Publications

Abstract (Expand)

Nucleic acids, which constitute the genetic material of all organisms, are continuously exposed to endogenous and exogenous damaging agents, representing a significant challenge to genome stability and ...

Authors: Tim Rasmussen, Fakouri Nima Borhan,Durhuus Jon Ambæk,Regnell Christine Elisabeth,Angleys Maria,Desler Claus,Hasan-Olive Md Mahdi,Martín-Pardillos Ana,Tsaalbi-Shtylik Anastasia,Thomsen Kirsten,Lauritzen Martin,Bohr Vilhelm A.,de Wind Niels,Bergersen Linda Hildegard

Date Published: 1st Dec 2017

Journal: Sci Rep

Abstract (Expand)

Ataxia telangiectasia (A-T) is a rare autosomal recessive disease characterized by progressive neurodegeneration and cerebellar ataxia. A-T is causally linked to defects in ATM, a master regulator of ...

Authors: Marianne B. Nilsen, Fang Evandro Fei,Kassahun Henok,Croteau Deborah L.,Scheibye-Knudsen Morten,Marosi Krisztina,Lu Huiming,Shamanna Raghavendra A.,Kalyanasundaram Sumana,Bollineni Ravi Chand,Wilson Mark A.,Iser Wendy B.,Wollman Bradley N.,Morevati Marya,Li Jun,Kerr Jesse S.,Lu Qiping,Waltz Tyler B.,Tian Jane,Sinclair David A.,Mattson Mark P.,Bohr Vilhelm A.

Date Published: 1st Oct 2016

Journal: Cell Metabolism

Abstract:

Not specified

Authors: Tjasa Kumelj, Snorre Sulheim, Alexander Wentzel, Eivind Almaas

Date Published: 7th Dec 2018

Journal: Biotechnol. J.

Abstract (Expand)

Absolute measurements of protein abundance are important in the understanding of biological processes and the precise computational modeling of biological pathways. We developed targeted LC-MS/MS assays ...

Authors: Barbara Bakker, Wolters J. C.,Ciapaite J.,van Eunen K.,Niezen-Koning K. E.,Matton A.,Porte R. J.,Horvatovich P.,Bischoff R.,Permentier H. P.

Date Published: No date defined

Journal: J Proteome Res

Abstract (Expand)

Amino acids (aa) are not only building blocks for proteins, but also signalling molecules, with the mammalian target of rapamycin complex 1 (mTORC1) acting as a key mediator. However, little is known ...

Authors: Patricia Razquin Navas, Daryl Shanley, Kathrin Thedieck, Dalle Pezze P.,Ruf S.,Sonntag A. G.,Langelaar-Makkinje M.,Hall P.,Heberle A. M.,van Eunen K.,Tolle R. C.,Schwarz J. J.,Wiese H.,Warscheid B.,Deitersen J.,Stork B.,Fassler E.,Schauble S.,Hahn U.,Horvatovich P.

Date Published: No date defined

Journal: Nat Commun

Abstract (Expand)

It is a long-standing enigma how glycogen storage disease (GSD) type I patients retain a limited capacity for endogenous glucose production despite the loss of glucose-6-phosphatase activity. Insight ...

Authors: Bert Groen, Hijmans B. S.,Boss A.,van Dijk T. H.,Soty M.,Wolters H.,Mutel E.,Derks T. G. J.,Mithieux G.,Heerschap A.,Reijngoud D. J.,Rajas F.,Oosterveer M. H.

Date Published: No date defined

Journal: Hepatology

Abstract (Expand)

Atlantic salmon can synthesize polyunsaturated fatty acids (PUFAs), such as eicosapentaenoic acid (20:5n-3), arachidonic acid (20:4n-6) and docosahexaenoic acid (22:6n-3) via activities of very long ...

Authors: Yang Jin, Jon Olav Vik, Fabian Grammes, Per Winge, Datsomor Alex K.,Zic Nikola,Li Keshuai,Olsen Rolf E.,Evardsen Rolf B.,Wargelius Anna

Date Published: 17th Dec 2018

Journal: Not specified

Abstract (Expand)

Tissues use feedback circuits in which cells send signals to each other to control their growth and survival. We show that such feed- back circuits are inherently unstable to mutants that misread the ...

Author: Karin Omer,Alon Uri

Date Published: 26th Jun 2017

Journal: Mol Syst Biol

Abstract (Expand)

Organisms use circadian clocks to generate 24-h rhythms in gene expression. However, the clock can interact with other pathways to generate shorter period oscillations. It remains unclear how these ...

