Novo Nordisk Foundation Center for Biosustainability

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  1. 2013
  2. Published

    Accurate prediction of secondary metabolite gene clusters in filamentous fungi.. / Andersen, Mikael Rørdam; Nielsen, Jakob Blæsbjerg; Klitgaard, Andreas; Petersen, Lene Maj; Zachariasen, Mia; Hansen, Tilde J; Holberg Blicher, Lene; Gotfredsen, Charlotte Held; Larsen, Thomas Ostenfeld; Nielsen, Kristian Fog; Mortensen, Uffe Hasbro.

    In: National Academy of Sciences. Proceedings, Vol. 110, No. 1, 2013, p. E99-E107.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  3. Published

    A conceptual model linking functional gene expression and reductive dechlorination rates of chlorinated ethenes in clay rich groundwater sediment. / Bælum, Jacob; Chambon, Julie Claire Claudia; Scheutz, Charlotte; Binning, Philip John; Laier, Troels; Bjerg, Poul Løgstrup; Jacobsen, Carsten.

    In: Water Research, Vol. 47, No. 7, 2013, p. 2467-2478.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  4. Published

    Adaptively evolved yeast mutants on galactose show trade-offs in carbon utilization on glucose. / Hong, Kuk-Ki; Nielsen, Jens.

    In: Metabolic Engineering, Vol. 16, No. 1, 2013, p. 78-86.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  5. Published

    Anaerobic α-Amylase Production and Secretion with Fumarate as the Final Electron Acceptor in Saccharomyces cerevisiae. / Liu, Zihe; Österlund, Tobias; Hou, Jin; Petranovic, Dina; Nielsen, Jens.

    In: Applied and Environmental Microbiology, Vol. 79, No. 9, 2013, p. 202962-2967.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  6. Published

    ChemProt-2.0: visual navigation in a disease chemical biology database. / Kjærulff, Sonny Kim; Wich, Louis; Kringelum, Jens Vindahl; Jacobsen, Ulrik Plesner; Kouskoumvekaki, Irene; Audouze, Karine Marie Laure; Lund, Ole; Brunak, Søren; Oprea, Tudor; Taboureau, Olivier .

    In: Nucleic Acids Research, Vol. 41, No. D1, 2013, p. D464-D469.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  7. Published

    Comparative study on aptamers as recognition elements for antibiotics in a label-free all-polymer biosensor. / Dapra, Johannes; Lauridsen, Lasse Holm; Nielsen, Alex Toftgaard; Rozlosnik, Noemi.

    In: Biosensors and Bioelectronics, Vol. 43, No. 1, 2013, p. 315-320.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  8. Published

    Crystal ball - 2013.. / Curtis, Tom; Daran, Jean-Marc; Pronk, Jack T; Frey, Joachim; Jansson, Janet K; Robbins-Pianka, Adam; Knight, Rob; Schnürer, Anna; Smets, Barth F.; Smid, E J; Abee, T; Vicente, Miguel; Zengler, Karsten.

    In: Microbial Biotechnology, Vol. 6, No. 1, 2013, p. 3-16.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  9. Published

    Genome-wide assessment of the association of rare and common copy number variations to testicular germ cell cancer.. / Edsgard, Stefan Daniel; Dalgaard, Marlene Danner; Weinhold, Nils; Wesolowska, Agata; Rajpert-De Meyts, Ewa; Ottesen, Anne Marie; Juul, Anders; Skakkebæk, Niels Erik; Jensen, Thomas Skøt; Gupta, Ramneek; Leffers, Henrik; Brunak, Søren.

    In: Frontiers in Endocrinology, Vol. 4, 2013.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  10. Published

    Heat shock response improves heterologous protein secretion in Saccharomyces cerevisiae. / Hou, Jin; Österlund, Tobias; Liu, Zihe; Petranovic, Dina; Nielsen, Jens.

    In: Applied Microbiology and Biotechnology, Vol. 97, No. 8, 2013, p. 3559-3568.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  11. Published

    High in vitro antimicrobial activity of β-peptoid-peptide hybrid oligomers against planktonic and biofilm cultures of Staphylococcus epidermidis.. / Liu, Yang; Knapp, Kolja Michael; Yang, Liang; Molin, Søren; Franzyk, Henrik; Folkesson, Anders.

    In: International Journal of Antimicrobial Agents, Vol. 41, No. 1, 2013, p. 20-27.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  12. Published

    Industrial Systems Biology of Saccharomyces cerevisiae Enables Novel Succinic Acid Cell Factory.. / Otero, José Manuel; Cimini, Donatella; Patil, Kiran Raosaheb; Poulsen, Simon Guldberg; Olsson, Lisbeth; Nielsen, Jens.

    In: P L o S One, Vol. 8, No. 1, 2013, p. e54144.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  13. Published

    Production of 3-O-xylosyl quercetin in Escherichia coli. / Pandey, Ramesh Prasad; Malla, Sailesh; Simkhada, Dinesh; Kim, Byung-Gee; Sohng, Jae Kyung.

    In: Applied Microbiology and Biotechnology, Vol. 97, No. 5, 2013, p. 1889-1901.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  14. Published

    Reply to 'Mining electronic health records: an additional perspective'. / Jensen, Peter B.; Jensen, Lars J.; Brunak, Søren.

    In: Nature Reviews. Genetics, Vol. 14, No. 1, 2013, p. -.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  15. Published

    Review of reactive kinetic models describing reductive dechlorination of chlorinated ethenes in soil and groundwater. / Chambon, Julie Claire Claudia; Bjerg, Poul Løgstrup; Scheutz, Charlotte; Bælum, Jacob; Jakobsen, Rasmus; Binning, Philip John.

