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2014 Journal Article Mesencephalic dopaminergic neurons express a repertoire of olfactory receptors and respond to odorant-like moleculesGrison, Alice, Zucchelli, Silvia, Urzi, Alice, Zamparo, Ilaria, Lazarevic, Dejan, Pascarella, Giovanni, Roncaglia, Paola, Giorgetti, Alejandro, Garcia-Esparcia, Paula, Vlachouli, Christina, Simone, Roberto, Persichetti, Francesca, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Carloni, Paolo, Ferrer, Isidro, Lodovichi, Claudia, Plessy, Charles, the FANTOM Consortium, Carninci, Piero, Gustincich, Stefano, Beckhouse, Anthony, Briggs, James, Hitchens, Kelly, Kenna, Tony, Ovchinnikov, Dmitry, Vijayan, Dipti, Wells, Christine, Wolvetang, Ernst ... Nielsen, Lars (2014). Mesencephalic dopaminergic neurons express a repertoire of olfactory receptors and respond to odorant-like molecules. BMC Genomics, 15 (1) 729. doi: 10.1186/1471-2164-15-729 |
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2014 Journal Article A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulatorsHurst, Laurence D., Sachenkova, Oxana, Daub, Carsten, Forrest, Alistair R. R., the FANTOM consortium, Huminiecki, Lukasz, Beckhouse, Anthony, Wells, Christine, Vijayan, Dipti, Wolvetang, Ernst, Hitchens, Kelly, Kenna, Tony, Blumenthal, Antje, Briggs, James, Ovchinnikov, Dmitry, Fearnley, Liam, Le Cao, Kim-Anh, Mason, Elizabeth and Nielsen, Lars (2014). A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators. Genome Biology, 15 (7) 413. doi: 10.1186/s13059-014-0413-3 |
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2014 Journal Article Targeted sequencing for gene discovery and quantification using RNA CaptureSeqMercer, Tim R., Clark, Michael B., Crawford, Joanna, Brunck, Marion E., Gerhardt, Daniel J., Taft, Ryan J., Nielsen, Lars K., Dinger, Marcel E. and Mattick, John S. (2014). Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. Nature Protocols, 9 (5), 989-1009. doi: 10.1038/nprot.2014.058 |
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2014 Journal Article Allantoin catabolism influences the production of antibiotics in Streptomyces coelicolorNavone, Laura, Casati, Paula, Licona-Cassani, Cuauhtémoc, Marcellin, Esteban, Nielsen, Lars K., Rodriguez, Eduardo and Gramajo, Hugo (2014). Allantoin catabolism influences the production of antibiotics in Streptomyces coelicolor. Applied Microbiology and Biotechnology., 98 (1), 351-360. doi: 10.1007/s00253-013-5372-1 |
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2014 Journal Article The effect of cell line, phylogenetics and medium on baculovirus budded virus yield and qualityMatindoost, Leila, Hu, Hao, Chan, Leslie C. L., Nielsen, Lars K. and Reid, Steven (2014). The effect of cell line, phylogenetics and medium on baculovirus budded virus yield and quality. Archives of Virology, 159 (1), 91-102. doi: 10.1007/s00705-013-1789-1 |
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2014 Journal Article A transient disruption of fibroblastic transcriptional regulatory network facilitates trans-differentiationTomaru, Yasuhiro, Hasegawa, Ryota, Suzuki, Takahiro, Sato, Taiji, Kubosaki, Atsutaka, Suzuki, Masanori, Kawaji, Hideya, Forrest, Alistair R. R., Hayashizaki, Yoshihide, FANTOM Consortium, Shin, Jay W., Suzuki, Harukazu, Beckhouse, Anthony, Wells, Christine, Vijayan, Dipti, Wolvetang, Ernst, Hitchens, Kelly, Fearnley, Liam, Kenna, Tony, Blumenthal, Antje, Briggs, James, Ovchinnikov, Dmitry, Le Cao, Kim-Anh, Mason, Elizabeth and Nielsen, Lars (2014). A transient disruption of fibroblastic transcriptional regulatory network facilitates trans-differentiation. Nucleic Acids Research, 42 (14), 8905-8913. doi: 10.1093/nar/gku567 |
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2013 Journal Article Chemical inhibition of acetyl coenzyme A carboxylase as a strategy to increase polyhydroxybutyrate yields in transgenic sugarcanePetrasovits, Lars A., McQualter, Richard B., Gebbie, Leigh K., Blackman, Deborah M., Nielsen, Lars K. and Brumbley, Stevens M. (2013). Chemical inhibition of acetyl coenzyme A carboxylase as a strategy to increase polyhydroxybutyrate yields in transgenic sugarcane. Plant Biotechnology Journal, 11 (9), 1146-1151. doi: 10.1111/pbi.12109 |
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2013 Journal Article Genome scale transcriptomics of baculovirus-insect interactionsNguyen,Quan, Nielsen, Lars K. and Reid, Steven (2013). Genome scale transcriptomics of baculovirus-insect interactions. Viruses, 5 (11), 2721-2747. doi: 10.3390/v5112721 |
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2013 Journal Article Dual gene expression cassette vectors with antibiotic selection markers for engineering in Saccharomyces cerevisiaeVickers C.E., Bydder S.F., Zhou Y. and Nielsen L.K. (2013). Dual gene expression cassette vectors with antibiotic selection markers for engineering in Saccharomyces cerevisiae. Microbial Cell Factories, 12 (96) 96, 96.1-96.11. doi: 10.1186/1475-2859-12-96 |
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2013 Journal Article Re-annotation of the Saccharopolyspora erythraea genome using a systems biology approachMarcellin, Esteban, Licona-Cassani, Cuauhtemoc, Mercer, Tim R., Palfreyman, Robin W. and Nielsen, Lars K. (2013). Re-annotation of the Saccharopolyspora erythraea genome using a systems biology approach. BMC Genomics, 14: Provisional (699) 699, 1-18. doi: 10.1186/1471-2164-14-699 |
