Mikael Rørdam Andersen

Mikael Rørdam Andersen

Gæste Professor

DTU BIOENGINEERING
Institut for Bioteknologi og Biomedicin

Danmarks Tekniske Universitet

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2019
 

Genetic engineering approaches to improve post-translational modification of biopharmaceuticals in different production platforms

Amann, Thomas ; Schmieder, Valerie ; Kildegaard, Helene Faustrup ; Borth, Nicole ; Andersen, Mikael Rørdam
in: Biotechnology and Bioengineering, vol: 116, issue: 10, pages: 2778-2796

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1002/bit.27101

 

Reprogramming AA catabolism in CHO cells with CRISPR/Cas9 genome editing improves cell growth and reduces byproduct secretion

Ley, Daniel ; Pereira, Sara ; Pedersen, Lasse Ebdrup ; Arnsdorf, Johnny ; Hefzi, Hooman ; Davy, Anne Mathilde ; Kwang Ha, Tae ; Wulff, Tune ; Kildegaard, Helene Faustrup ; Andersen, Mikael Rørdam
in: Metabolic Engineering, vol: 56, pages: 120-129

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1016/j.ymben.2019.09.005

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Resistance gene-directed genome mining of 50 Aspergillus species

Kjærbølling, Inge ; Vesth, Tammi ; Andersen, Mikael R.
in: mSystems, vol: 4, issue: 4

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1128/mSystems.00085-19

 

Systematic Evaluation of Site-Specific Recombinant Gene Expression for Programmable Mammalian Cell Engineering

Pristovšek, Nuša ; Nallapareddy, Saranya ; Grav, Lise Marie ; Hefzi, Hooman ; Lewis, Nathan E. ; Rugbjerg, Peter ; Hansen, Henning Gram ; Lee, Gyun Min ; Andersen, Mikael Rørdam ; Kildegaard, Helene Faustrup
in: ACS Synthetic Biology, vol: 8, issue: 4, pages: 758-774

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1021/acssynbio.8b00453

2018
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Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species

Kjærbølling, Inge ; Vesth, Tammi C. ; Frisvad, Jens C. ; Nybo, Jane L. ; Theobald, Sebastian ; Kuo, Alan ; Bowyer, Paul ; Matsuda, Yudai ; Mondo, Stephen ; Lyhne, Ellen K. ; Kogle, Martin E. ; Clum, Alicia ; Lipzen, Anna ; Salamov, Asaf ; Ngan, Chew Yee ; Daum, Chris ; Chiniquy, Jennifer ; Barry, Kerrie ; LaButti, Kurt ; Haridas, Sajeet ; Simmons, Blake A. ; Magnuson, Jon K. ; Mortensen, Uffe H. ; Larsen, Thomas O. ; Grigoriev, Igor V. ; Baker, Scott E. ; Andersen, Mikael R.
in: Proceedings of the National Academy of Sciences of the United States of America, vol: 115, issue: 4, pages: E753-E761

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1073/pnas.1715954115

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A community-driven reconstruction of the Aspergillus niger metabolic network

Brandl, Julian ; Aguilar-Pontes, Maria Victoria ; Schäpe, Paul ; Nørregaard, Anders ; Arvas, Mikko ; Ram, Arthur F. J. ; Meyer, Vera ; Tsang, Adrian ; de Vries, Ronald P. ; Andersen, Mikael Rørdam
in: Fungal Biology and Biotechnology, vol: 5

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1186/s40694-018-0060-7

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An Online Compendium of CHO RNA-Seq Data Allows Identification of CHO Cell Line-specific Transcriptomic Signatures

Singh, Ankita ; Kildegaard, Helene F. ; Andersen, Mikael R.
in: Biotechnology Journal, vol: 13, issue: 10

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1002/biot.201800070

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Antibody Cross-Reactivity in Antivenom Research

Ledsgaard, Line ; Jenkins, Timothy P ; Davidsen, Kristian ; Krause, Kamille Elvstrøm ; Martos-Esteban, Andrea ; Engmark, Mikael ; Andersen, Mikael Rørdam ; Lund, Ole ; Laustsen, Andreas Hougaard
in: Toxins, vol: 10, issue: 10

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.3390/toxins10100393

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Application of a curated genome-scale metabolic model of CHO DG44 to an industrial fed-batch process

Calmels, Cyrielle ; McCann, Andréa ; Malphettes, Laetitia ; Andersen, Mikael Rørdam
in: Metabolic Engineering, vol: 51, pages: 9-19

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1016/j.ymben.2018.09.009

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Glycoengineering in CHO cells: Advances in systems biology

Tejwani, Vijay ; Andersen, Mikael Rørdam ; Nam, Jong Hyun ; Sharfstein, Susan T
in: Biotechnology Journal, vol: 13, issue: 3

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1002/biot.201700234

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Impact of CHO Metabolism on Cell Growth and Protein Production: An Overview of Toxic and Inhibiting Metabolites and Nutrients

Pereira, Sara ; Kildegaard, Helene F. ; Andersen, Mikael R.
in: Biotechnology Journal, vol: 13, issue: 3