    In: Biotechnology and Bioengineering (Print), Vol. 110, No. 1, 2013, p. 1-23.

    Publication: Research - peer-review › Review – Annual report year: 2013

  16. Published

    Targeted Metabolic Engineering Guided by Computational Analysis of Single-Nucleotide Polymorphisms (SNPs).. / Udatha, D B R K Gupta; Rasmussen, Simon; Sicheritz-Pontén, Thomas; Panagiotou, Gianni.

    In: Systems Metabolic Engineering : Methods and Protocols. Springer Science+Business Media B.V., 2013. (Methods in Molecular Biology, Vol. 985).

    Publication: Research - peer-review › Book chapter – Annual report year: 2013

  17. Published

    The chemical interactome space between the human host and the genetically defined gut metabotypes. / Jacobsen, Ulrik Plesner; Nielsen, Henrik Bjørn; Hildebrand, Falk; Raes, Jeroen; Sicheritz-Pontén, Thomas; Kouskoumvekaki, Irene; Panagiotou, Gianni.

    In: I S M E Journal, Vol. 7, 2013, p. 730-742.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  18. Published

    Transcriptome Responses to Combinations of Stresses in Arabidopsis. / Rasmussen, Simon; Barah, Pankaj; Suarez-Rodriguez, Maria Cristina; Bressendorff, Simon; Friis, Pia; Costantino, Paolo; Bones, Atle M.; Nielsen, Henrik Bjørn; Mundy, John.

    In: Plant Physiology, Vol. 161, No. 4, 2013, p. 1783-1794.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  19. 2012
  20. Published

    A comparative analysis of the intestinal metagenomes present in guinea pigs (Cavia porcellus) and humans (Homo sapiens). / Hildebrand, Falk; Ebersbach, Tine; Nielsen, Henrik Bjørn; Li, Xiaoping; Sonne, Si Brask; dos Santos, Marcelo Bertalan Quintanilha; Dimitrov, Peter; Madsen, Lise; Qin, Junjie; Wang, Jun; Raes, Jeroen; Kristiansen, Karsten; Licht, Tine Rask.

    In: B M C Genomics, Vol. 13, No. 514, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  21. Published

    A complex multilevel attack on Pseudomonas aeruginosa algT/U expression and AlgT/U activity results in the loss of alginate production. / Sautter, Robert; Ramos, Damaris; Schneper, Lisa; Ciofu, Oana; Wassermann, Tina; Koh, Chong-Lek; Heydorn, Arne; Hentzer, Morton; Høiby, Niels; Kharazmi, Arsalan; Molin, Søren; DeVries, Caroline A.; Ohman, Dennis E.; Mathee, Kalai.

    In: Gene, Vol. 498, No. 2, 2012, p. 242-253.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  22. Published

    A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae. / Nookaew, Intawat; Papini, Marta; Pornputtapong, Natapol; Scalcinati, Gionata; Fagerberg, Linn; Uhlén, Matthias; Nielsen, Jens.

    In: Nucleic Acids Research, Vol. 40, No. 20, 2012, p. 10084-10097.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  23. Published

    Adaptation of Pseudomonas aeruginosa to the cystic fibrosis airway: an evolutionary perspective.. / Folkesson, Anders; Jelsbak, Lars; Yang, Lei; Johansen, Helle Krogh; Ciofu, Oana; Høiby, Niels; Molin, Søren.

    In: Nature Reviews. Microbiology, Vol. 10, No. 12, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  24. Published

    Amplification and Re-Generation of LNA-Modified Libraries. / Doessing, Holger; Hansen, Lykke H.; Veedu, Rakesh N.; Wengel, Jesper; Vester, Birte.

    In: Molecules, Vol. 17, No. 11, 2012, p. 13087.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  25. Published

    Analyzing the genomic variation of microbial cell factories in the era of “New Biotechnology”. / Herrgard, Markus; Panagiotou, Gianni.

    In: Computational and Structural Biotechnology Journal, Vol. 3, No. 4, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  26. Published

    Application of split-green fluorescent protein for topology mapping membrane proteins in Escherichia coli. / Toddo, Stephen; Soderstrom, Bill; Palombo, Isolde; von Heijne, Gunnar; Nørholm, Morten; Daley, Daniel O.

    In: Protein Science, Vol. 21, No. 10, 2012, p. 1571-1576.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  27. Published

    Aspergilli: Systems biology and industrial applications. / Knuf, Christoph; Nielsen, Jens.

    In: Biotechnology Journal, Vol. 7, No. 9, 2012, p. -.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  28. Published

    Association between chemical pattern in breast milk and congenital cryptorchidism: modelling of complex human exposures. / Krysiak-Baltyn, Konrad; Toppari, J.; Skakkebaek, N. E.; Jensen, Thomas Skøt; Virtanen, H. E.; Schramm, K.‐W.; Shen, Hao; Vartiainen, T.; Kiviranta, H.; Taboureau, Olivier ; Audouze, Karine Marie Laure; Brunak, S.; Main, K. M.

    In: International Journal of Andrology, Vol. 35, No. 3, 2012, p. 294-302.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  29. Published

    Automated Solid-Phase Subcloning Based on Beads Brought into Proximity by Magnetic Force. / Hudson, Elton P.; Nikoshkov, Andrej; Uhlén, Mathias; Rockberg, Johan.