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2013 Journal Article Enhanced gametocyte formation in erythrocyte progenitor cells: A site-specific adaptation by Plasmodium falciparumPeatey, Christopher L., Watson, Jolanta A., Trenholme, Katharine R., Brown, Christopher L., Nielson, Lars, Guenther, Marko, Timmins, Nicholas, Watson, Gregory S. and Gardiner, Donald L. (2013). Enhanced gametocyte formation in erythrocyte progenitor cells: A site-specific adaptation by Plasmodium falciparum. The Journal of Infectious Diseases, 208 (7), 1170-1174. doi: 10.1093/infdis/jit309 |
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2013 Journal Article Genome scale analysis of differential mRNA expression of Helicoverpa zea insect cells infected with a H. armigera baculovirusNguyen, Quan, Chan, Leslie C. L., Nielsen, Lars K. and Reid, Steven (2013). Genome scale analysis of differential mRNA expression of Helicoverpa zea insect cells infected with a H. armigera baculovirus. Virology, 444 (1-2), 158-170. doi: 10.1016/j.virol.2013.06.004 |
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2013 Journal Article 2,2-Diphenyl-1-picrylhydrazyl as a screening tool for recombinant monoterpene biosynthesisBehrendorff, James B. Y. H., Vickers, Claudia E., Chrysanthopoulos, Panagiotis and Nielsen, Lars K. (2013). 2,2-Diphenyl-1-picrylhydrazyl as a screening tool for recombinant monoterpene biosynthesis. Microbial Cell Factories, 12 (76) 76, 1-11. doi: 10.1186/1475-2859-12-76 |
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2013 Journal Article Extracting reaction networks from databases-opening Pandora's boxFearnley, Liam, Davis, Melissa, Ragan, Mark A. and Nielsen, Lars K. (2013). Extracting reaction networks from databases-opening Pandora's box. Briefings in Bioinformatics, 15 (6), 973-983. doi: 10.1093/bib/bbt058 |
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2013 Journal Article DNase I-hypersensitive exons colocalize with promoters and distal regulatory elementsMercer, Tim R., Edwards, Stacey L., Clark, Michael B., Neph, Shane J., Wang, Hao, Stergachis, Andrew B., John, Sam, Sandstrom, Richard, Li, Guoliang, Sandhu, Kuljeet S., Ruan, Yijun, Nielsen, Lars K., Mattick, John S. and Stamatoyannopoulos, John A. (2013). DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements. Nature Genetics, 45 (8), 852-859. doi: 10.1038/ng.2677 |
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2013 Journal Article The role of hyaluronic acid precursor concentrations in molecular weight control in Streptococcus zooepidemicusChen, Wendy Yiting, Marcellin, Esteban, Steen, Jennifer A. and Nielsen, Lars Keld (2013). The role of hyaluronic acid precursor concentrations in molecular weight control in Streptococcus zooepidemicus. Molecular Biotechnology, 56 (2), 147-156. doi: 10.1007/s12033-013-9690-4 |
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2013 Journal Article Technoeconomic analysis of renewable aviation fuel from microalgae, Pongamia pinnata, and sugarcaneKlein-Marcuschamer, Daniel, Turner, Christopher, Allen, Mark, Gray, Peter, Dietzgen, Ralf G., Gresshoff, Peter M., Hankamer, Ben, Heimann, Kirsten, Scott, Paul T., Stephens, Evan, Speight, Robert and Nielsen, Lars K. (2013). Technoeconomic analysis of renewable aviation fuel from microalgae, Pongamia pinnata, and sugarcane. Biofuels, Bioproducts and Biorefining, 7 (4), 416-428. doi: 10.1002/bbb.1404 |
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2013 Journal Article Decline in baculovirus-expressed recombinant protein production with increasing cell density is strongly correlated to impairment of virus replication and mRNA expressionHuynh, Hoai T., Tran, Trinh T. B., Chan, Leslie C. L., Nielsen, Lars K. and Reid, Steven (2013). Decline in baculovirus-expressed recombinant protein production with increasing cell density is strongly correlated to impairment of virus replication and mRNA expression. Applied Microbiology and Biotechnology, 97 (12), 5245-5257. doi: 10.1007/s00253-013-4835-8 |
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2013 Journal Article Physiological and transcriptional responses of saccharomyces cerevisiae to d-limonene show changes to the cell wall but not to the plasma membraneBrennan, Timothy C. R., Kroemer, Jens O. and Nielsen, Lars K. (2013). Physiological and transcriptional responses of saccharomyces cerevisiae to d-limonene show changes to the cell wall but not to the plasma membrane. Applied and Environmental Microbiology, 79 (12), 3590-3600. doi: 10.1128/AEM.00463-13 |
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2013 Journal Article Knock-in/Knock-out (KIKO) vectors for rapid integration of large DNA sequences, including whole metabolic pathways, onto the Escherichia coli chromosome at well-characterised lociSabri, Suriana, Steen, Jennifer A., Bongers, Mareike, Nielsen, Lars K. and Vickers, Claudia E. (2013). Knock-in/Knock-out (KIKO) vectors for rapid integration of large DNA sequences, including whole metabolic pathways, onto the Escherichia coli chromosome at well-characterised loci. Microbial Cell Factories, 12 (1) 60, 60.1-60.14. doi: 10.1186/1475-2859-12-60 |
