Computational and RNA Biology

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  1. 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

  2. Published

    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, Cantarero Arevalo, Lourdes, Kristiansen, Maria, Lund, Marianne N., Borregaard, Michael Krabbe, Høyland-Kroghsbo, Nina Molin, Iversen, Rune, Viskum, U., Nosch, Marie Louise Bech & Hjorth, Jens, 2020, University of Copenhagen. 31 p.

    Research output: Book/Report › Report › Communication

  3. 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

  4. 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

  5. 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

  6. 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

  7. 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. 1211-1223

    Research output: Contribution to journal › Journal article › Research › peer-review

  8. 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

  9. 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, He, G., Huang, W., Huang, Z., Li, Y., Tellier, L. C. A. M., Liu, X., Feng, Q., Xu, X., Zhang, X., Bolund, L., Krogh, Anders, Kristiansen, Karsten, Drmanac, R., Drmanac, S., Nielsen, R., Li, S., Wang, J., Yang, H., Li, Y., Wong, G. K. & Wang, J., 2015, In: Nature Biotechnology. 33, 6, p. 617-626 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. 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

  11. 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

  12. 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, Bybjerg-Grauholm, J., Bækvad-Hansen, M., Mors, O., Nordentoft, Merete, Børglum, A. D., Werge, Thomas, Agerbo, E., Gern, J. E., Lemanske, R. F., Ober, C., Pedersen, A. G., Bisgaard, H. & Bønnelykke, Klaus, 2020, In: Nature Communications. 11, 12 p., 6398.

    Research output: Contribution to journal › Journal article › Research › peer-review

  13. 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

  14. 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

  15. 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

  16. 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

  17. 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

  18. 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

  19. 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

  20. 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

  21. 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

  22. 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. 1027-36

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. 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

  24. 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. 2085-2100

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. 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. 202-207

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research

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