    In: P L o S One, Vol. 7, No. 5, 2012, p. -.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  30. Published

    Bacterial adaptive response to changing herbicide discharge rates in the streambed sediments impacted by a landfill. / Pazarbasi, Meric Batioglu; Bælum, Jacob; Pilloni, Giovanni; Larentis, Micheal; Jacobsen, Carsten S.; Lueders, Tillmann; Hansen, Lars H.; Aamand, Jens .

    2012. Poster session presented at 14th International Symposium on Microbial Ecology, Copenhagen, Denmark.

    Publication: Research - peer-review › Poster – Annual report year: 2012

  31. Published

    Chemical analysis of a genome wide polyketide synthase gene deletion library in Aspergillus nidulans. / Larsen, Thomas Ostenfeld; Klejnstrup, Marie Louise; Nielsen, Jakob Blæsbjerg; Holm, Dorte Koefoed; Petersen, Lene Maj; Klitgaard, Andreas; Nielsen, Kristian Fog; Andersen, Mikael Rørdam; Mortensen, Uffe Hasbro.

    2012. Abstract from Directing Biosynthesis III, Nottingham, United Kingdom.

    Publication: Research - peer-review › Conference abstract for conference – Annual report year: 2012

  32. Published

    Choosing the right platform for the right product: Sustainable production of chemicals in microbial cell factories. / Herrgard, Markus.

    2012. Abstract from Chemical engineering at the Life science interface conference, Sheffield, United Kingdom.

    Publication: Research - peer-review › Conference abstract for conference – Annual report year: 2012

  33. Published

    Combating biofilms. / Yang, Liang; Liu, Yang; Wu, Hong; Song, Zhijun; Hoiby, Niels; Molin, Søren; Givskov, Michael.

    In: F E M S Immunology and Medical Microbiology, Vol. 65, No. 2, Sp. Iss. SI, 2012, p. 146-157.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  34. Published

    Common and Distant Structural Characteristics of Feruloyl Esterase Families from Aspergillus oryzae. / Udatha, D. B. R. K. Gupta; Mapelli, Valeria; Panagiotou, Gianni; Olsson, Lisbeth.

    In: P L o S One, Vol. 7, No. 6, 2012, p. e39473.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  35. Published

    Context matters — the complex interplay between resistome genotypes and resistance phenotypes. / Dantas, Gautam; Sommer, Morten.

    In: Current Opinion in Microbiology, Vol. 15, No. 5, 2012, p. 577-582.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  36. Published

    Deletion and acquisition of genomic content during early stage adaptation of Pseudomonas aeruginosa to a human host environment. / Rau, Martin H.; Marvig, Rasmus Lykke; Ehrlich, Garth D.; Molin, Søren; Jelsbak, Lars.

    In: Environmental Microbiology, Vol. 14, No. 8, 2012, p. 2200-2211.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  37. Published

    Early genetic adaptation associated with chronic pseudomonas aeruginosa airways infection. / Johansen, H. K.; Aanaes, K.; Pressler, Tacjana; Skov, M.; Nielsen, K. G.; Ciofu, Oana; Buchwald, C.; Hoiby, N.; Molin, Søren.

    In: Pediatric Pulmonology, Vol. 47, No. S35, 2012, p. 328-329.

    Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2012

  38. Published

    Efficient reverse transcription using locked nucleic acid nucleotides towards the evolution of nuclease resistant RNA aptamers.. / Crouzier, Lucile; Dubois, Camille; Edwards, Stacey L; Lauridsen, Lasse H; Wengel, Jesper; Veedu, Rakesh N.

    In: P L o S One, Vol. 7, No. 4, 2012, p. e35990.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  39. Published

    Enzymatic Recognition of 2′‐Modified Ribonucleoside 5′‐Triphosphates: Towards the Evolution of Versatile Aptamers. / Lauridsen, Lasse Holm; Rothnagel, Joseph A.; Veedu, Rakesh N.

    In: ChemBioChem, Vol. 13, No. 1, 2012, p. 19-25.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  40. Published

    Evolutionary dynamics of pseudomonas aeruginosa in CF. / Molin, Soren; Jelsbak, Lars; Johansen, Helle; Hoiby, Niels.

    In: Pediatric Pulmonology, Vol. 47, 2012, p. 152-153.

    Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2012

  41. Published

    From Genome Sequence to Taxonomy - A Skeptic’s View. / Özen, Asli Ismihan; Vesth, Tammi Camilla; Ussery, David.

    In: The Prokaryotes. ed. / Rosenberg E.2012 : Springer Berlin Heidelberg, 2012.

    Publication: Research - peer-review › Book chapter – Annual report year: 2012

  42. Published

    Genetic and environmental risk factors in congenital heart disease functionally converge in protein networks driving heart development. / Hansen, Kasper Lage; Greenway, Steven C.; Rosenfeld, Jill A.; Wakimoto, Hiroko; Gorham, Joshua M.; Segrè, Ayellet V.; Roberts, Amy E.; Smoot, Leslie B.; Pu, William T.; C. Pereira, Alexandre; Mesquita, Sonia M.; Tommerup, Niels; Brunak, Søren; Ballif, Blake C.; Shaffer, Lisa G.; Donahoe, Patricia K.; Daly, Mark J.; Seidman, Jonathan G.; Seidman, Christine E.; Larsen, Lars.

