J., Njire, M. M. & Hu, G. W., 2022, In: Journal of Ethnopharmacology. 295, 25 p., 115404.Research output: Contribution to journal › Review › 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
A simple probabilistic model of multibody interactions in proteins
Johansson, Kristoffer Enøe & Hamelryck, Thomas Wim, 2013, In: Proteins: Structure, Function, and Bioinformatics. 81, 8, p. 1340-1350 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A simple procedure for routine RNA extraction and miRNA array analyses from a single thyroid in vivo fine needle aspirate
Rossing, M., Kaczkowski, B., Futoma-Kazmierczak, E., Glud, M., Klausen, M., Faber, Jens, Nygaard, Birte, Kiss, K., Sørensen, C. H., Nielsen, Finn Cilius, Bennedbæk, F. N. & Friis-Hansen, Lennart Jan, 2010, In: Scandinavian Journal of Clinical & Laboratory Investigation. 70, 8, p. 529-534 6 p.Research output: Contribution to journal › Journal article › 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
A statistical view on the reference ratio method
Mardia, K., Frellsen, J., Borg, M., Ferkinghoff-Borg, J. & Hamelryck, Thomas Wim, 2011. 6 p.Research output: Contribution to conference › Paper › Research
- Published
A step-by-step guide to analyzing CAGE data using R/Bioconductor
Thodberg, Malte & Sandelin, Albin Gustav, 18 Jun 2019, In: F1000Research. 8, 49 p., 886.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.
Enroth, S., Andersson, C., Andersson, Robin, Wadelius, C., Gustafsson, M. & Komorowski, J., 2012, In: Algorithms for Molecular Biology. 7, 1, p. 2 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A structural biology community assessment of AlphaFold2 applications
Akdel, M., Pires, D. E., Porta Pardo, E., Jänes, J., Zalevsky, A. O., Meszaros, B., Bryant, P., Good, L. L., Laskowski, R. A., Pozzati, G., Shenoy, A., Zhu, W., Kundrotas, P., Serra, V. R., Rodrigues, C. H. M., Dunham, A. S., Burke, D., Borkakoti, N., Velankar, S., Frost, A. & 14 others, , 2022, In: Nature Structural & Molecular Biology. 29, 11, 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A study of bacterial gene regulatory mechanisms: Dynamic features of gene regulatory mechanisms in EscherichEia coli and small RNA post-transcriptional regulation in Vibrio cholerae
Hansen, S., 2013, Department of Biology, Faculty of Science, University of Copenhagen. 134 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
A towering genome: Experimentally validated adaptations to high blood pressure and extreme stature in the giraffe
Liu, C., Gao, J., Cui, X., Li, Z., Chen, L., Yuan, Y., Zhang, Y., Mei, L., Zhao, L., Cai, D., Hu, M., Zhou, B., Li, Z., Qin, T., Si, H., Li, G., Lin, Z., Xu, Y., Zhu, C., Yin, Y. & 9 others, , 2021, In: Science Advances. 7, 12, 13 p., eabe9459.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A unified architecture of transcriptional regulatory elements
Andersson, Robin, Sandelin, Albin Gustav & Danko, C. G., Aug 2015, In: Trends in Genetics. 31, 8, p. 426-433 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, T., Banasik, Karina, Faerch, K., Andersen, G., Albrechtsen, Anders, Borch-Johnsen, K., Clausen, J. O., Jørgensen, T., Vaag, Allan, Pedersen, Oluf Borbye & Hansen, Torben, 2009, In: Diabetologia. 52, 10, p. 2122-2129 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
ABC50 interacts with eukaryotic initiation factor 2 and associates with the ribosome in an ATP-dependent manner.
