Novo Nordisk Foundation Center for Biosustainability

  1. 2015
  2. In press

    A logical data representation framework for electricity-driven bioproduction processes. / Patil, Sunil A.; Gildemyn, Sylvia; Pant, Deepak; Zengler, Karsten; Logan, Bruce E.; Rabaey, Korneel.

    In: Biotechnology Advances, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  3. Published
  4. Published

    Applications of computational modeling in metabolic engineering of yeast. / Kerkhoven, Eduard J.; Lahtvee, Petri-Jaan; Nielsen, Jens.

    In: F E M S Yeast Research, Vol. 15, No. 1, 2015, p. 1-13.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  5. Published
  6. Published

    A systems approach to traditional oriental medicine. / Kim, Hyun Uk; Ryu, Jae Yong; Lee, Jong Ok; Lee, Sang Yup.

    In: Nature Biotechnology, Vol. 33, No. 3, 2015, p. 264-268.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  7. Published

    Biorefineries for the production of top building block chemicals and their derivatives. / Choi, Sol; Song, Chan Woo; Shin, Jae Ho; Lee, Sang Yup.

    In: Metabolic Engineering, Vol. 28, 2015, p. 223-239.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  8. Published

    Bistability in a Metabolic Network Underpins the De Novo Evolution of Colony Switching in Pseudomonas fluorescens. / Gallie, Jenna; Libby, Eric; Bertels, Frederic; Remigi, Philippe; Jendresen, Christian Bille; Ferguson, Gayle C.; Desprat, Nicolas; Buffing, Marieke F.; Sauer, Uwe; Beaumont, Hubertus J. E.; Martinussen, Jan; Kilstrup, Mogens; Rainey, Paul B.

    In: P L o S Biology, Vol. 13, No. 3, e1002109, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  9. E-pub ahead of print
  10. E-pub ahead of print

    Co-evolution of strain design methods based on flux balance and elementary mode analysis. / Machado, Daniel; Herrgard, Markus.

    In: Metabolic Engineering Communications, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  11. Published
  12. Published

    Controllability analysis of transcriptional regulatory networks reveals circular control patterns among transcription factors. / Österlund, Tobias; Bordel, Sergio; Nielsen, Jens.

    In: Integrative Biology, Vol. 7, No. 5, 2015, p. 560-568.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  13. Published
  14. Published

    CTX-M-1 β-lactamase expression in Escherichia coli is dependent on cefotaxime concentration, growth phase and gene location.. / Kjeldsen, Thea S. B.; Overgaard, Martin; Nielsen, Søren S.; Bortolaia, Valeria; Jelsbak, Lotte; Sommer, Morten Otto Alexander; Guardabassi, Luca; Olsen, John E.

    In: Journal of Antimicrobial Chemotherapy, Vol. 70, No. 1, 2015, p. 62-70.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  15. Published

    Design of homo-organic acid producing strains using multi-objective optimization. / Kim, Tae Yong; Park, Jong Myoung; Kim, Hyun Uk; Cho, Kwang Myung; Lee, Sang Yup.

    In: Metabolic Engineering, Vol. 28, 2015, p. 63-73.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  16. E-pub ahead of print

    Development of a VHH-Based Erythropoietin Quantification Assay. / Kol, Stefan; Beuchert Kallehauge, Thomas; Adema, Simon; Hermans, Pim.

    In: Molecular Biotechnology, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  17. Published
  18. Published

    Diversity of small RNAs expressed in Pseudomonas species. / Gomez-Lozano, Mara; Marvig, Rasmus Lykke; Molina-Santiago, Carlos; Tribelli, Paula Maria; Ramos, Juan-Luis; Molin, Søren.

    In: Environmental Microbiology Reports, Vol. 7, No. 2, 2015, p. 227-236.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  19. Published

    Electrifying microbes for the production of chemicals. / Tremblay, Pier-Luc; Zhang, Tian.