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1002/biot.201700499

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Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri

Vesth, Tammi Camilla ; Nybo, Jane L ; Theobald, Sebastian ; Frisvad, Jens Christian ; Larsen, Thomas Ostenfeld ; Nielsen, Kristian Fog ; Hoof, Jakob Blæsbjerg ; Brandl, Julian ; Salamov, Asaf ; Riley, Robert ; Gladden, John M ; Phatale, Pallavi ; Nielsen, Morten T. ; Lyhne, Ellen K. ; Kogle, Martin Engelhard ; Strasser, Kimchi ; McDonnell, Erin ; Barry, Kerrie ; Clum, Alicia ; Chen, Cindy ; LaButti, Kurt ; Haridas, Sajeet ; Nolan, Matt ; Sandor, Laura ; Kuo, Alan ; Lipzen, Anna ; Hainaut, Matthieu ; Drula, Elodie ; Tsang, Adrian ; Magnuson, Jon K ; Henrissat, Bernard ; Wiebenga, Ad ; Simmons, Blake A ; Mäkelä, Miia R ; de Vries, Ronald P ; Grigoriev, Igor V ; Mortensen, Uffe Hasbro ; Baker, Scott E ; Andersen, Mikael Rørdam
in: Nature Genetics, vol: 50, pages: 1688–1695

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1038/s41588-018-0246-1

 

Minimizing Clonal Variation during Mammalian Cell Line Engineering for Improved Systems Biology Data Generation

Grav, Lise Marie ; Sergeeva, Daria ; Lee, Jae Seong ; Marín de Mas, Igor ; Lewis, Nathan E. ; Andersen, Mikael Rørdam ; Nielsen, Lars Keld ; Min Lee, Gyun ; Kildegaard, Helene Faustrup
in: A C S Synthetic Biology, vol: 7, issue: 9, pages: 2148-2159

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1021/acssynbio.8b00140

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Pros and cons of different therapeutic antibody formats for recombinant antivenom development

Laustsen, Andreas H. ; Gutiérrez, José María ; Knudsen, Cecilie ; Johansen, Kristoffer H. ; Bermúdez-Méndez, Erick ; Cerni, Felipe A. ; Jürgensen, Jonas A. ; Ledsgaard, Line ; Martos Esteban, Andrea ; Øhlenschlæger, Mia ; Pus, Urska ; Andersen, Mikael R. ; Lomonte, Bruno ; Engmark, Mikael ; Pucca, Manuela B.
in: Toxicon, vol: 146, pages: 151-175

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1016/j.toxicon.2018.03.004

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The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi

Aguilar-Pontes, M. V. ; Brandl, J. ; McDonnell, E. ; Strasser, K. ; Nguyen, T.T.M. ; Riley, R. ; Mondo, S. ; Salamov, A. ; Nybo, J.L. ; Vesth, T.C. ; Grigoriev, I.V. ; Andersen, M.R. ; Tsang, A. ; de Vries, R.P.
in: Studies in Mycology, vol: 91, pages: 61-78

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1016/j.simyco.2018.10.001

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Uncovering secondary metabolite evolution and biosynthesis using gene cluster networks and genetic dereplication

Theobald, Sebastian ; Vesth, Tammi C. ; Rendsvig, Jakob Kræmmer ; Nielsen, Kristian Fog ; Riley, Robert ; de Abreu, Lucas Magalhães ; Salamov, Asaf ; Frisvad, Jens Christian ; Larsen, Thomas Ostenfeld ; Andersen, Mikael Rørdam ; Hoof, Jakob Blæsbjerg
in: Scientific Reports, vol: 8

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1038/s41598-018-36561-3

2017
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Aspergilli: Models for systems biology in filamentous fungi

Brandl, Julian ; Andersen, Mikael Rørdam
in: Current Opinion in Systems Biology, vol: 6, pages: 67-73

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1016/j.coisb.2017.09.005

  PDF

Cell Factory Engineering

Davy, Anne Mathilde ; Kildegaard, Helene Faustrup ; Andersen, Mikael Rørdam
in: Cell Systems, vol: 4, issue: 3, pages: 262-275

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1016/j.cels.2017.02.010

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Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