    In: National Academy of Sciences. Proceedings, Vol. 109, No. 35, 2012, p. 14035-14040.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  43. Published

    Genetics of Polyketide Metabolism in Aspergillus nidulans. / Klejnstrup, Marie L.; Frandsen, Rasmus John Normand; Holm, Dorte Koefoed; Nielsen, Morten Thrane; Mortensen, Uffe Hasbro; Larsen, Thomas Ostenfeld; Nielsen, Jakob Blæsbjerg.

    In: Metabolites, Vol. 2, No. 1, 2012, p. 100-133.

    Publication: Research - peer-review › Journal article – Annual report year: 2013

  44. Published

    Genome‐scale metabolic representation of Amycolatopsis balhimycina. / Vongsangnak, Wanwipa; Figueiredo, Luís Filipe; Förster, Jochen; Weber, Tilmann; Thykaer, Jette; Stegmann, Evi; Wohlleben, Wolfgang; Nielsen, Jens.

    In: Biotechnology and Bioengineering (Print), Vol. 109, No. 7, 2012, p. 1798-1807.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  45. Published

    Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa. / Gómez Lozano, María; Marvig, Rasmus Lykke; Molin, Søren; Long, Katherine.

    In: Environmental Microbiology, Vol. 14, No. 8, 2012, p. 2006-2016.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  46. Published

    How well do the substrates KISS the enzyme? Molecular docking program selection for feruloyl esterases. / Udatha, D. B. R. K. Gupta; Sugaya, Nobuyoshi; Olsson, Lisbeth; Panagiotou, Gianni.

    In: Scientific Reports, Vol. 2, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  47. Published

    Hyperactivity of the Ero1α Oxidase Elicits Endoplasmic Reticulum Stress but No Broad Antioxidant Response. / Hansen, Henning Gram; Schmidt, Jonas Damgard; Soltoft, Cecilie Lutzen; Ramming, Thomas; Geertz-Hansen, Henrik Marcus; Christensen, Brian; Sorensen, Esben Skipper; Juncker, Agnieszka; Appenzeller-Herzog, Christian; Ellgaard, Lars.

    In: Journal of Biological Chemistry, Vol. 287, No. 47, 2012, p. 39513-39523.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  48. Published

    Identification of a Transcription Factor Controlling pH-Dependent Organic Acid Response in Aspergillus niger.. / Poulsen, Lars; Andersen, Mikael Rørdam; Lantz, Anna Eliasson; Thykaer, Jette.

    In: P L o S One, Vol. 7, No. 12, 2012, p. e50596.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  49. Published

    Initial Pseudomonas aeruginosa infection in patients with cystic fibrosis: characteristics of eradicated and persistent isolates. / Tramper-Stranders, G. A.; van der Ent, C. K.; Molin, Søren; Yang, Liang; Hansen, Susse Kirkelund; Rau, Martin Holm; Ciofu, Oana; Johansen, H. K.; Wolfs, T. F. W.

    In: Clinical Microbiology and Infection, Vol. 18, No. 6, 2012, p. 567-574.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  50. Published

    Insights into physiological traits of Bifidobacterium animalis subsp. lactis BB-12 through membrane proteome analysis. / Gilad, Ofir; Hjernø, Karin; Østerlund, Eva Christina; Margolles, Abelardo; Svensson, Birte; Stuer-Lauridsen, Birgitte; Møller, Anders Laurell Blom; Jacobsen, Susanne.

    In: Journal of Proteomics, Vol. 75, No. 4, 2012, p. 1190-1200.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  51. Published

    Involvement of a Natural Fusion of a Cytochrome P450 and a Hydrolase in Mycophenolic Acid Biosynthesis. / Hansen, Bjarne Gram; Mnich, Ewelina; Nielsen, Kristian Fog; Nielsen, Jakob Blæsbjerg; Nielsen, Morten Thrane; Mortensen, Uffe Hasbro; Larsen, Thomas Ostenfeld; Patil, Kiran Raosaheb.

    In: Applied and Environmental Microbiology, Vol. 78, No. 14, 2012, p. 4908-4913.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  52. Published

    Knowledge engineering for health: A new discipline required to bridge the “ICT gap” between research and healthcare. / Beck, Tim; Gollapudi, Sirisha; Brunak, Søren; Graf, Norbert; Lemke, Heinz U.; Dash, Debasis; Buchan, Iain; Díaz, Carlos; Sanz, Ferran; Brookes, Anthony J.

    In: Human Mutation, Vol. 33, No. 5, 2012, p. 797-802.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  53. Published

    Mapping the genome of Plasmodium falciparum on the drug-like chemical space reveals novel anti-malarial targets and potential drug leads. / Jensen, Kasper; Plichta, Damian Rafal; Panagiotou, Gianni; Kouskoumvekaki, Irene.

    In: Molecular BioSystems, Vol. 8, No. 6, 2012, p. 1678-1685.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  54. Published

    Mining electronic health records: towards better research applications and clinical care.. / Jensen, Peter B; Jensen, Lars Juhl; Brunak, Søren.

    In: Nature Reviews. Genetics, Vol. 13, No. 6, 2012, p. 395-405.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  55. Published

    Modeling of Phenoxy Acid Herbicide Mineralization and Growth of Microbial Degraders in 15 Soils Monitored by Quantitative Real-Time PCR of the Functional tfdA Gene. / Bælum, Jacob; Prestat, Emmanuel; David, Maude M.; Strobel, Bjarne W.; Jacobsen, Carsten Suhr.