    In: Frontiers in Microbiology, Vol. 6, 201, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  20. Published

    Engineering the oxygen sensing regulation results in an enhanced recombinant human hemoglobin production by Saccharomyces cerevisiae. / Martínez, José L.; Liu, Lifang; Petranovic, Dina; Nielsen, Jens.

    In: Biotechnology and Bioengineering, Vol. 112, No. 1, 2015, p. 181–188.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  21. Published

    Enhanced amino acid utilization sustains growth of cells lacking Snf1/AMPK. / Nicastro, Raffaele; Tripodi, Farida; Guzzi, Cinzia; Reghellin, Veronica; Khoomrung, Sakda; Capusoni, Claudia; Compagno, Concetta; Airoldi, Cristina; Nielsen, Jens; Alberghina, Lilia; Coccetti, Paola.

    In: B B A - Molecular Cell Research, Vol. 1853, No. 7, 2015, p. 1615-1625.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  22. Published

    Evolutionary insight from whole-genome sequencing of Pseudomonas aeruginosa from cystic fibrosis patients. / Marvig, Rasmus Lykke; Madsen Sommer, Lea Mette; Jelsbak, Lars; Molin, Søren; Johansen, Helle Krogh.

    In: Future Microbiology, Vol. 10, No. 4, 2015, p. 599-611.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  23. Published

    Extended spectrum beta-lactamase-producing Escherichia coli forms filaments as an initial response to cefotaxime treatment. / Kjeldsen, Thea S. B.; Sommer, Morten Otto Alexander; Olsen, John E.

    In: B M C Microbiology, Vol. 15, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  24. Published

    Fast and sensitive detection of indels induced by precise gene targeting. / Yang, Zhang; Steentoft, Catharina; Hauge, Camilla; Hansen, Lars; Thomsen, Allan Lind; Niola, Francesco; Vester-Christensen, Malene Bech; Frödin, Morten; Clausen, Henrik; Wandall, Hans H.; Bennett, Eric P.

    In: Nucleic Acids Research, Vol. 43, No. 9, 20e59-e59, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  25. Published

    Fast Swinnex Filtration (FSF): A fast and robust sampling and extraction method suitable for metabolomics analysis of cultures grown in complex media. / McCloskey, Douglas; Utrilla, Jose; Naviaux, Robert K.; Palsson, Bernhard O.; Feist, Adam.

    In: Metabolomics, Vol. 11, No. 1, 2015, p. 198-209.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  26. Published

    Genome mining reveals unlocked bioactive potential of marine Gram-negative bacteria. / Machado, Henrique; Sonnenschein, Eva; Melchiorsen, Jette; Gram, Lone.

    In: B M C Genomics, Vol. 16, 158, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  27. Published

    How to set up collaborations between academia and industrial biotech companies. / Pronk, Jack T.; Lee, Sang Yup; Lievense, Jeff; Pierce, John; Palsson, Bernhard; Uhlén, Mathias; Nielsen, Jens.

    In: Nature Biotechnology, Vol. 33, No. 3, 2015, p. 237-240.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  28. In press

    Impact of synthetic biology and metabolic engineering on industrial production of fine chemicals. / Jullesson, David; David, Florian; Pfleger, Brian; Nielsen, Jens.

    In: Biotechnology Advances, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  29. Published

    LC-MS analysis reveals the presence of graminan- and neo-type fructans in wheat grains. / Verspreet, Joran; Hansen, Anders Holmgaard; Dornez, Emmie; Delcour, Jan A.; Van den Ende, Wim; Harrison, Scott James; Courtin, Christophe M.

    In: Journal of Cereal Science, Vol. 61, 2015, p. 133-138.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  30. Published
  31. Published

    Model-driven discovery of underground metabolic functions in Escherichia coli. / Guzmán, Gabriela I.; Utrilla, José; Nurk, Sergey; Brunk, Elizabeth; Monk, Jonathan M.; Ebrahim, Ali; Palsson, Bernhard O.; Feist, Adam M.

