Novo Nordisk Foundation Center for Biosustainability

  1. 2015
  2. Published
  3. Published

    antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters. / Weber, Tilmann; Blin, Kai; Duddela, Srikanth; Krug, Daniel; Kim, Hyun Uk; Bruccoleri, Robert; Lee, Sang Yup; Fischbach, Michael A.; Müller, Rolf; Wohlleben, Wolfgang.

    In: Nucleic Acids Research, Vol. 43, No. W1, 05.2015, p. W237-W243.

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

  4. Published

    Ach1 is involved in shuttling mitochondrial acetyl units for cytosolic C2 provision in Saccharomyces cerevisiae lacking pyruvate decarboxylase. / Chen, Yun; Zhang, Yiming; Siewers, Verena; Nielsen, Jens.

    In: F E M S Yeast Research, Vol. 15, No. 3, 2015.

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

  5. Published

    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, Vol. 33, No. 6, 2015, p. 736-744.

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

  6. Accepted/In press

    A multi-pronged investigation into the effect of glucose starvation and culture duration on fed-batch CHO cell culture. / Fan, Yuzhou; Jimenez Del Val, Ioscani; Müller, Christian; Lund, Anne Mathilde; Wagtberg Sen, Jette; Rasmussen, Søren Kofoed; Kontoravdi, Cleo; Baycin-Hizal, Deniz; Betenbaugh, Michael J.; Weilguny, Dietmar; Andersen, Mikael Rørdam.

    In: Biotechnology and Bioengineering (Print), 2015.

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

  7. Published
  8. 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

  9. E-pub ahead of print

    A retrospective metagenomics approach to studying Blastocystis. / Andersen, Lee O'Brien; Bonde, Ida; Nielsen, Henrik Bjørn; Stensvold, Christen Rune.

    In: F E M S Microbiology Reviews, Vol. 91, No. 7, 2015, p. 1-9.

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

  10. Published
  11. Published

    A streamlined ribosome profiling protocol for the characterization of microorganisms. / Latif, Haythem; Szubin, Richard; Tan, Justin; Brunk, Elizabeth; Lechner, Anna; Zengler, Karsten; Palsson, Bernhard O.

    In: BioTechniques, Vol. 58, No. 6, 2015, p. 329-332.

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

  12. 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

  13. 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

  14. 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

  15. E-pub ahead of print
  16. Published

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

    In: Metabolic Engineering Communications, Vol. 2, 2015, p. 85-92.

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

  17. Published
  18. Published
  19. 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

  20. Published
  21. Published
  22. E-pub ahead of print

    CRISPR-Cas9 Based Engineering of Actinomycetal Genomes. / Tong, Yaojun; Charusanti, Pep; Zhang, Lixin; Weber, Tilmann; Lee, Sang Yup.

    In: A C S Synthetic Biology, 2015.

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

  23. Published

    CRISPR/Cas9-mediated genome engineering of CHO cell factories: Application and perspectives. / Lee, Jae Seong; Grav, Lise Marie; Lewis, Nathan E.; Kildegaard, Helene Faustrup.

    In: Biotechnology Journal, Vol. 10, No. 7, 2015, p. 979-994.

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

  24. Published
  25. 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

  26. Published

    Deep sequencing reveals different compositions of mRNA transcribed from the F8 gene in a panel of FVIII-producing CHO cell lines. / Kaas, Christian Schrøder; Bolt, Gert; Hansen, Jens J; Andersen, Mikael Rørdam; Kristensen, Claus.

    In: Biotechnology Journal, Vol. 10, No. 7, 2015, p. 1082-1089.

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

  27. 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

  28. Published

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

    In: Molecular Biotechnology, Vol. 57, No. 8, 2015, p. 692-700.

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

  29. Published

    Development of biosensors and their application in metabolic engineering. / Zhang, Jie; Jensen, Michael Krogh; Keasling, Jay.

    In: Current Opinion in Chemical Biology, Vol. 28, 2015.

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

  30. Published

    Development of Spatial Distribution Patterns by Biofilm Cells. / Haagensen, Janus Anders Juul; Hansen, Susse Kirkelund; Bak Christensen, Bjarke; Pamp, Sünje Johanna; Molin, Søren.

    In: Applied and Environmental Microbiology, Vol. 81, No. 18, 2015, p. 6120-6128.

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

  31. 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

  32. E-pub ahead of print

    Effect ofin vitrodigested cod liver oil of different quality on oxidative, proteomic and inflammatory responses in the yeastSaccharomyces cerevisiaeand human monocyte-derived dendritic cells : Effect of cod liver oil digests on yeast and dendritic cells. / Larsson, Karin; Istenič, Katja; Wulff, Tune; Jónsdóttir, Rósa; Kristinsson, Hordur; Freysdottir, Jona; Undeland, Ingrid; Jamnik, Polona.

    In: Journal of the Science of Food and Agriculture, 2015.

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

  33. 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

  34. Published

    Electrochemical detection of pyocyanin as a biomarker for bacterial infections. / Al Atraktchi, Fatima Al-Zahraa; Svendsen, Winnie Edith; Breum Andersen, Sandra; Molin, Søren; Johansen, Helle Krogh.

    2015. Poster session presented at 25th European Society of Clinical Microbiology and Infectious Diseases, Copenhagen, Denmark.

    Publication: ResearchPoster – Annual report year: 2015

  35. 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

  36. 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

  37. E-pub ahead of print

    Enhanced Protein Production in Escherichia coli by Optimization of Cloning Scars at the Vector-Coding Sequence Junction. / Mirzadeh, Kiavash; Martinez, Virginia; Toddo, Stephen; Guntur, Suchithra; Herrgard, Markus; Elofsson, Arne; Nørholm, Morten; Daley, Daniel O.

    In: A C S Synthetic Biology, 2015.

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

  38. 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

  39. 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

  40. 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, e59, 2015.

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

  41. 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

  42. 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

  43. E-pub ahead of print

    Glycoengineering of Chinese hamster ovary cells for enhanced erythropoietin N-glycan branching and sialylation. / Yin, Bojiao; Gao, Yuan; Chung, Cheng-yu; Yang, Shuang; Blake, Emily; C. Stuczynski, Mark; Tang, Juechun; Kildegaard, Helene Faustrup; Andersen, Mikael Rørdam; Zhang, Hui; Betenbaugh, Michael J.

    In: Biotechnology and Bioengineering (Print), 2015.

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

  44. Accepted/In press
  45. Published
  46. 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

  47. Accepted/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

  48. 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

  49. Published
  50. Published

    Methods for modeling chinese hamster ovary (cho) cell metabolism.. / Herrgard, Markus (Inventor); Pedersen, Lasse Ebdrup (Inventor); Lewis, Nathan S. (Inventor); Bruntse, Anders Bech (Inventor).

    IPC No.: C12N5/07. Patent No.: WO2015010088. Jul 19, 2013.

    Publication: ResearchPatent – Annual report year: 2015

  51. 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

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