Author: Martins Bruno MC,Das Arijit K,Antunes Liliana,Locke James CW

Date Published: 22nd Dec 2016

Journal: Mol Syst Biol

Abstract (Expand)

Cell signaling, gene expression, and metabolism are affected by cell-cell heterogeneity and random changes in the environment. The effects of such fluctuations on cell signaling and gene expression ...

Author: Gustavsson Anna-Karin,Adiels Caroline B.,Mehlig Bernhard,Goksör Mattias

Date Published: 1st Aug 2015

Journal: Sci Rep

Abstract (Expand)

UNLABELLED: An existing detailed kinetic model for the steady-state behavior of yeast glycolysis was tested for its ability to simulate dynamic behavior. Using a small subset of experimental data, the ...

Authors: Dawie Van Niekerk, Jacky Snoep, du Preez F. B.,Kooi B.,Rohwer J. M.

Date Published: No date defined

Journal: FEBS J

Abstract (Expand)

UNLABELLED: In an accompanying paper [du Preez et al., (2012) FEBS J279, 2810-2822], we adapt an existing kinetic model for steady-state yeast glycolysis to simulate limit-cycle oscillations. Here we ...

Authors: Dawie Van Niekerk, Jacky Snoep, du Preez F. B.

Date Published: No date defined

Journal: FEBS J

Abstract:

Not specified

Authors: Dawie Van Niekerk, Jacky Snoep, Gustavsson Anna-Karin,Adiels Caroline B.,du Preez Franco B.,Goksör Mattias

Date Published: 1st Aug 2012

Journal: Not specified

Abstract:

Not specified

Authors: Dawie Van Niekerk, Jacky Snoep, Gustavsson Anna-Karin,Adiels Caroline B.,Goksör Mattias

Date Published: 3rd Jan 2014

Journal: Not specified

Abstract (Expand)

Leptospirillum ferriphilum plays a major role in acidic, metal rich environments where it represents one of the most prevalent iron oxidizers. These milieus include acid rock and mine drainage as well ...

Authors: Stephan Christel, Malte Herold, Soeren Bellenberg, Mohamed El Hajjami, Antoine Buetti-Dinh, Igor Pivkin, Wolfgang Sand, Paul Wilmes, Ansgar Poetsch, Mark Dopson

Date Published: 1st Feb 2018

Journal: Appl Environ Microbiol

Abstract:

Not specified

Authors: Dawie Van Niekerk, Jacky Snoep, Gustavsson Anna-Karin,Adiels Caroline B.,Kooi Bob,Goksör Mattias

Date Published: 1st Jun 2014

Journal: FEBS J

Abstract (Expand)

Cell volume is an important parameter for modelling cellular processes. Temperature-induced variability of cellular size, volume, intracellular granularity, a fraction of budding cells of yeast ...

Authors: Maksim Zakhartsev, Matthias Reuss

Date Published: 26th Apr 2018

Journal: Not specified

Abstract (Expand)

Photoperiod duration can be predicted from previous days, but irradiance fluctuates in an unpredictable manner. To investigate how allocation to starch responds to changes in these two environmental ...

Authors: Virginie Mengin, Pyl E. T.,Alexandre Moraes T.,Sulpice R.,Krohn N.,Encke B.,Stitt M.

Date Published: No date defined

Journal: Plant Cell Environ

Abstract:

Not specified

Authors: Johanna Krahmer, Ashwin Ganpudi, Ammad Abbas, Andrew Romanowski, Karen Halliday

Date Published: No date defined

Journal: Plant Physiol

Abstract (Expand)

Crop biomass and yield are tightly linked to how the light signaling network translates information about the environment into allocation of resources, including photosynthates. Once activated, the ...

Authors: Andrej Arsovski, Jennifer Nemhauser, Zemke J. E.,Haagen B. D.,Kim S. H.

Date Published: No date defined

Journal: J Exp Bot

Abstract (Expand)

Caulobacter crescentus is a gram-negative bacterium that can utilize xylose as a substrate using the Weimberg pathway, which converts xylose to α-ketoglutarate in five steps without carbon loss. This ...