    In: Proceedings of the National Academy of Sciences, Vol. 112, No. 3, 2015, p. 929-934.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  32. Published
  33. Published

    New paradigms for metabolic modeling of human cells. / Mardinoglu, Adil; Nielsen, Jens.

    In: Current Opinion in Biotechnology, Vol. 34, 2015, p. 91-97.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  34. Published

    Next-generation genome-scale models for metabolic engineering. / King, Zachary A.; Lloyd, Colton J.; Feist, Adam M.; Palsson, Bernhard O.

    In: Current Opinion in Biotechnology, Vol. 35, 2015, p. 23-29.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  35. Published

    Simultaneous sinus and lung infections in patients with primary ciliary dyskinesia. / Alanin, Mikkel Christian; Johansen, Helle Krogh; Aanaes, Kasper; Høiby, Niels; Pressler, Tanja; Skov, Marianne; Nielsen, Kim Gjerum; Von Buchwald, Christian.

    In: Acta Oto-Laryngologica, Vol. 135, No. 1, 2015, p. 58-63.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  36. Published
  37. Published

    Solid-phase cloning for high-throughput assembly of single and multiple DNA parts. / Lundqvist, Magnus; Edfors, Fredrik; Sivertsson, Åsa; Hallström, Björn M.; Hudson, Elton P.; Tegel, Hanna; Holmberg, Anders; Uhlén, Mathias; Rockberg, Johan.

    In: Nucleic Acids Research, Vol. 43, No. 7, 20e49-e49, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  38. Published

    The architecture of ArgR-DNA complexes at the genome-scale in Escherichia coli. / Cho, Suhyung; Cho, Yoo-Bok; Kang, Taek Jin; Kim, Sun Chang; Palsson, Bernhard; Cho, Byung-Kwan.

    In: Nucleic Acids Research, Vol. 43, No. 6, 2015, p. 3079-3088.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  39. Published

    The effect of short-term, high-dose oral N-acetylcysteine treatment on oxidative stress markers in cystic fibrosis patients with chronic P-aeruginosa infection - A pilot study. / Skov, Marianne; Pressler, Tacjana; Lykkesfeldt, Jens; Poulsen, Henrik Enghusen; Jensen, Peter Ostrup; Johansen, Helle Krogh; Qvist, Tavs; Kraemer, Dorthe; Hoiby, Niels; Ciofu, Oana.

    In: Journal of Cystic Fibrosis, Vol. 14, No. 2, 2015, p. 211-218.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  40. Published

    The fur Gene as a New Phylogenetic Marker for Vibrionaceae Species Identification. / Machado, Henrique; Gram, Lone.

    In: Applied and Environmental Microbiology, Vol. 81, No. 8, 2015, p. 2745-2752.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  41. Published

    Tissue-based map of the human proteome.. / Uhlén, Mathias; Fagerberg, Linn; Hallström, Björn M.; Lindskog, Cecilia; Oksvold, Per; Mardinoglu, Adil; Sivertsson, Åsa; Kampf, Caroline; Sjöstedt, Evelina; Asplund, Anna; Olsson, IngMarie; Edlund, Karolina; Lundberg, Emma; Navani, Sanjay; Szigyarto, Cristina Al-Khalili; Odeberg, Jacob; Djureinovic, Dijana; Takanen, Jenny Ottosson; Hober, Sophia; Alm, Tove; Edqvist, Per-Henrik; Berling, Holger; Tegel, Hanna; Mulder, Jan; Rockberg, Johan; Nilsson, Peter; Schwenk, Jochen M.; Hamsten, Marica; von Feilitzen, Kalle; Forsberg, Mattias; Persson, Lukas; Johansson, Fredric; Zwahlen, Martin; von Heijne, Gunnar; Nielsen, Jens; Pontén, Fredrik.