de Vries, Ronald P. ; Riley, Robert ; Wiebenga, Ad ; Aguilar-Osorio, Guillermo ; Amillis, Sotiris ; Uchima, Cristiane Akemi ; Anderluh, Gregor ; Asadollahi, Mojtaba ; Askin, Marion ; Barry, Kerrie ; Battaglia, Evy ; Bayram, Özgür ; Benocci, Tiziano ; Braus-Stromeyer, Susanna A. ; Caldana, Camila ; Cánovas, David ; Cerqueira, Gustavo C. ; Chen, Fusheng ; Chen, Wanping ; Choi, Cindy ; Clum, Alicia ; dos Santos, Renato Augusto Corrêa ; de Lima Damásio, André Ricardo ; Diallinas, George ; Emri, Tamás ; Fekete, Erzsébet ; Flipphi, Michel ; Freyberg, Susanne ; Gallo, Antonia ; Gournas, Christos ; Habgood, Rob ; Hainaut, Matthieu ; Harispe, María Laura ; Henrissat, Bernard ; Hildén, Kristiina S. ; Hope, Ryan ; Hossain, Abeer ; Karabika, Eugenia ; Karaffa, Levente ; Karányi, Zsolt ; Kraševec, Nada ; Kuo, Alan ; Kusch, Harald ; LaButti, Kurt ; Lagendijk, Ellen L. ; Lapidus, Alla ; Levasseur, Anthony ; Lindquist, Erika ; Lipzen, Anna ; Logrieco, Antonio F. ; MacCabe, Andrew ; Mäkelä, Miia R. ; Malavazi, Iran ; Melin, Petter ; Meyer, Vera ; Mielnichuk, Natalia ; Miskei, Márton ; Molnár, Ákos P. ; Mulé, Giuseppina ; Ngan, Chew Yee ; Orejas, Margarita ; Orosz, Erzsébet ; Ouedraogo, Jean Paul ; Overkamp, Karin M. ; Park, Hee Soo ; Perrone, Giancarlo ; Piumi, Francois ; Punt, Peter J. ; Ram, Arthur F. J. ; Ramón, Ana ; Rauscher, Stefan ; Record, Eric ; Riaño-Pachón, Diego Mauricio ; Robert, Vincent A.R.G. ; Röhrig, Julian ; Ruller, Roberto ; Salamov, Asaf ; Salih, Nadhira S. ; Samson, Rob A. ; Sándor, Erzsébet ; Sanguinetti, Manuel ; Schütze, Tabea ; Sepčić, Kristina ; Shelest, Ekaterina ; Sherlock, Gavin ; Sophianopoulou, Vicky ; Squina, Fabio M. ; Sun, Jian-Hui ; Susca, Antonia ; Todd, Richard B. ; Tsang, Adrian ; Unkles, Shiela E. ; van de Wiele, Nathalie ; van Rossen-Uffink, Diana ; de Castro Oliveira, Juliana Velasco ; Vesth, Tammi Camilla ; Visser, Jaap ; Yu, Jae-Hyuk ; Zhou, Miaomiao ; Andersen, Mikael Rørdam ; Archer, David B. ; Baker, Scott E. ; Benoit, Isabelle ; Brakhage, Axel A. ; Braus, Gerhard H. ; Fischer, Reinhard ; Frisvad, Jens Christian ; Goldman, Gustavo H. ; Houbraken, Jos ; Oakley, Berl R. ; Pócsi, István ; Scazzocchio, Claudio ; Seiboth, Bernhard ; vanKuyk, Patricia A. ; Wortman, Jennifer Russo ; Dyer, Paul S. ; Grigoriev, Igor V.
in: Genome Biology (Online Edition), vol: 18

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1186/s13059-017-1151-0

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Cross-recognition of a pit viper (Crotalinae) polyspecific antivenom explored through high-density peptide microarray epitope mapping

Engmark, Mikael ; Lomonte, Bruno ; Gutiérrez, José María ; Laustsen, Andreas Hougaard ; De Masi, Federico ; Andersen, Mikael Rørdam ; Lund, Ole
in: P L o S Neglected Tropical Diseases (Online), vol: 11, issue: 7

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1371/journal.pntd.0005768

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Model-based analysis of N-glycosylation in Chinese hamster ovary cells

Krambeck, Frederick J. ; Bennun, Sandra V ; Andersen, Mikael Rørdam ; Betenbaugh, Michael J. ; Lisacek, Frederique (Editor)
in: P L o S One, vol: 12, issue: 5

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1371/journal.pone.0175376

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Network reconstruction of the mouse secretory pathway applied on CHO cell transcriptome data

Lund, Anne Mathilde ; Kaas, Christian Schrøder ; Brandl, Julian ; Pedersen, Lasse Ebdrup ; Kildegaard, Helene Faustrup ; Kristensen, Claus ; Andersen, Mikael Rørdam
in: B M C Systems Biology, vol: 11, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1186/s12918-017-0414-4

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Pitfalls to avoid when using phage display for snake toxins

Laustsen, Andreas Hougaard ; Lauridsen, Line Præst ; Lomonte, Bruno ; Andersen, Mikael Rørdam ; Lohse, Brian
in: Toxicon, pages: 79–89

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1016/j.toxicon.2016.12.010

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Recombinant snakebite antivenoms: A cost-competitive solution to a neglected tropical disease?

