Licona-Cassani C, Morales PC, Manteca A, Barona-Gomez F, Nielsen LK, Marcellin E (2015) Systems biology approaches to understand natural products biosynthesis. Front. Bioeng. Biotechnol. 3:199. PMID: 26697425
Song MC, Hou JJ, Nielsen LK, Gray PP (2015) Novel cell engineering of the Unfolded Protein Response to achieve efficient therapeutic protein production cell line. BMC Proceedings 9 (S9):P14. doi:10.1186/1753-6561-9-S9-P14.
Orellana CA, Marcellin E, Munro T, Gray PP, Nielsen LK (2015) Multi-omics approach for comparative studies of monoclonal antibody producing CHO cells. BMC Proceedings 9 (S9):O8. doi:10.1186/1753-6561-9-S9-O8.
Bongers M, Chrysanthopoulos PK, Behrendorff JBYH, Hodson MP, Vickers CE, Nielsen LK (2015) Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite. Microbial Cell Factories 14: 193. PMID: 26610700
Medina-Torres CE, van Eps AW, Nielsen LK, Hodson MP (2015) A liquid chromatography–tandem mass spectrometry-based investigation of the lamellar interstitial metabolome in healthy horses and during experimental laminitis induction. The Veterinary Journal 206: 161-9. PMID: 26364239
Ebrahim A, Almaas E, Bauer E, Bordbar A, Burgard AP, Chang RL, Dräger A, Famili I, Feist AM, Fleming RM, Fong SS, Hatzimanikatis V, Herrgård MJ, Holder A, Hucka M, Hyduke D, Jamshidi N, Lee SY, Le Novère N, Lerman JA, Lewis NE, Ma D, Mahadevan R, Maranas C, Nagarajan H, Navid A, Nielsen J, Nielsen LK, Nogales J, Noronha A, Pal C, Palsson BO, Papin JA, Patil KR, Price ND, Reed JL, Saunders M, Senger RS, Sonnenschein N, Sun Y, Thiele I (2015) Do genome-scale models need exact solvers or clearer standards? Mol Syst Biol 11:831. PMID: 26467284
Navone L, Macagno JP, Licona-Cassani C, Marcellin E, Nielsen LK, Gramajo H, Rodriguez E (2015) AllR controls the expression of Streptomyces coelicolor allantoin pathway genes. Appl Env Microbiol 81: 6649-59. PMID: 26187964
Huynh HT, Tran TT, Chan LC, Nielsen LK, Reid S (2015) Decline in Helicoverpa armigera nucleopolyhedrovirus occlusion body yields with increasing infection cell density in vitro is strongly correlated with viral DNA levels. Arch Virol 160: 2169-80. PMID: 26092423
Martínez VS, Buchsteiner M, Gray P, Nielsen LK, Quek LE (2015) Dynamic Metabolic Flux Analysis using B-splines to study the effects of temperature shift on CHO cell metabolism. Met Eng Comm 2: 46-57.
McQualter RB, Petrasovits LA, Gebbie LK, Schweitzer D, Blackman DM, Plan MR, Hodson MP, Riches JD, Snell KD, Brumbley SM, Nielsen LK (2015) The use of an acetoacetyl-CoA synthase in place of a β-ketothiolase enhances poly-3-hydroxybutyrate production in sugarcane mesophyll cells. Plant Biotechnology Journal 13: 700-7. PMID: 25532451
Peng BY, Williams TC, Henry M, Nielsen LK, Vickers CE (2015) Controlling heterologous gene expression in yeast cell factories on different carbon substrates and across the diauxic shift: a comparison of yeast promoter activities. Microbial Cell Factories 14:91.PMID: 26112740
Lim S, Marcellin E, Jacob S, Nielsen LK (2015) Global dynamics of Escherichia coli phosphoproteome in central carbon metabolism under changing culture conditions. J Proteomics 126: 24-33. PMID: 26013414
Matindoost L, Nielsen LK, Reid S (2015) Intracellular trafficking of baculovirus virions - a quantitative study of the HearNPV/HzAM1 cell and AcMNPV/Sf9 cell systems. Viruses 7: 2288-2307. PMID: 25951488
Brennan TCR, Williams TC, Schulz BL, Palfreyman RW, Krömer JO, Nielsen LK (2015) Evolutionary engineering improves tolerance for replacement jet fuels in Saccharomyces cerevisiae. Appl Environ Microbiol 81: 3316 –3325. PMID: 25746998
Saa PA, Nielsen LK (2015) A general framework for thermodynamically consistent parameterization and efficient sampling of enzymatic reactions. PLoS Comp Bio 11:e1004195. PMID: 25874556
Williams TC, Averesch NJH, Winter G, Plan MR, Vicker CE, Nielsen LK, Krömer JO (2015) Quorum-sensing linked RNA interference for dynamic metabolic pathway control in Saccharomyces cerevisiae. Metabolic Engineering 29: 124-134. PMID: 25792511
Williams TC, Gomez ME, Nielsen LK, Vickers CE (2015) Dynamic regulation of gene expression using sucrose responsive promoters and RNA interference in Saccharomyces cerevisiae. Microbial Cell Factories14:43. PMID: 25886317
Clark MB, Mercer TR, Bussotti G, Leonardi T, Haynes KR, Crawford J, Brunck ME, Cao KAL, Thomas GP, Chen WY, Taft RJ, Nielsen LK, Enright AJ, Mattick JS, Dinger ME (2015) Quantitative gene profiling of long noncoding RNAs with targeted RNA sequencing. Nature Methods 12: 339-342. PMID: 25751143
Orellana CA, Marcellin E, Schulz BL, Nouwens AS, Gray PP, Nielsen LK (2015) High antibody producing Chinese hamster ovary cells up-regulate intracellular protein transport and glutathione synthesis. J Proteome Res 14: 609–618. PMID: 25495469
Huynh HT, Tran TT, Chan LC, Nielsen LK, Reid S (2015) Effect of the peak cell density of recombinant AcMNPV-infected Hi5 cells on baculovirus yields. Appl Microbiol Biotechnol 99:1687-1700. PMID: 25472440
Mercer TR, Clark MB, Andersen SB, Brunck ME, Haerty W, Crawford J, Taft RJ, Nielsen LK, Dinger ME, Mattick JS (2015) Genome-wide discovery of human splicing branchpoints. Genome Res 25: 290-303. PMID: 25561518
Dal'Molin CGDO, Quek LE, Saa PA, Nielsen LK (2015) A multi-tissue genome-scale metabolic modelling framework for the analysis of whole plant systems. Front. Plant Sci. 6:4. PMID: 25657653
Vickers CE, Behrendorff JBYH, Bongers M, Brennan TCR, Bruschi M, Nielsen LK (2015) Production of industrially relevant isoprenoid compounds in engineered microbes. In: Kamm B (ed) Microorganisms in Biorefineries. Series: Microbiology Monographs, vol. 26. Chapter 11: 303-334.