    In: Science (New York, N.Y.), Vol. 347, No. 6220, 1260419, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  42. Published

    Use of Adaptive Laboratory Evolution To Discover Key Mutations Enabling Rapid Growth of Escherichia coli K-12 MG1655 on Glucose Minimal Medium. / LaCroix, Ryan A.; Sandberg, Troy E.; O'Brien, Edward J.; Utrilla, Jose; Ebrahim, Ali; Guzman, Gabriela I.; Szubin, Richard; Palsson, Bernhard; Feist, Adam.

    In: Applied and Environmental Microbiology, Vol. 81, No. 1, 2015, p. 2017-30.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  43. 2014
  44. Published

    3HP TOLERANCE. / Kildegaard, Kanchana Rueksomtawin (Inventor); Borodina, Irina (Inventor); Förster, Jochen (Inventor); Nielsen, Jens (Inventor).

    Patent No.: WO2014198841. Dec 18, 2014.

    Publication: ResearchPatent – Annual report year: 2014

  45. Published
  46. Published

    A compendium of genetic variant data. / Cardoso, Joao; Schöning, Lars Yannik; Herrgard, Markus; Sonnenschein, Nikolaus.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  47. Published

    A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana.. / Lindemose, Søren; Jensen, Michael Krogh; de Velde, Jan Van; O'Shea, Charlotte; Heyndrickx, Ken S.; Workman, Christopher; Vandepoele, Klaas; Skriver, Karen; De Masi, Federico.

    In: Nucleic Acids Research, Vol. 42, No. 12, 2014, p. 7681-7693.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  48. Published

    Advances in metabolic engineering of yeast Saccharomyces cerevisiae for production of chemicals. / Borodina, Irina; Nielsen, Jens.

    In: Biotechnology Journal, Vol. 9, No. 5, 2014, p. 609-620.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  49. Published

    Ageing of atrazine in manure amended soils assessed by bioavailability to Pseudomonas sp. strain ADP. / Glæsner, Nadia; Bælum, Jacob; Strobel, Bjarne W.; Jacobsen, Carsten S.

    In: Biodegradation, Vol. 25, No. 2, 2014, p. 217-225.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  50. Published

    A kinetic model of thiamine biosynthesis in Escherichia coli. / Matos, Marta; Herrgard, Markus; Andersen, Mikael Rørdam; Sonnenschein, Nikolaus.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  51. Published

    A model‐driven quantitative metabolomics analysis of aerobic and anaerobic metabolism in E. coli K‐12 MG1655 that is biochemically and thermodynamically consistent. / McCloskey, Douglas; Gangoiti, Jon A.; King, Zachary A.; Naviaux, Robert K.; Barshop, Bruce A.; Palsson, Bernhard; Feist, Adam.

    In: Biotechnology and Bioengineering, Vol. 111, No. 4, 2014, p. 803-815.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  52. Published

    A new high-throughput LC-MS method for the analysis of complex fructan mixtures.. / Verspreet, Joran; Hansen, Anders Holmgaard; Dornez, Emmie; Courtin, Christophe M.; Harrison, Scott James.

    In: Analytical and Bioanalytical Chemistry, Vol. 406, No. 19, 2014, p. 4785-4788.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  53. Published

    An integrated catalog of reference genes in the human gut microbiome. / Li, Junhua; Jia, Huijue; Cai, Xianghang; Zhong, Huanzi; Feng, Qiang; Sunagawa, Shinichi; Arumugam, Manimozhiyan; Kultima, Jens Roat; Prifti, Edi; Nielsen, Trine; Juncker, Agnieszka; Nielsen, Henrik Bjørn; Brunak, Søren.