Laustsen, Andreas Hougaard ; Johansen, Kristoffer H. ; Engmark, Mikael ; Andersen, Mikael Rørdam
in: P L o S Neglected Tropical Diseases (Online), vol: 11, issue: 2

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1371/journal.pntd.0005361

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Ribosome profiling-guided depletion of an mRNA increases cell growth rate and protein secretion

Beuchert Kallehauge, Thomas ; Li, Shangzhong ; Pedersen, Lasse Ebdrup ; Kwang Ha, Tae ; Ley, Daniel ; Andersen, Mikael Rørdam ; Kildegaard, Helene Faustrup ; Min Lee, Gyun ; Lewis, Nathan E.
in: Scientific Reports, vol: 7

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1038/srep40388

2016
 

A Consensus Genome-scale Reconstruction of Chinese Hamster Ovary Cell Metabolism

Hefzi, Hooman ; Ang, Kok Siong ; Hanscho, Michael ; Bordbar, Aarash ; Ruckerbauer, David ; Lakshmanan, Meiyappan ; Orellana, Camila A. ; Baycin-Hizal, Deniz ; Huang, Yingxiang ; Ley, Daniel ; Martinez, Veronica S. ; Kyriakopoulos, Sarantos ; Jiménez, Natalia E. ; Zielinski, Daniel C. ; Quek, Lake-Ee ; Wulff, Tune ; Arnsdorf, Johnny ; Li, Shangzhong ; Lee, Jae Seong ; Paglia, Giuseppe ; Loira, Nicolas ; Spahn, Philipp N. ; Pedersen, Lasse Ebdrup ; Gutierrez, Jahir M. ; King, Zachary A. ; Lund, Anne Mathilde ; Nagarajan, Harish ; Thomas, Alex ; Abdel-Haleem, Alyaa M. ; Zanghellini, Juergen ; Kildegaard, Helene Faustrup ; Voldborg, Bjørn Gunnar ; Gerdtzen, Ziomara P. ; Betenbaugh, Michael J. ; Palsson, Bernhard ; Andersen, Mikael Rørdam ; Nielsen, Lars K. ; Borth, Nicole ; Lee, Dong-Yup ; Lewis, Nathan E.
in: Cell Systems, vol: 3, issue: 5, pages: 434-443

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1016/j.cels.2016.10.020

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Alcohol dehydrogenase gene ADH3 activates glucose alcoholic fermentation in genetically engineered Dekkera bruxellensis yeast

Schifferdecker, Anna Judith ; Siurkus, Juozas ; Andersen, Mikael Rørdam ; Jørck-Ramberg, Dorte ; Ling, Zhihao ; Zhou, Nerve ; Blevins, James E. ; Sibirny, Andriy A. ; Piškur, Jure ; Ishchuk, Olena P
in: Applied Microbiology and Biotechnology, vol: 100, issue: 7, pages: 3219-3231

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1007/s00253-015-7266-x

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An Integrated Metabolomic and Genomic Mining Workflow to Uncover the Biosynthetic Potential of Bacteria

Månsson, Maria ; Vynne, Nikolaj Grønnegaard ; Klitgaard, Andreas ; Rasmussen, Jane Lind Nybo ; Melchiorsen, Jette ; D. Nguyen, Don ; Sanchez, Laura M. ; Ziemert, Nadine ; Dorrestein, Pieter C. ; Andersen, Mikael Rørdam ; Gram, Lone
in: mSystems, vol: 1, issue: 3

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1128/mSystems.00028-15

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Current challenges of research on filamentous fungi in relation to human welfare and a sustainable bio-economy: a white paper

Meyer, Vera ; Andersen, Mikael Rørdam ; Brakhage, Axel A. ; Braus, Gerhard H. ; Caddick, Mark X. ; Cairns, Timothy C. ; de Vries, Ronald P. ; Haarmann, Thomas ; Hansen, Kim ; Hertz-Fowler, Christiane ; Krappmann, Sven ; Mortensen, Uffe Hasbro ; Peñalva, Miguel A. ; Ram, Arthur F. J. ; Head, Ritchie M.
in: Fungal Biology and Biotechnology, vol: 3, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1186/s40694-016-0024-8

 

Endoplasmic reticulum-directed recombinant mRNA displays subcellular localization equal to endogenous mRNA during transient expression in CHO cells

Beuchert Kallehauge, Thomas ; Kol, Stefan ; Andersen, Mikael Rørdam ; Kroun Damgaard, Christian ; Min Lee, Gyun ; Kildegaard, Helene Faustrup
in: Biotechnology Journal, vol: 11, issue: 10, pages: 1362-1367

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1002/biot.201600347

  PDF

FunGeneClusterS

Vesth, Tammi Camilla ; Brandl, Julian ; Andersen, Mikael Rørdam
in: Synthetic and Systems Biotechnology, vol: 1, issue: 2, pages: 122-129

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1016/j.synbio.2016.01.002

 

Glycoprofiling effects of media additives on IgG produced by CHO cells in fed-batch bioreactors

Kildegaard, Helene Faustrup ; Fan, Yuzhou ; Wagtberg Sen, Jette ; Larsen, Bo ; Andersen, Mikael Rørdam
in: Biotechnology and Bioengineering (Print), vol: 113, issue: 2, pages: 359-366

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1002/bit.25715

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High-throughput immuno-profiling of mamba (Dendroaspis) venom toxin epitopes using high-density peptide microarrays