Tyzack, J., Wang, X., Belsham, Graham John & Proud, C., Nov 2000, In: The Journal of Biological Chemistry.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
AI Implementation and Capability Development in Manufacturing: An Action Research Case
Eklöf, Jon, Snis, U. L., Hamelryck, Thomas Wim, Grima, A. & Rønning, Ola, 2024, Proceedings of the 57th Hawaii International Conference on System Sciences - HICSS 2024. Hawaii International Conference on System Sciences, 10 p.Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
- Published
ANGSD: analysis of next generation sequencing data
Korneliussen, Thorfinn Sand, Albrechtsen, Anders & Nielsen, Rasmus, 2014, In: B M C Bioinformatics. 15, 13 p., 356.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Aberrant Gene Expression in Acute Myeloid Leukaemia
Bagger, F. O., 2014, Department of Biology, Faculty of Science, University of Copenhagen.Research output: Book/Report › Ph.D. thesis › Research
- Published
Accumulation of intermediates of the carbon-phosphorus lyase pathway for phosphonate degradation in phn mutants of Escherichia coli
Hove-Jensen, B., Rosenkrantz, T. J., Zechel, D. L. & Willemoës, Martin, 2010, In: Journal of Bacteriology. 192, 1, p. 370-374Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Accurate genotyping across variant classes and lengths using variant graphs
Sibbesen, Jonas Andreas, Maretty, L., Krogh, Anders, Petersen, Bent, Sibbesen, Jonas Andreas, Liu, S., Have, C. T., Bork-Jensen, J., Guo, X., Hansen, Torben, Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Wang, J. & Brunak, Søren, 2018, In: Nature Genetics. 50, p. 1054-1059 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Accurate protein stability predictions from homology models
Valanciute, A., Nygaard, L., Zschach, Henrike, Maglegaard Jepsen, M., Lindorff-Larsen, Kresten & Stein, Amelie, 2023, In: Computational and Structural Biotechnology Journal. 21, p. 66-73 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Acute Genome-wide effects of Rosiglitazone on PPARγ transcriptional networks in Adipocytes
Haakonsson, A. K., Madsen, M. S., Nielsen, R., Sandelin, Albin Gustav & Mandrup, S., 2013, In: Molecular Endocrinology. 27, 9, p. 1536-1549 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Adaptable probabilistic mapping of short reads using position specific scoring matrices
Kerpedjiev, P., Frellsen, J., Lindgreen, S. & Krogh, Anders, 2014, In: B M C Bioinformatics. 15, 17 p., 15:100.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Adaptations to a subterranean environment and longevity revealed by the analysis of mole rat genomes
Fang, X., Seim, I., Huang, Z., Gerashchenko, M. V., Xiong, Z., Turanov, A. A., Zhu, Y., Lobanov, A. V., Fan, D., Yim, S. H., Yao, X., Ma, S., Yang, L., Lee, S-G., Kim, E. B., Bronson, R. T., Sumbera, R., Buffenstein, R., Zhou, X., Krogh, A. & 4 others, , 2014, In: Cell Reports. 8, 5, p. 1354-1364 11 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
AdapterRemoval v2: rapid adapter trimming, identification, and read merging
Schubert, Mikkel, Lindgreen, S. & Orlando, L. A. A., 2016, In: BMC Research Notes. 9, 7 p., 88.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Adaptionism-30 years after Gould and Lewontin
Nielsen, Rasmus, 2009, In: Evolution. 63, 10, p. 2487-90 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Adaptive evolution of cytochrome c oxidase: Infrastructure for a carnivorous plant radiation
Jobson, R. W., Nielsen, Rasmus, Laakkonen, L., Wikström, M. & Albert, V. A., 2004, In: Proceedings of the National Academy of Sciences of the United States of America. 101, 52, p. 18064-18068 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server.
Käll, L., Krogh, Anders & Sonnhammer, E. L. L., 2007, In: Nucleic Acids Research. 35, Web Server issue, p. W429-32Research output: Contribution to journal › Journal article › Research › peer-review
- Published
African bushpigs exhibit porous species boundaries and appeared in Madagascar concurrently with human arrival
Balboa, R. F., Bertola, L. D., Brüniche-Olsen, A., Rasmussen, M. S., Liu, X., Besnard, G., Salmona, J., Santander, C. G., He, S., Zinner, D., Pedrono, M., Muwanika, V., Masembe, C., Schubert, M., Kuja, J., Quinn, L., Garcia-Erill, G., Stæger, F. F., Rakotoarivony, R., Henrique, M. & 14 others, , 2024, In: Nature Communications. 15, 1, 15 p., 172.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
African climate and geomorphology drive evolution and ghost introgression in sable antelope
Rocha, J. L., Vaz Pinto, P., Siegismund, Hans Redlef, Meyer, M., Jansen van Vuuren, B., Veríssimo, L., Ferrand, N. & Godinho, R., 2022, In: Molecular Ecology. 31, 10, p. 2968-2984 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Age-associated DNA methylation changes in immune genes, histone modifiers and chromatin remodeling factors within 5 years after birth in human blood leukocytes
Acevedo, N., Reinius, L. E., Vitezic, M., Fortino, V., Söderhäll, C., Honkanen, H., Veijola, R., Simell, O., Toppari, J., Ilonen, J., Knip, M., Scheynius, A., Hyöty, H., Greco, D. & Kere, J., 2015, In: Clinical Epigenetics. 7, 20 p., 34.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Airway inflammation in chronic rhinosinusitis with nasal polyps and asthma: the united airways concept further supported
Håkansson, K., Bachert, C., Konge, Lars, Thomsen, Simon Francis, Pedersen, Anders Elm, Poulsen, Steen Seier, Martin-Bertelsen, T., Winther, Ole, Backer, Vibeke & von Buchwald, Christian, 2015, In: PloS one. 10, 7, 11 p., e0127228.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Algorithms for mapping high-throughput DNA sequences
Frellsen, J., Menzel, P. & Krogh, Anders, 2014, Comprehensive Biomedical Physics: Bioinformatics. Brahme, A. (ed.). Elsevier, Vol. 6. p. 41-50 10 p. (Reference Module in Biomedical Sciences, Vol. 6).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Allele frequency-free inference of close familial relationships from genotypes or low-depth sequencing data
Waples, R. K., Albrechtsen, Anders & Moltke, Ida, 2019, In: Molecular Ecology. 28, 1, p. 35-48 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
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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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