    In: Nature Biotechnology, Vol. 32, No. 8, 2014, p. 834-841.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  54. E-pub ahead of print

    Antibiofilm Properties of Acetic Acid. / Bjarnsholt, Thomas; Alhede, Morten; Jensen, Peter Østrup; Nielsen, Anne K.; Johansen, Helle Krogh; Homøe, Preben; Høiby, Niels; Givskov, Michael Christian; Kirketerp-Møller, Klaus.

    In: Advances in Wound Care, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  55. Published

    Application of a controllable degron strategy for metabolic engineering. / Knuf, Christoph; Maury, Jerome; Jacobsen, Simo Abdessamad; Forster, Jochen.

    In: New Biotechnology, Vol. 31, 2014, p. S163.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2014

  56. Published

    Application of synthetic biology for production of chemicals in yeast Saccharomyces cerevisiae. / Borodina, Irina; Li, Mingji.

    In: F E M S Yeast Research, Vol. 15, No. 1, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  57. Published
  58. Published

    A sustainable route to produce the scytonemin precursor using Escherichia coli. / Malla, Sailesh; Sommer, Morten O. A.

    In: Green Chemistry, Vol. 16, No. 6, 2014, p. 3255-3265.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  59. Published
  60. Published

    Bacterial diversity in snow on North Pole ice floes. / Hauptmann, Aviaja Zenia Edna Lyberth; Stibal, Marek ; Bælum, Jacob; Sicheritz-Pontén, Thomas; Brunak, Søren; Bowman, Jeff S.; Hansen, Lars H. ; Jacobsen, Carsten S.; Blom, Nikolaj.

    In: Extremophiles, Vol. 18, 2014, p. 945-951.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  61. Published

    Balanced globin protein expression and heme biosynthesis improve production of human hemoglobin in Saccharomyces cerevisiae. / Liu, Lifang; Martínez, José L.; Liu, Zihe; Petranovic, Dina; Nielsen, Jens.

    In: Metabolic Engineering, Vol. 21, 2014, p. 9-16.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  62. Published

    Bioelectrochemical reduction of carbon dioxide by pure culture at the cathode. / Aryal, Nabin; Tremblay, Pier-Luc; Chen, Leifeng; Höglund, Daniel; Zhang, Tian.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  63. Published

    Biofuels. Altered sterol composition renders yeast thermotolerant.. / Caspeta, Luis; Chen, Yun; Ghiaci, Payam; Feizi, Amir; Buskov, Steen; Hallström, Björn M.; Petranovic, Dina; Nielsen, Jens.

    In: Science, Vol. 346, No. 6205, 2014, p. 75-78.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  64. Published

    Biopharmaceutical protein production bySaccharomyces cerevisiae: current state and future prospects. / Huang, Mingtao; Bao, Jichen; Nielsen, Jens.

    In: Pharmaceutical Bioprocessing, Vol. 2, No. 2, 2014, p. 167-182.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  65. Published

    BioREFINE-2G project – Engineering of industrial yeast strains for production of dicarboxylic acids from side and waste streams. / Stovicek, Vratislav; Chen, Xiao; Borodina, Irina; Förster, Jochen.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  66. Published

    Biosynthesis of Phenylnannolone A, a Multidrug Resistance Reversal Agent from the Halotolerant Myxobacterium Nannocystis pusilla B150. / Bouhired, Sarah M.; Crüsemann, Max; Almeida, Celso; Weber, Tilmann; Piel, Jörn; Schäberle, Till F.; König, Gabriele M.

    In: ChemBioChem, Vol. 15, No. 5, 2014, p. 757-765.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  67. Published

    Biotechnology for renewable chemicals. / Borodina, Irina; Kildegaard, Kanchana Rueksomtawin; Jensen, Niels Bjerg; Sherstyk, Svetlana; Maury, Jerome; Forster, Jochen; Herrgard, Markus; Nielsen, Jens.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  68. Published

    Characterization of Binding Epitopes of CA125 Monoclonal Antibodies. / Marcos-Silva, Lara; Narimatsu, Yoshiki; Halim, Adnan; Campos, Diana; Zhang, Yang; Tarp, Mads A.; Pereira, Pedro J. B.; Mandel, Ulla; Bennett, Eric P.; Valchrushev, Sergey Y.; Levery, Steven B.; David, Leonor; Clausen, Henrik.