Engmark, Mikael ; Andersen, Mikael Rørdam ; Laustsen, Andreas Hougaard ; Patel, Jigar ; Sullivan, Eric ; De Masi, Federico ; Hansen, Christian Skjødt ; Kringelum, Jens Vindahl ; Lomonte, Bruno ; Gutiérrez, José María ; Lund, Ole
in: Scientific Reports, vol: 6

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1038/srep36629

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Novel Centromeric Loci of the Wine and Beer Yeast Dekkera bruxellensis CEN1 and CEN2

Ishchuk, Olena P. ; Vojvoda Zeljko, Tanja ; Schifferdecker, Anna J. ; Mebrahtu Wisén, Sofia ; Hagström, Åsa K. ; Rozpędowska, Elżbieta ; Andersen, Mikael Rørdam ; Hellborg, Linda ; Ling, Zhihao ; Sibirny, Andrei A. ; Piškur, Jure
in: P L o S One, vol: 11, issue: 8

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1371/journal.pone.0161741

2015
 

Amino acid and glucose metabolism in fed-batch CHO cell culture affects antibody production and glycosylation

Fan, Yuzhou ; Jimenez Del Val, Ioscani ; Müller, Christian ; Wagtberg Sen, Jette ; Rasmussen, Søren Kofoed ; Kontoravdi, Cleo ; Weilguny, Dietmar ; Andersen, Mikael Rørdam
in: Biotechnology and Bioengineering, vol: 112, issue: 3, pages: 521-535

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1002/bit.25450

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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), vol: 112, issue: 10, pages: 2172-2184

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1002/bit.25620

  PDF

Analysis of genetic variation and potential applications in genome-scale metabolic modeling

Cardoso, Joao ; Andersen, Mikael Rørdam ; Herrgard, Markus ; Sonnenschein, Nikolaus
in: Frontiers in Bioengineering and Biotechnology, vol: 3, issue: 13

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.3389/fbioe.2015.00013

 

Combining Stable Isotope Labeling and Molecular Networking for Biosynthetic Pathway Characterization

Klitgaard, Andreas ; Nielsen, Jakob Blæsbjerg ; Frandsen, Rasmus John Normand ; Andersen, Mikael Rørdam ; Nielsen, Kristian Fog
in: Analytical Chemistry, vol: 87, issue: 13, pages: 6520-6526

Type: Journal article (Peer reviewed)

Status: E-pub ahead of print     |    År: 2015     |    DOI: https://doi.org/10.1021/acs.analchem.5b01934

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Current state of genome-scale modeling in filamentous fungi

Brandl, Julian ; Andersen, Mikael Rørdam
in: Biotechnology Letters, vol: 37, issue: 6, pages: 1131-1139

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1007/s10529-015-1782-8

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Deciphering the signaling mechanisms of the plant cell wall degradation machinery in Aspergillus oryzae

Udatha, D. B. R. K. Gupta ; Topakas, Evangelos ; Salazar, Margarita Pena ; Olsson, Lisbeth ; Andersen, Mikael Rørdam ; Panagiotou, Gianni
in: B M C Systems Biology, vol: 9, issue: 77

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1186/s12918-015-0224-5

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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, issue: 7, pages: 1082-1089

Type: Journal article (Peer reviewed)

Status: E-pub ahead of print     |    År: 2015     |    DOI: https://doi.org/10.1002/biot.201400667

 

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), vol: 112, issue: 11, pages: 2343-2350

Type: Journal article (Peer reviewed)

Status: E-pub ahead of print     |    År: 2015     |    DOI: https://doi.org/10.1002/bit.25650

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Multi-omic profiling of EPO-producing Chinese hamster ovary cell panel reveals metabolic adaptation to heterologous protein production

Ley, Daniel ; Kazemi Seresht, Ali ; Engmark, Mikael ; Magdenoska, Olivera ; Nielsen, Kristian Fog ; Kildegaard, Helene Faustrup ; Andersen, Mikael Rørdam
in: Biotechnology and Bioengineering, vol: 112, issue: 11, pages: 2373-2387

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    År: 2015     |    DOI: https://doi.org/10.1002/bit.25652

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Sequencing the CHO DXB11 genome reveals regional variations in genomic stability and haploidy

Kaas, Christian Schrøder ; Kristensen, Claus ; Betenbaugh, Michael J. ; Andersen, Mikael Rørdam
in: B M C Genomics, vol: 16, issue: 160

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1186/s12864-015-1391-x

2014
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Aggressive dereplication using UHPLC–DAD–QTOF: screening extracts for up to 3000 fungal secondary metabolites

Klitgaard, Andreas ; Iversen, Anita ; Andersen, Mikael Rørdam ; Larsen, Thomas Ostenfeld ; Frisvad, Jens Christian ; Nielsen, Kristian Fog
in: Analytical and Bioanalytical Chemistry, vol: 406, issue: 7, pages: 1933-1943

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1007/s00216-013-7582-x

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A Versatile System for USER Cloning-Based Assembly of Expression Vectors for Mammalian Cell Engineering

Lund, Anne Mathilde ; Kildegaard, Helene Faustrup ; Petersen, Maja Borup Kjær ; Rank, Julie ; Hansen, Bjarne Gram ; Andersen, Mikael Rørdam ; Mortensen, Uffe Hasbro
in: P L o S One, vol: 9, issue: 5