    In: Applied and Environmental Microbiology, Vol. 78, No. 15, 2012, p. 5305-5312.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  56. Published

    Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria. / Larsen, Mette Voldby; Cosentino, Salvatore; Rasmussen, Simon; Rundsten, Carsten Friis; Hasman, Henrik; Marvig, Rasmus Lykke; Jelsbak, Lars; Sicheritz-Pontén, Thomas; Ussery, David W.; Aarestrup, Frank M.; Lund, Ole.

    In: Journal of Clinical Microbiology, Vol. 50, No. 4, 2012, p. 1355-1361.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  57. Published

    Mutations in 23S rRNA Confer Resistance against Azithromycin in Pseudomonas aeruginosa. / Marvig, Rasmus Lykke; Søndergaard, Mette S. R.; Pedersen, Søren Damkiær; Høiby, Niels; Johansen, Helle Krogh; Molin, Søren; Jelsbak, Lars.

    In: Antimicrobial Agents and Chemotherapy, Vol. 56, No. 8, 2012, p. 4519-4521.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  58. Published

    Nucleic Acid Aptamers Against Biotoxins: A New Paradigm Toward the Treatment and Diagnostic Approach. / Lauridsen, Lasse Holm; Veedu, Rakesh N.

    In: Nucleic Acid Therapeutics, Vol. 22, No. 6, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  59. Published

    Peptide‐MHC class I stability is a better predictor than peptide affinity of CTL immunogenicity. / Harndahl, Mikkel Nors; Rasmussen, Michael; Roder, Gustav; Dalgaard Pedersen, Ida; Sørensen, Mikael; Nielsen, Morten; Buus, Søren.

    In: European Journal of Immunology, Vol. 42, No. 6, 2012, p. 1405-1416.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  60. Published

    Pharmaceutical protein production by yeast: towards production of human blood proteins by microbial fermentation. / Martínez, José L; Liu, Lifang; Petranovic, Dina; Nielsen, Jens.

    In: Current Opinion in Biotechnology, Vol. 23, No. 6, 2012, p. 965-971.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  61. Published

    Polysaccharides serve as scaffold of biofilms formed by mucoid Pseudomonas aeruginosa.. / Yang, Liang; Hengzhuang, Wang; Wu, Hong; Pedersen, Søren Damkiær; Jochumsen, Nicholas; Song, Zhijun; Givskov, Michael Christian; Høiby, Niels; Molin, Søren.

    In: F E M S Immunology and Medical Microbiology, Vol. 65, No. 2, 2012, p. 366-376.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  62. Published

    Proteomic Analysis of Chinese Hamster Ovary Cells. / Baycin-Hizal, Deniz; Tabb, David L.; Chaerkady, Raghothama; Chen, Lily; Lewis, Nathan E.; Nagarajan, Harish; Sarkaria, Vishaldeep; Kumar, Amit; Wolozny, Daniel; Colao, Joe; Jacobson, Elena; Tian, Yuan; O’Meally, Robert N.; Krag, Sharon S.; Cole, Robert N.; Palsson, Bernhard; Zhang, Hui; Betenbaugh, Michael.

    In: Journal of Proteome Research, Vol. 11, No. 11, 2012, p. 5265-5276.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  63. Published

    Rapid One-Step Selection Method for Generating Nucleic Acid Aptamers: Development of a DNA Aptamer against alpha-Bungarotoxin. / Lauridsen, Lasse Holm; Shamaileh, Hadi A.; Edwards, Stacey L.; Taran, Elena; Veedu, Rakesh N.

    In: P L o S One, Vol. 7, No. 7, 2012, p. e41702.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  64. Published

    Recovery of Phenotypes Obtained by Adaptive Evolution through Inverse Metabolic Engineering. / Hong, Kuk-Ki; Nielsen, Jens.

    In: Applied and Environmental Microbiology, Vol. 78, No. 21, 2012, p. 7579-7586.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  65. Published

    Resistance to Linezolid Caused by Modifications at Its Binding Site on the Ribosome. / Long, Katherine S.; Vester, Birte.

    In: Antimicrobial Agents and Chemotherapy, Vol. 56, No. 2, 2012, p. 603-612.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  66. Published

    SarA is a negative regulator of Staphylococcus epidermidis biofilm formation. / Martin, Christer; Heinze, C.; Busch, M.; Franke, G.; Hentschke, M.; Dühring, Sara Bayard; Buettner, H.; Kotasinska, M.; Wischnewski, V.; Buck, F.; Molin, Søren; Otto, Michael; Rohde, Henning.

    In: International Journal of Medical Microbiology, Vol. 302, 2012.

    Publication: Research - peer-review › Conference abstract in journal – Annual report year: 2012

  67. Published

    Scale-free behaviour of amino acid pair interactions in folded proteins. / Petersen, Steffen B. ; Neves-Petersen, Maria Teresa; Mortensen, Rasmus J. ; Henriksen, Svend B. ; Geertz-Hansen, Henrik Marcus.

    In: P L o S One, Vol. 7, No. 7, 2012, p. e41322-e41322.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  68. Published

    Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae. / Papini, Marta; Nookaew, Intawat; Uhlén, Mathias; Nielsen, Jens.

    In: Microbial Cell Factories, Vol. 11, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  69. Published

    Staphylococcus epidermidis recovered from indwelling catheters exhibit enhanced biofilm dispersal and "self-renewal" through downregulation of agr. / Dai, Lu; Yang, Liang; Parsons, Chris; Findlay, Victoria J.; Molin, Søren; Qin, Zhiqiang.

    In: B M C Microbiology, Vol. 12, 2012, p. Article No.: 102.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  70. Published

    The impact of network biology in pharmacology and toxicology. / Panagiotou, Gianni; Taboureau, Olivier .