    In: Journal of Proteome Research, Vol. 13, No. 7, 2014, p. 3349-3359.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  69. Published

    Coexistence and Within-Host Evolution of Diversified Lineages of Hypermutable Pseudomonas aeruginosa in Long-term Cystic Fibrosis Infections. / Feliziani, Sofia; Marvig, Rasmus Lykke; Lujan, Adela M.; Moyano, Alejandro J.; Di Rienzo, Julio A.; Johansen, Helle Krogh; Molin, Søren; Smania, Andrea M.

    In: P L o S Genetics, Vol. 10, No. 10, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  70. Published

    Cofactory: Sequence-based prediction of cofactor specificity of Rossmann folds. / Geertz-Hansen, Henrik Marcus; Blom, Nikolaj; Feist, Adam; Brunak, Søren; Petersen, Thomas Nordahl.

    In: Proteins, Vol. 82, No. 9, 2014, p. 1819-1828.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  71. Published

    Combinatorial Strategies for Improving Multiple-Stress Resistance in Industrially Relevant Escherichia coli Strains.. / Lennen, Rebecca; Herrgard, Markus.

    In: Applied and Environmental Microbiology, Vol. 80, No. 19, 2014, p. 6223-6242.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  72. Published

    Comparing Whole-Genome Sequencing with Sanger Sequencing for spa Typing of Methicillin-Resistant Staphylococcus aureus. / Bartels, Mette Damkjaer; Petersen, Andreas; Worning, Peder; Nielsen, Jesper Boye; Larner-Svensson, Hanna; Johansen, Helle Krogh; Andersen, Leif Percival; Jarlov, Jens Otto; Boye, Kit; Larsen, Anders Rhod; Westh, Henrik.

    In: European Journal of Clinical Microbiology & Infectious Diseases, Vol. 52, No. 12, 2014, p. 4305-4308.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  73. Published

    Complete genome sequence of the actinobacterium Amycolatopsis japonica MG417-CF17T (=DSM 44213T) producing (S,S)-N,N′-ethylenediaminedisuccinic acid. / Stegmann, Evi; Albersmeier, Andreas; Spohn, Marius; Gert, Helena; Weber, Tilmann; Wohlleben, Wolfgang; Kalinowski, Jörn; Rückert, Christian.

    In: Journal of Biotechnology, Vol. 189, 2014, p. 46-47.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  74. Published
  75. Published

    Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli. / Seo, Sang Woo; Kim, Donghyuk; Latif, Haythem; O'Brien, Edward J.; Szubin, Richard; Palsson, Bernhard.

    In: Nature Communications, Vol. 5, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  76. Published

    Design and application of transcription factor based metabolite sensors in Escherichia coli. / Siedler, Solvej; Stahlhut, Steen Gustav; Bringer, Stephanie; Bott, Michael; Maury, Jerome; Sommer, Morten Otto Alexander.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  77. Published

    Determining the Control Circuitry of Redox Metabolism at the Genome-Scale. / Federowicz, Stephen; Kim, Donghyuk; Ebrahim, Ali; Lerman, Joshua; Nagarajan, Harish; Cho, Byung-kwan; Zengler, Karsten; Palsson, Bernhard.

    In: P L o S Genetics, Vol. 10, No. 4, e1004264, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  78. Published

    Development of a yeast cell factory for production of aromatic products. / Rodriguez Prado, Edith Angelica; Kildegaard, Kanchana Rueksomtawin; Li, Mingji; Borodina, Irina; Nielsen, Jens.