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1371/journal.pone.0096693

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Elucidation of primary metabolic pathways in Aspergillus species: Orphaned research in characterizing orphan genes

Andersen, Mikael Rørdam
in: Briefings in Functional Genomics, vol: 13, issue: 6, pages: 451-455

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1093/bfgp/elu029

 

Toward genome-scale models of the Chinese hamster ovary cells: incentives, status and perspectives

Kaas, Christian Schrøder ; Fan, Yuzhou ; Weilguny, Dietmar ; Kristensen, Claus ; Kildegaard, Helene Faustrup ; Andersen, Mikael Rørdam
in: Pharmaceutical Bioprocessing, vol: 2, issue: 5, pages: 437-448

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.4155/PBP.14.54

2013
 

Accurate prediction of secondary metabolite gene clusters in filamentous fungi.

Andersen, Mikael Rørdam ; Nielsen, Jakob Blæsbjerg ; Klitgaard, Andreas ; Petersen, Lene Maj ; Zachariasen, Mia ; Hansen, Tilde J ; Holberg Blicher, Lene ; Gotfredsen, Charlotte Held ; Larsen, Thomas Ostenfeld ; Nielsen, Kristian Fog ; Mortensen, Uffe Hasbro
in: Proceedings of the National Academy of Sciences of the United States of America, vol: 110, issue: 1, pages: E99-E107

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2013     |    DOI: https://doi.org/10.1073/pnas.1205532110

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Integrated approaches for assessment of cellular performance in industrially relevant filamantous fungi

Workman, Mhairi ; Andersen, Mikael Rørdam ; Thykær, Jette
in: Industrial Biotechnology, vol: 9, issue: 6, pages: 337-344

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2013     |    DOI: https://doi.org/10.1089/ind.2013.0025

 

Supercluster takes a walk on the wild side

Nielsen, Jakob Blæsbjerg ; Andersen, Mikael Rørdam ; Mortensen, Uffe Hasbro
in: Trends in Microbiology, vol: 21, issue: 12, pages: 617-618

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2013     |    DOI: https://doi.org/10.1016/j.tim.2013.11.002

2012
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Identification of a Transcription Factor Controlling pH-Dependent Organic Acid Response in Aspergillus niger.

Poulsen, Lars ; Andersen, Mikael Rørdam ; Lantz, Anna Eliasson ; Thykaer, Jette
in: P L o S One, vol: 7, issue: 12, pages: e50596

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2012     |    DOI: https://doi.org/10.1371/journal.pone.0050596

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Mapping the polysaccharide degradation potential of Aspergillus niger

Andersen, Mikael Rørdam ; Giese, Malene ; de Vries, Ronald P. ; Nielsen, Jens
in: B M C Genomics, vol: 13

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2012     |    DOI: https://doi.org/10.1186/1471-2164-13-313

2011
 

Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88

Andersen, Mikael Rørdam ; Salazar, Margarita Pena ; Schaap, Peter J. ; van de Vondervoort, Peter J. I. ; Culley, David ; Thykær, Jette ; Frisvad, Jens Christian ; Nielsen, Kristian Fog ; Albang, Richard ; Albermann, Kaj ; Berka, Randy M. ; Braus, Gerhard H. ; Braus-Stromeyer, Susanna A. ; Corrochano, Luis M. ; Dai, Ziyu ; van Dijck, Piet W.M. ; Hofmann, Gerald ; Lasure, Linda L. ; Magnuson, Jon K. ; Menke, Hildegard ; Meijer, Martin ; Meijer, Susan Lisette ; Nielsen, Jakob Blæsbjerg ; Nielsen, Michael Lynge ; van Ooyen, Albert J.J. ; Pel, Herman J. ; Poulsen, Lars ; Samson, Rob A. ; Stam, Hein ; Tsang, Adrian ; van den Brink, Johannes M. ; Atkins, Alex ; Aerts, Andrea ; Shapiro, Harris ; Pangilinan, Jasmyn ; Salamov, Asaf ; Lou, Yigong ; Lindquist, Erika ; Lucas, Susan ; Grimwood, Jane ; Grigoriev, Igor V. ; Kubicek, Christian P. ; Martinez, Diego ; van Peij, Noël N. M. E. ; Roubos, Johannes A. ; Nielsen, Jens ; Baker, Scott E.
in: Genome Research, vol: 21, issue: 6, pages: 885-897

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2011     |    DOI: https://doi.org/10.1101/gr.112169.110

 

The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line

Xu, Xun ; Pan, Shengkai ; Liu, Xin ; Chen, Wenbin ; Xie, Min ; Wang, Wenliang ; Wang, Jun ; Nagarajan, Harish ; Lewis, Nathan ; Famili, Iman ; Palsson, Bernhard O. ; Cai, Zhiming ; Gui, Yaoting ; Hammond, Stephanie ; Lee, Kelvin H. ; Andersen, Mikael Rørdam ; Neff, Norma ; Passarelli, Benedetto ; Koh, Winston ; Fan, H. Christina ; Wang, Jianbin ; Quake, Stephen R. ; Betenbaugh, Michael ; Palsson, Bernhard
in: Nature Biotechnology, vol: 29, issue: 8, pages: 735-741