    In: S A R and Q S A R in Environmental Research, Vol. 23, No. 3-4, Sp. Iss. SI, 2012, p. 221-235.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  71. Published

    The Order Bacillales Hosts Functional Homologs of the Worrisome cfr Antibiotic Resistance Gene. / Hansen, Lykke H.; Planellas, Mercè H.; Long, Katherine S.; Vester, Birte.

    In: Antimicrobial Agents and Chemotherapy, Vol. 56, No. 7, 2012, p. 3563-3567.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  72. Published

    The PurR regulon in Lactococcus lactis – transcriptional regulation of the purine nucleotide metabolism and translational machinery. / Jendresen, Christian Bille; Martinussen, Jan; Kilstrup, Mogens.

    In: Microbiology, Vol. 158, No. 8, 2012, p. 2026-38.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  73. Published

    The Shared Antibiotic Resistome of Soil Bacteria and Human Pathogens. / Forsberg, Kevin J.; Reyes, Alejandro; Wang, Bin; Selleck, Elizabeth M.; Sommer, Morten O. A.; Dantas, Gautam.

    In: Science, Vol. 337, No. 6098, 2012, p. 1107-1111.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  74. Published

    Toxicogenomics Investigation Under the eTOX Project. / Taboureau, Olivier ; Hersey, Anne; Audouze, Karine Marie Laure; Gautier, Laurent; Jacobsen, Ulrik Plesner; Akhtar, Ruth; Atkinson, Francis; Overington, John P.; Brunak, Søren.

    In: Journal of Pharmacogenomics & Pharmacoproteomics, 2012.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  75. Published

    Uncovering the Molecular Machinery of the Human Spindle-An Integration of Wet and Dry Systems Biology. / Rojas, Ana M.; Santamaria, Anna; Malik, Rainer; Jensen, Thomas Skot; Korner, Roman; Morilla, Ian; de Juan, David; Krallinger, Martin; Hansen, Daniel Aaen; Hoffmann, Robert Daniel; Lees, Jonathan; Reid, Adam; Yeats, Corin; Wehner, Anja; Elowe, Sabine; Clegg, Andrew B.; Brunak, Soren; Nigg, Erich A.; Orengo, Christine; Valencia, Alfonso; Ranea, Juan A. G.

    In: P L o S One, Vol. 7, No. 3, 2012, p. e31813.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  76. Published

    Wide Distribution of Closely Related, Antibiotic-Producing Arthrobacter Strains throughout the Arctic Ocean. / Wietz, Matthias; Månsson, Maria; Bowman, Jeff S.; Blom, Nikolaj; Ng, Yin; Gram, Lone.

    In: Applied and Environmental Microbiology, Vol. 78, No. 6, 2012, p. 2039-2042.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  77. 2011
  78. Published

    Functional Analysis and Heterologous expression of Polyketides Gene Cluster. / Kildegaard, Kanchana Rueksomtawin; Larsen, Thomas Ostenfeld (Supervisor).

    Kgs. Lyngby, Denmark : Technical University of Denmark (DTU), 2011.

    Publication: Research › Ph.d. thesis – Annual report year: 2011

  79. Published

    An Aboriginal Australian Genome Reveals Separate Human Dispersals into Asia. / Rasmussen, Morten; Guo, Xiaosen; Wang, Yong; Lohmueller, Kirk E.; Rasmussen, Simon; Albrechtsen, Anders; Skotte, Line; Lindgreen, Stinus; Metspalu, Mait; Jombart, Thibaut; Kivisild, Toomas; Zhai, Weiwei; Eriksson, Anders; Manica, Andrea; Orlando, Ludovic; De La Vega, Francisco M.; Tridico, Silvana; Metspalu, Ene; Nielsen, Kasper; Ávila-Arcos, María C.; Moreno-Mayar, J. Víctor; Muller, Craig; Dortch, Joe; Gilbert, M. Thomas P.; Lund, Ole; Wesolowska, Agata; Karmin, Monika; Weinert, Lucy A.; Wang, Bo; Li, Jun; Tai, Shuaishuai; Xiao, Fei; Hanihara, Tsunehiko; van Driem, George; Jha, Aashish R.; Ricaut, François-Xavier; de Knijff, Peter; Migliano, Andrea B; Gallego Romero, Irene; Kristiansen, Karsten; Lambert, David M.; Brunak, Søren; Forster, Peter; Brinkmann, Bernd; Nehlich, Olaf; Bunce, Michael; Richards, Michael; Gupta, Ramneek; Bustamante, Carlos D.; Krogh, Anders; Foley, Robert A.; Lahr, Marta M.; Balloux, Francois; Sicheritz-Pontén, Thomas; Villems, Richard; Nielsen, Rasmus; Wang, Jun; Willerslev, Eske.

    In: Science, Vol. 334, No. 6052, 2011, p. 94-98.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  80. Published

    Antibiotics and the resistant microbiome. / Sommer, Morten; Dantas, Gautam.

    In: Current Opinion in Microbiology, Vol. 14, No. 5, 2011, p. 556-563.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  81. Published

    Cost-effective multiplexing before capture allows screening of 25 000 clinically relevant SNPs in childhood acute lymphoblastic leukemia. / Wesolowska, Agata; Dalgaard, M. D.; Borst, L.; Gautier, Laurent; Bak, M.; Weinhold, Nils; Nielsen, B. F.; Helt, L. R.; Audouze, Karine Marie Laure; Nersting, J; Tommerup, N.; Brunak, Søren; Sicheritz-Pontén, Thomas; Leffers, H.; Schmiegelow, K.; Gupta, Ramneek.

