1. 2015
  2. 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

  3. E-pub ahead of print
  4. 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

  5. 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

  6. 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

  7. Published
  8. 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

  9. 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

  10. 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

  11. Published
  12. Published

    Production of β-ionone by combined expression of carotenogenic and plant CCD1 genes in Saccharomyces cerevisiae. / Lopez, Javiera; Essus, Karen; Kim, Il-Kwon; Pereira, Rui; Herzog, Jan; Siewers, Verena; Nielsen, Jens; Agosin, Eduardo.

    In: Microbial Cell Factories, Vol. 14, No. 84, 2015.

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

  13. 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

  14. 2014
  15. Published

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

    IPC No.: C12N9/00; C12N9/02; C12N9/04; C12P7/42; C12P7/52. Patent No.: WO2014198841. Dec 18, 2014.

    Publication: ResearchPatent – Annual report year: 2014

  16. 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

  17. 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

  18. 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

  19. 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

  20. 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

  21. 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

  22. 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

  23. 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

  24. Published
  25. 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

  26. Published
  27. 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

  28. 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

  29. Published

    Impact of protein uptake and degradation on recombinant protein secretion in yeast. / Tyo, Keith E. J.; Liu, Zihe; Magnusson, Ylva; Petranovic, Dina; Nielsen, Jens.

    In: Applied Microbiology and Biotechnology, Vol. 98, No. 16, 2014, p. 7149-7159.

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

  30. Published

    Improved Production of a Heterologous Amylase in Saccharomyces cerevisiae by Inverse Metabolic Engineering. / Liu, Zihe; Liu, Lifang; Osterlund, Tobias; Hou, Jin; Huang, Mingtao; Fagerberg, Linn; Petranovic, Dina; Uhlén, Mathias; Nielsen, Jens.

    In: APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Vol. 80, No. 17, 2014, p. 5542-5550.

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

  31. Published

    Management of the endoplasmic reticulum stress by activation of the heat shock response in yeast. / Hou, Jin; Tang, Hongting; Liu, Zihe; Østerlund, Tobias; Nielsen, Jens; Petranovic, Dina.

    In: F E M S Immunology and Medical Microbiology, Vol. 14, No. 3, 2014, p. 481-494.

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

  32. Published
  33. Published

    Physiological characterization of the high malic acid-producing Aspergillus oryzae strain 2103a-68. / Knuf, Christoph; Nookaew, Intawat; Remmers, Ilse; Khoomrung, Sakda; Brown, Stephen; Berry, Alan; Nielsen, Jens.

    In: Applied Microbiology and Biotechnology, Vol. 98, No. 8, 2014, p. 3517-3527.

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

  34. Published

    Synthetic biology for engineering acetyl coenzyme a metabolism in yeast.. / Nielsen, Jens.

    In: mBio (Online), Vol. 5, No. 6, e02153-14, 2014.

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

  35. Published

    The future of genome-scale modeling of yeast through integration of a transcriptional regulatory network. / Liu, Guodong; Marras, Antonio; Nielsen, Jens.

    In: Quantitative Biology, Vol. 2, No. 1, 2014, p. 30-46.

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

  36. 2013
  37. 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-reviewJournal article – Annual report year: 2013

  38. Published

    Advances in metabolic pathway and strain engineering paving the way for sustainable production of chemical building blocks. / Chen, Yun; Nielsen, Jens.

    In: Current Opinion in Biotechnology, Vol. 24, No. 6, 2013, p. 965-972.

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

  39. 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. 2962-2967.

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

  40. Published

    Correlation of cell growth and heterologous protein production by Saccharomyces cerevisiae. / Liu, Zihe; Hou, Jin; Martínez, José L.; Petranovic, D.; Nielsen, Jens.

    In: Applied Microbiology and Biotechnology, Vol. 97, No. 20, 2013, p. 8955-8962.

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

  41. Published

    From flavors and pharmaceuticals to advanced biofuels: Production of isoprenoids in Saccharomyces cerevisiae. / Tippmann, S.; Chen, Y.; Siewers, V.; Nielsen, Jens.

    In: Biotechnology Journal, Vol. 8, No. 12, 2013, p. 1435-1444.

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

  42. Published

    Genome-scale modeling of the protein secretory machinery in yeast. / Feizi, Amir; Österlund, Tobias; Petranovic, Dina; Bordel, Sergio; Nielsen, Jens.

    In: PloS one., Vol. 8, No. 5, 2013, p. e63284.

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

  43. 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-reviewJournal article – Annual report year: 2013

  44. Published

    Mapping condition-dependent regulation of metabolism in yeast through genome-scale modeling. / Österlund, Tobias; Nookaew, Intawat; Bordel, Sergio; Nielsen, Jens.

    In: BMC Systems Biology, Vol. 7, No. 36, 2013, p. 36.

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

  45. Published

    Production of biopharmaceutical proteins by yeast: Advances through metabolic engineering.. / Nielsen, Jens.

    In: Bioengineered Bugs, Vol. 4, No. 4, 2013, p. 207-211.

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

  46. Published

    Toward systems metabolic engineering of Aspergillus and Pichia species for the production of chemicals and biofuels. / Caspeta, Luis; Nielsen, Jens.

    In: Biotechnology Journal, Vol. 8, No. 5, 2013, p. 534-544.

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

  47. 2012
  48. 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-reviewJournal article – Annual report year: 2012

  49. Published

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

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

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  50. Published

    Genome-scale metabolic representation of Amycolatopsis balhimycina. / Vongsangnak, Wanwipa; Figueiredo, L. F.; Förster, Jochen; Weber, Tilmann; Thykær, Jette; Stegmann, E.; Wohlleben, W.; Nielsen, Jens.

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

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  51. Published

    Metabolic engineering of Saccharomyces cerevisiae for optimizing 3HP production. / Jensen, Niels Bjerg; Maury, Jerome; Oberg, Fredrik; Kildegaard, Kanchana Rueksomtawin; Forster, Jochen; Nielsen, Jens; Borodina, Irina.

    In: New Biotechnology, Vol. 29s, 2012, p. s61.

    Publication: Research - peer-reviewConference abstract in journal – Annual report year: 2013

  52. 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-reviewJournal article – Annual report year: 2012

  53. 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-reviewJournal article – Annual report year: 2012

  54. 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-reviewJournal article – Annual report year: 2012

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