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2011     |    DOI: https://doi.org/10.1038/nbt.1932

2010
2009
 

Current status of systems biology in Aspergilli

Andersen, Mikael Rørdam ; Nielsen, Jens
in: Fungal Genetics and Biology, vol: 46, issue: 1, pages: 180-190

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1016/j.fgb.2008.07.006

 

Essential pathway identification: from in silico analysis to potential antifungal targets in Aspergillus fumigatus

Thykær, Jette ; Andersen, Mikael Rørdam ; Baker, S. E.
in: Medical Mycology, vol: 47, issue: Suppl. 1, pages: S80-S87

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1080/13693780802455305

 

Overexpression of isocitrate lyase-glyoxylate bypass influence on metabolism in Aspergillus niger

Meijer, Susan Lisette ; Otero, José Manuel ; Olivares Hernandez, Roberto ; Andersen, Mikael Rørdam ; Olsson, Lisbeth ; Nielsen, Jens
in: Metabolic Engineering, vol: 11, issue: 2, pages: 107-116

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1016/j.ymben.2008.12.002

 

Post-genomic insights into the plant polysaccharide degradation potential of Aspergillus nidulans and comparison to Aspergillus niger and Aspergillus oryzae

Coutinho, Pedro M. ; Andersen, Mikael Rørdam ; Kolenova, Katarina ; vanKuyk, Patricia A. ; Benoit, Isabelle ; Gruben, Birgit S. ; Trejo-Aguilar, Blanca ; Visser, Hans ; van Solingen, Piet ; Pakula, Tiina ; Seiboth, Bernard ; Battaglia, Evy ; Aguilar-Osorio, Guillermo ; de Jong, Jan F. ; Ohm, Robin A. ; Aguilar, Mariana ; Henrissat, Bernard ; Nielsen, Jens ; Stålbrand, Henrik ; de Vries, Ronald P.
in: Fungal Genetics and Biology, vol: 46, issue: Suppl. 1, pages: S161-S169

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1016/j.fgb.2008.07.020

 

Studies of the Production of Fungal Polyketides in Aspergillus nidulans by Using Systems Biology Tools

Panagiotou, Gianni ; Andersen, Mikael Rørdam ; Grotkjær, Thomas ; Regueira, Torsten Ulrik Bak ; Nielsen, Jens ; Olsson, Lisbeth
in: Applied and Environmental Microbiology, vol: 75, issue: 7, pages: 2212-2220

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1128/AEM.01461-08

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Systemic analysis of the response of Aspergillus niger to ambient pH

Andersen, Mikael Rørdam ; Lehmann, Linda Olkjær ; Nielsen, Jens
in: Genome Biology, vol: 10, issue: 5, pages: R47

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1186/gb-2009-10-5-r47

 

The 2008 update of the Aspergillus nidulans genome annotation: A community effort

Wortman, Jennifer Russo ; Gilsenan, Jane Mabey ; Joardar, Vinita ; Deegan, Jennifer ; Clutterbuck, John ; Andersen, Mikael Rørdam ; Archer, David ; Bencina, Mojca ; Braus, Gerhard ; Coutinho, Pedro ; von Döhren, Hans ; Doonan, John ; Driessen, Arnold J.M. ; Durek, Pawel ; Espeso, Eduardo ; Fekete, Erzsébet ; Flipphi, Michel ; Estrada, Carlos Garcia ; Geysens, Steven ; Goldman, Gustavo ; de Groot, Piet W.J. ; Hansen, Kim ; Harris, Steven D. ; Heinekamp, Thorsten ; Helmstaedt, Kerstin ; Henrissat, Bernard ; Hofmann, Gerald ; Homan, Tim ; Horio, Tetsuya ; Horiuchi, Hiroyuki ; James, Steve ; Jones, Meriel ; Karaffa, Levente ; Karányi, Zsolt ; Kato, Masashi ; Keller, Nancy ; Kelly, Diane E. ; Kiel, Jan A.K.W. ; Kim, Jung-Mi ; van der Klei, Ida J. ; Klis, Frans M. ; Kovalchuk, Andriy ; Kraševec, Nada ; Kubicek, Christian P. ; Liu, Bo ; MacCabe, Andrew ; Meyer, Vera ; Mirabito, Pete ; Miskei, Márton ; Mos, Magdalena ; Mullins, Jonathan ; Nelson, David R. ; Nielsen, Jens ; Oakley, Berl R. ; Osmani, Stephen A. ; Pakula, Tiina ; Paszewski, Andrzej ; Paulsen, Ian ; Pilsyk, Sebastian ; Pócsi, István ; Punt, Peter J. ; Ram, Arthur F.J. ; Ren, Qinghu ; Robellet, Xavier ; Robson, Geoff ; Seiboth, Bernhard ; van Solingen, Piet ; Specht, Thomas ; Sun, Jibin ; Taheri-Talesh, Naimeh ; Takeshita, Norio ; Ussery, Dave ; vanKuyk, Patricia A. ; Visser, Hans ; van de Vondervoort, Peter J.I. ; de Vries, Ronald P. ; Walton, Jonathan ; Xiang, Xin ; Xiong, Yi ; Ping Zeng, An ; Brandt, Bernd W. ; Cornell, Michael J. ; van den Hondel, Cees A.M.J.J. ; Visser, Jacob ; Oliver, Stephen G. ; Turner, Geoffrey
in: Fungal Genetics and Biology, vol: 46, issue: 1, pages: 2-13