    In: Leukemia, Vol. 25, 2011, p. 1001-1006.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  82. Published

    Enterotypes of the human gut microbiome. / Arumugam, Manimozhiyan; Raes, Jeroen; Pelletier, Eric; Le Paslier, Denis; Yamada, Takuji; Mende, Daniel R.; Fernandes, Gabriel R.; Tap, Julien; Bruls, Thomas; Batto, Jean-Michel; dos Santos, Marcelo Bertalan Quintanilha; Borruel, Natalia; Casellas, Francesc; Fernandez, Leyden; Gautier, Laurent; Hansen, Torben; Hattori, Masahira; Hayashi, Tetsuya; Kleerebezem, Michiel; Kurokawa, Ken; Leclerc, Marion; Levenez, Florence; Manichanh, Chaysavanh; Nielsen, Henrik Bjørn; Nielsen, Trine; Pons, Nicolas; Poulain, Julie; Qin, Junjie; Sicheritz-Pontén, Thomas; Tims, Sebastian; Torrents, David; Ugarte, Edgardo; Zoetendal, Erwin G.; Wang, Jun; Guarner, Francisco; Pedersen, Oluf; de Vos, Willem M.; Brunak, Søren; Doré, Joel; Antolín, María; Artiguenave, François; Blottiere, Hervé M.; Almeida, Mathieu; Brechot, Christian; Cara, Carlos; Chervaux, Christian; Cultrone, Antonella; Delorme, Christine; Denariaz, Gérard; Dervyn, Rozenn; Foerstner, Konrad U.; Friss, Carsten; van de Guchte, Maarten; Guedon, Eric; Haimet, Florence; Huber, Wolfgang; van Hylckama-Vlieg, Johan; Jamet, Alexandre; Juste, Catherine; Kaci, Ghalia; Knol, Jan; Lakhdari, Omar; Layec, Severine; Le Roux, Karine; Maguin, Emmanuelle; Mérieux, Alexandre; Melo Minardi, Raquel; M'rini, Christine; Muller, Jean; Oozeer, Raish; Parkhill, Julian; Renault, Pierre; Rescigno, Maria; Sanchez, Nicolas; Sunagawa, Shinichi; Torrejon, Antonio; Turner, Keith; Vandemeulebrouck, Gaetana; Varela, Encarna; Winogradsky, Yohanan; Zeller, Georg; Weissenbach, Jean; Ehrlich, S. Dusko; Bork, Peer.

    In: Nature, Vol. 473, No. 7346, 2011, p. 174-180.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  83. Published

    Genome sequences of two stress-tolerant Campylobacter jejuni poultry strains, 305 and DFVF1099.. / Takamiya, Monica; Özen, Asli Ismihan; Rasmussen, Morten; Alter, Thomas; Gilbert, Tom; Ussery, David; Knøchel, S.

    In: Journal of Bacteriology, Vol. 193, No. 19, 2011, p. 5546-5547.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  84. Published

    Metatranscriptomics of the human gut microbiome. / Sicheritz-Pontén, Thomas (Invited author).

    In: Genome Biology (Online Edition), Vol. 12 Suppl 1, 2011, p. I15.

    Publication: Research › Conference abstract in journal – Annual report year: 2011

  85. Published

    Production of Metabolites. / Katz, Michael (Inventor); Durhuus, Thomas (Inventor); Smits, Hans Peter (Inventor); Förster, Jochen (Inventor).

    Patent No.: WO2011147818. Dec 01, 2011.

    Publication: Research › Patent – Annual report year: 2012

  86. Published

    Protein Interaction-Based Genome-Wide Analysis of Incident Coronary Heart Disease. / Jensen, Majken Karoline; Pers, Tune Hannes; Dworzynski, Piotr; Girman, Cynthia J.; Brunak, Søren; Rimm, Eric B.

    In: Circulation: Cardiovascular Genetics, Vol. 4, No. 5, 2011, p. 549-U159.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  87. Published

    The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line. / Xu, Xun; Pan, Shengkai; Liu, Xin; Chen, Wenbin; Xie, Min; Wang, Wenliang; Wang, Jun; Nagarajan, Harish; Lewis, Nathan E.; Famili, Iman; Palsson, Bernhard O.; Cai, Zhiming; Gui, Yaoting; Hammond, Stephanie; Lee, Kelvin H.; Andersen, Mikael Rørdam; Neff, Norma; Passarelli, Benedetto; Koh, Winston; Fan, H. Christina; Wang, Jianbin; Quake, Stephen R.; Betenbaugh, Michael; Palsson, Bernhard; Wang, Jun.

    In: Nature Biotechnology, Vol. 29, No. 8, 2011, p. 735-741.

    Publication: Research - peer-review › Journal article – Annual report year: 2011

  88. Published

    Unravelling evolutionary strategies of yeast for improving galactose utilization through integrated systems level analysis.. / Hong, Kuk-Ki; Vongsangnak, Wanwipa; Vemuri, Goutham N; Nielsen, Jens.

    In: National Academy of Sciences. Proceedings, Vol. 108, No. 29, 2011, p. 12179-12184.

    Publication: Research - peer-review › Journal article – Annual report year: 2012

  89. 2010
  90. Published

    Hybrid dynamic modeling of Escherichia coli central metabolic network combining Michaelis–Menten and approximate kinetic equations. / Costa, Rafael S.; Machado, Daniel; Rocha, Isabel; Ferreira, Eugénio C.