    In: New Biotechnology, Vol. 31, No. Supplement, PG-02, 2014, p. S130-S130.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2014

  79. Published

    Development of Graphene-based novel cathode material in MES system. / Chen, Leifeng; Aryal, Nabin; Ammam, Fariza; Tremblay, Pier-Luc; Zhang, Tian.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  80. Published

    Development of Industrial Yeast Platform Strains. / Bergdahl, Basti; Dato, Laura; Förster, Jochen.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  81. Published

    Direct Mutagenesis of Thousands of Genomic Targets using Microarray-derived Oligonucleotides. / Bonde, Mads; Kosuri, Sriram; Genee, Hans Jasper; Sarup-Lytzen, Kira; Church, George M.; Sommer, Morten; Wang, Harris H.

    In: A C S Synthetic Biology, 2014, p. 17-22.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  82. Published

    Draft Genome Sequence of Photobacterium halotolerans S2753, Producer of Bioactive Secondary Metabolites. / Machado, Henrique; Månsson, Maria; Gram, Lone.

    In: Genome Announcements, Vol. 2, No. 3, e00535-14, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  83. Published
  84. Published

    Effects of introducing heterologous pathways on microbial metabolism with respect to metabolic optimality. / Kim, Hyun Uk; Kim, Byoungjin; Seung, Do Young; Yup Lee, Sang.

    In: Biotechnology and Bioprocess Engineering, Vol. 19, No. 4, 2014, p. 660-667.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  85. Published

    Engineering amino acid supply pathways in Chinese hamster ovary cells. / Ley, Daniel; Lund, Anne Mathilde; Rank, Julie; Kildegaard, Helene Faustrup; Andersen, Mikael Rørdam.

    2014. Poster session presented at 9th Danish Conference on Biotechnology and Molecular Biology, Denmark.

    Publication: ResearchPoster – Annual report year: 2014

  86. Published

    Engineering synergy in biotechnology. / Nielsen, Jens; Fussenegger, Martin; Keasling, Jay; Yup Lee, Sang; Liao, James C.; Prather, Kristala; Palsson, Bernhard.

    In: Nature Chemical Biology, Vol. 10, No. 5, 2014, p. 319-322.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  87. Published

    Evolution of Escherichia coli to 42 °C and Subsequent Genetic Engineering Reveals Adaptive Mechanisms and Novel Mutations.. / Sandberg, Troy E.; Pedersen, Margit; LaCroix, Ryan A.; Ebrahim, Ali; Bonde, Mads; Herrgard, Markus; Palsson, Bernhard; Sommer, Morten; Feist, Adam.

    In: Molecular Biology and Evolution, Vol. 31, No. 10, 2014, p. 2647-2662.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  88. Published
  89. Published
  90. Published

    Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics. / Kouskoumvekaki, Irene; Shublaq, Nour ; Brunak, Søren.

    In: Briefings in Bioinformatics, Vol. 15, No. 6, 2014, p. 942-952.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  91. Published

    ‘Forcing the issue’ - Aromatic tuning facilitates stimulus-independent modulation of a two-component signaling circuit. / Nørholm, Morten; von Heijne, Gunnar; Draheim, Roger R.

    In: A C S Synthetic Biology, Vol. 4, No. 4, 2014, p. 474-481.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  92. Published

    Generation of an atlas for commodity chemical production in Escherichia coli and a novel pathway prediction algorithm, GEM-Path. / Campodonico, Miguel A.; Andrews, Barbara A.; Asenjo, Juan A.; Palsson, Bernhard; Feist, Adam.

    In: Metabolic Engineering, Vol. 25, 2014, p. 140-158.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  93. Published

    Genetically engineered yeast. / Borodina, Irina (Inventor); Kildegaard, Kanchana Rueksomtawin (Inventor); Förster, Jochen (Inventor); Öberg, Fredrik (Inventor).

    IPC No.: C12N15/52. Patent No.: WO2014057036. Apr 17, 2014.