Authors: Henrik Almqvist, Celina Tufvegren, Lisa Wasserstrom, Gunnar Liden, Jonsdottir Glaser Sara

Date Published: 1st Jun 2018

Journal: Fermentation

Abstract (Expand)

Chemical reaction networks are ubiquitous in biology, and their dynamics is fundamentally stochastic. Here, we present the software library pSSAlib, which provides a complete and concise implementation ...

Authors: Lutz Brusch, Ostrenko Oleksandr,Incardona Pietro,Ramaswamy Rajesh,Sbalzarini Ivo F.

Date Published: 4th Dec 2017

Journal: PLoS Comput Biol

Abstract (Expand)

Bile, the central metabolic product of the liver, is transported by the bile canaliculi network. The impairment of bile flow in cholestatic liver diseases has urged a demand for insights into its ...

Authors: Lutz Brusch, Meyer K.,Ostrenko O.,Bourantas G.,Morales-Navarrete H.,Porat-Shliom N.,Segovia-Miranda F.,Nonaka H.,Ghaemi A.,Verbavatz J. M.,Sbalzarini I.,Kalaidzidis Y.,Weigert R.,Zerial M.

Date Published: No date defined

Journal: Cell Syst

Abstract (Expand)

Morpheus is a modeling environment for the simulation and integration of cell-based models with ordinary differential equations and reaction-diffusion systems. It allows rapid development of multiscale ...

Authors: Lutz Brusch, Starruss J.,de Back W.,Deutsch A.

Date Published: No date defined

Journal: Bioinformatics

Abstract (Expand)

We used parameter scanning to emulate changes to the limiting rate for steps in a fitted model of glucose-derepressed yeast glycolysis. Three flux-control regimes were observed, two of which were under ...

Author: Pritchard L.,Kell D. B.

Date Published: No date defined

Journal: Eur J Biochem

Abstract (Expand)

Tryptophan is utilized in various metabolic routes including protein synthesis, serotonin, and melatonin synthesis and the kynurenine pathway. Perturbations in these pathways have been associated with ...

Authors: Ines Heiland, Mathias Ziegler, Stavrum A. K.,Schuster S.,Puntervoll P.

Date Published: No date defined

Journal: J Biol Chem

Abstract (Expand)

Kynurenine formation by tryptophan-catabolic indoleamine-2,3-dioxygenase 1 (IDO1) plays a key role in tumor immune evasion and inhibition of IDO1 is efficacious in preclinical models of breast cancer. ...

Authors: Ines Heiland, Karl-Heinz Kellner, Sarah Schott, Christiane Opitz, Dewi D. L.,Mohapatra S. R.,Blanco Cabanes S.,Adam I.,Somarribas Patterson L. F.,Berdel B.,Kahloon M.,Thurmann L.,Loth S.,Heilmann K.,Weichenhan D.,Mucke O.,Wimberger P.,Kuhlmann J. D.,Plass C.,Platten M.,Gerhauser C.,Trump S.

Date Published: No date defined

Journal: Oncoimmunology

Abstract (Expand)

INTRODUCTION: Male breast cancer (MBC) is a rare and inadequately characterized disease. The aim of the present study was to characterize MBC tumors transcriptionally, to classify them into comprehensive ...

Author: Johansson I.,Nilsson C.,Berglund P.,Lauss M.,Ringner M.,Olsson H.,Luts L.,Sim E.,Thorstensson S.,Fjallskog M. L.,Hedenfalk I.

Date Published: No date defined

Journal: Breast Cancer Res

Abstract (Expand)

Genomic aberrations can be used to subtype breast cancer. In this study, we investigated DNA copy number (CN) profiles of 69 cases of male breast cancer (MBC) by array comparative genomic hybridization ...

Author: Biesma H. D.,Schouten P. C.,Lacle M. M.,Sanders J.,Brugman W.,Kerkhoven R.,Mandjes I.,van der Groep P.,van Diest P. J.,Linn S. C.

Date Published: No date defined

Journal: Genes Chromosomes Cancer

Abstract (Expand)

Atlantic salmon migrates from rivers to sea to feed, grow and develop gonads before returning to spawn in freshwater. The transition to marine habitats is associated with dramatic changes in the ...

Authors: Gareth Gillard, Thomas Harvey, Arne Gjuvsland, Yang Jin, Magny Sidsel Thomassen, Jacob Seilø Torgersen, Torgeir R. Hvidsten, Jon Olav Vik, Sandve Simen, Lien S.,Leaver M.

Date Published: No date defined

Journal: Mol Ecol

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