    In: BioSystems, Vol. 100, No. 2, 2010, p. 150-157.

    Publication: Research - peer-review › Journal article – Annual report year: 2010

  91. 2009
  92. Published

    Ltx 109 Is a Novel Antimicrobial Agent with Marked Activity against Bacterial Biofilms. / Jensen, Rune Lyngklip; Folkesson, Anders; Molin, Søren; Stensen, W.; Svendsen, J. S.

    In: Abstracts of the Interscience Conference on Antimicrobial Agents and Chemotherapy, Vol. 49, 2009, p. 189.

    Publication: Research › Conference abstract in journal – Annual report year: 2009

  93. 2001
  94. Published

    Analysis of the complete DNA sequence of the temperate bacteriophage TP901-1: Evolution, structure, and genome organization of lactococcal bacteriophages. / Brøndsted, Lone; Østergaard, Solvej; Pedersen, Margit; Hammer, Karin; Vogensen, F.K.

    In: Virology, Vol. 283, No. 1, 2001, p. 93-109.

    Publication: Research - peer-review › Journal article – Annual report year: 2001

  95. 2000
  96. Published

    Antigen 43 facilitates formation of multispecies biofilms. / Kjærgaard, Kristian; Schembri, Mark; Ramos, C.; Molin, Søren; Klemm, Per.

    In: Environmental Microbiology, Vol. 2, No. 6, 2000, p. 695-702.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  97. Published

    Complex adaptive systems ecology. / Molin, J.; Molin, Søren.

    In: Advances in Microbial Ecology, Vol. 16, 2000, p. 233-275.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  98. Published

    Development and dynamics of Pseudomonas sp biofilms. / Tolker-Nielsen, Tim; Brinch, U. C.; Ragas, Paula Cornelia; Andersen, Jens Bo; Jacobsen, C. S.; Molin, Søren.

    In: Journal of Bacteriology, Vol. 182, No. 22, 2000, p. 6482-6489.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  99. Published

    Inactivation of gltB abolishes expression of the assimilatory nitrate reductase gene (nasB) in Pseudomonas putida KT2442. / Eberl, Leo; Ammendola, A.; Rothballer, M. H.; Givskov, Michael Christian; Sternberg, Claus; Kilstrup, Mogens; Schleifer, K. H.; Molin, Søren.

    In: Journal of Bacteriology, Vol. 182, No. 12, 2000, p. 3368-3376.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  100. Published

    Microbial communities: aggregates of individuals or coordinated systems. / Molin, Søren; Haagensen, Janus Anders Juul; Barken, Kim Bundvig; Sternberg, Claus.

    In: Community structure and co-operation in biofilms (Eds.: D. G. Allison). Cambridge : Cambridge University Press, 2000. p. 199-214.

    Publication: Research - peer-review › Article in proceedings – Annual report year: 2000

  101. Published

    Role of commensal relationships on the spatial structure of a surface-attached microbial consortium. / Nielsen, Alex Toftgaard; Tolker-Nielsen, Tim; Barken, Kim Bundvig; Molin, Søren.

    In: Environmental Microbiology, Vol. 2, No. 1, 2000, p. 59-68.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  102. Published

    Spatial organization of microbial biofilm communities. / Tolker-Nielsen, Tim; Molin, Søren.

    In: Microbial Ecology, Vol. 40, No. 2, 2000, p. 75-84.

    Publication: Research - peer-review › Journal article – Annual report year: 2000

  103. 1999
  104. Published

    Active biological containment for bioremediation in the rhizosphere. / Rodriguez, Cayo Juan Ramos; Molina, Lazaro; Ronchel, Maria-Carmen; Ramos, Juan L.; Molin, Søren.

    In: Novel approaches for bioremediation of organic pollution. New York : Plenum Publ., 1999. p. 151-156.

    Publication: Research - peer-review › Article in proceedings – Annual report year: 1999

  105. Published

    Application of molecular tools for in situ monitoring of bacterial growth activity. / Molin, Søren; Givskov, Michael Christian.

    In: Environ. Microbiol., Vol. 1, No. 5, 1999, p. 383-391.

    Publication: Research - peer-review › Journal article – Annual report year: 1999

  106. Published

    Distribution of bacterial growth activity in flow-chamber biofilms. / Sternberg, Claus; Christensen, Bjarke B.; Johansen, Tove; Nielsen, Alex Toftgaard; Andersen, Jens Bo; Givskov, Michael Christian; Molin, Søren.

    In: Applied and Environmental Microbiology, Vol. 65, No. 9, 1999, p. 4108-4117.

    Publication: Research - peer-review › Journal article – Annual report year: 1999

  107. Published

    Identification of a novel group of bacteria in sludge from a deteriorated biological phosphorus removal reactor. / Nielsen, Alex Toftgaard; Liu, Wen-Tso; Filipe, Carlos; Grady, Leslie; Molin, Søren; Stahl, David A.

    In: Applied and Environmental Microbiology, Vol. 65, No. 3, 1999, p. 1251-1258.

    Publication: Research - peer-review › Journal article – Annual report year: 1999

  108. Published

    Microbial activity in biofilm communities. / Molin, Søren.

    In: Dental plaque revisited: oral biofilms in health and disease. Chippenham : Anthony Rowe Ltd., 1999. p. 73-78.

    Publication: Research - peer-review › Article in proceedings – Annual report year: 1999

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