    Publication: ResearchPatent – Annual report year: 2014

  94. Published

    Genome Mining for antibiotics biosynthesis pathways with antiSMASH 3. / Weber, Tilmann; Kim, Hyun Uk; Blin, Kai; Takano, Eriko; Breitling, Rainer; Medema, Marnix.

    Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby : Technical University of Denmark, 2014.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2014

  95. Published

    Genome-scale analysis of the high-efficient protein secretion system of Aspergillus oryzae. / Liu, Lifang; Feizi, Amir; Osterlund, Tobias; Hjort, Carsten; Nielsen, Jens.

    In: B M C Systems Biology, Vol. 8, No. 73, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  96. Published

    Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states. / Cho, Byung-Kwan; Kim, Donghyuk; Knight, Eric M.; Zengler, Karsten; Palsson, Bernhard.

    In: Journal of Biology (Online), Vol. 12, No. 4, 4, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  97. Published
  98. Published

    High-throughput screening for industrial enzyme production hosts by droplet microfluidics. / Sjostrom, Staffan L.; Bai, Yunpeng; Huang, Mingtao; Liu, Zihe; Nielsen, Jens; Jönsson, Håkan; Svahn, Helene Andersson.

    In: Lab On a Chip, Vol. 14, No. 4, 2014, p. 806-813.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  99. Published

    How to Fight Back Against Antibiotic Resistance. / Dantas, Gautam; Sommer, Morten.

    In: American Scientist, Vol. 102, No. 1, 2014, p. 42-51.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  100. Published

    Human Intestinal Cells Modulate Conjugational Transfer of Multidrug Resistance Plasmids between Clinical Escherichia coli Isolates.. / Machado, Ana Manuel; Sommer, Morten.

    In: P L o S One, Vol. 9, No. 6, 2014, p. e100739.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  101. Published

    Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes. / Nielsen, Henrik Bjørn; Almeida, Mathieu; Juncker, Agnieszka; Rasmussen, Simon; Li, Junhua; Sunagawa, Shinichi; Plichta, Damian Rafal; Gautier, Laurent; Pedersen, Anders Gorm; Emmanuelle, Le Chatelier; Pelletier, Eric; Bonde, Ida; Nielsen, Trine; Manichanh, Chaysavanh; Arumugam, Manimozhiyan; Batto, Jean-Michel; dos Santos, Marcelo Bertalan Quintanilha; Blom, Nikolaj; Borruel, Natalia; Burgdorf, Kristoffer S.; Boumezbeur, Fouad; Casellas, Francesc; Doré, Joël; Dworzynski, Piotr; Guarner, Francisco; Hansen, Torben; Hildebrand, Falk; Kaas, Rolf Sommer; Kennedy, Sean; Kristiansen, Karsten; Kultima, Jens Roat; Léonard, Pierre; Levenez, Florence; Lund, Ole; Moumen, Bouziane; Denis, Le Paslier; Pons, Nicolas; Pedersen, Oluf; Prifti, Edi; Qin, Junjie; Raes, Jeroen; Sørensen, Søren; Tap, Julien; Tims, Sebastian; Ussery, David; Yamada, Takuji; Renault, Pierre; Sicheritz-Pontén, Thomas; Bork, Peer; Wang, Jun; Brunak, Søren; Ehrlich, S. Dusko.

    In: Nature Biotechnology, Vol. 32, No. 8, 2014, p. 822-828.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  102. Published

    Identification of Bacterial Small RNAs by RNA Sequencing. / Gómez Lozano, María; Marvig, Rasmus Lykke; Molin, Søren; Long, Katherine.

    Pseudomonas Methods and Protocols. ed. / Alain Filloux; Juan-Luis Ramos. Springer Science+Business Media B.V., 2014. p. 433-456 (Methods in Molecular Biology, Vol. 1149).

    Publication: Research - peer-reviewBook chapter – Annual report year: 2014

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