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1016/j.fgb.2008.12.003

 

Uncovering transcriptional regulation of glycerol metabolism in Aspergilli through genome-wide gene expression data anlysis

Salazar, Margarita Pena ; Vongsangnak, Wanwipa ; Panagiotou, Gianni ; Andersen, Mikael Rørdam ; Nielsen, Jens
in: Molecular Genetics and Genomics, vol: 282, issue: 6, pages: 571-586

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2009     |    DOI: https://doi.org/10.1007/s00438-009-0486-y

2008
 

A trispecies Aspergillus microarray: Comparative transcriptomics of three Aspergillus species

Andersen, Mikael Rørdam ; Vongsangnak, Wanwipa ; Panagiotou, Gianni ; Salazar, Margarita Pena ; Lehmann, Linda Olkjær ; Nielsen, Jens
in: Proceedings of the National Academy of Sciences of the United States of America, vol: 105, issue: 11, pages: 4387-4392

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2008     |    DOI: https://doi.org/10.1073/pnas.0709964105

 

Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger

Andersen, Mikael Rørdam ; Nielsen, Michael Lynge ; Nielsen, Jens
in: Molecular Systems Biology, vol: 4, pages: 1-13

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2008     |    DOI: https://doi.org/10.1038/msb.2008.12

 

Systems Analysis Unfolds the Relationship between the Phosphoketolase Pathway and Growth in Aspergillus nidulans

Panagiotou, Gianni ; Andersen, Mikael Rørdam ; Grotkjær, Thomas ; Regueira, Torsten Ulrik Bak ; Hofmann, Gerald ; Nielsen, Jens ; Olsson, Lisbeth
in: PLOS ONE, vol: 3, issue: 12, pages: 1-8

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2008     |    DOI: https://doi.org/10.1371/journal.pone.0003847

2007
 

Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88

Pel, Herman J. ; de Winde, Johannes H. ; Archer, David B. ; Dyer, Paul S. ; Hoffmann, Gerald ; Schaap, Peter J. ; Turner, Geoffrey ; de Vries, Ronald P. ; Albang, Richard ; Albermann, Kaj ; Andersen, Mikael Rørdam ; Bendtsen, Jannick Dyrløv ; Benen, Jacques A. E. ; van den Berg, Marco ; Breestraat, Stefaan ; Caddick, Mark X. ; Contreras, Roland ; Cornell, Michael ; Coutinho, Pedro M. ; Danchin, Etienne G. J. ; Debets, Alfons J. M. ; Dekker, Peter ; van Dijck, Piet W. ; van Dijk, Alard ; Dijkhuizen, Lubbert ; Driessen, Arnold J. M. ; d'Enfert, Christophe ; Geysens, Steven ; Goosen, Coenie ; Groot, Gert S. P. ; de Groot, Piet W. J. ; Guillemette, Thomas ; Henrissat, Bernard ; Herweijer, Marga ; van den Hombergh, Johannes P. T. W. ; van den Hondel, Cees A. M. J. J. ; van der Heijden, Rene T. J. M. ; van der Kaaij, Rachel M. ; Klis, Frans M. ; Kools, Harrie J. ; Kubicek, Christian P. ; van Kuyk, Patricia A. ; Lauber, Juergen ; Lu, Xin ; van der Maarel, Marc J. E. C. ; Meulenberg, Roiger ; Menke, Hildegard ; Mortimer, Martin A. ; Nielsen, Jens ; Oliver, Stephen G. ; Olsthoorn, Maurien ; Pal, Karoly ; van Peij, Noel N. M. E. ; Ram, Arthur F. ; Rinas, Ursula ; Roubos, Johannes A. ; Sagt, Cees M. J. ; Schmoll, Monika ; Sun, Jibin ; Ussery, David ; Varga, Janos ; Vervecken, Wouter ; van de Vondervoort, Peter J. J. ; Wedler, Holger ; Wosten, Han A. B. ; Zeng, An-Ping ; van Ooyen, Albert J. J. ; Visser, Jaap ; Stam, Hein
in: Nature Biotechnology, vol: 25, issue: 2, pages: 221-31

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2007

2006
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Genomet: Systembiologiens rygrad

Andersen, Mikael Rørdam ; Nielsen, Michael Lynge ; Nielsen, Jens
in: Dansk Kemi, vol: 87, issue: 3, pages: 15-17

Type: Journal article

Status: Published     |    År: 2006