@misc{MaierWolfKeiligetal.2018,
author = {Maier, Philipp and Wolf, J{\"u}rgen and Keilig, Thomas and Krabbe, Alfred and Duffard, Rene and Ortiz, Jose-Luis and Klinkner, Sabine and Lengowski, Michael and M{\"u}ller, Thomas and Lockowandt, Christian and Krockstedt, Christian and Kappelmann, Norbert and Stelzer, Beate and Werner, Klaus and Geier, Stephan and Kalkuhl, Christoph and Rauch, Thomas and Schanz, Thomas and Barnstedt, J{\"u}rgen and Conti, Lauro and Hanke, Lars},
title = {Towards a European Stratospheric Balloon Observatory},
series = {Ground-based and Airborne Telescopes VII},
volume = {10700},
journal = {Ground-based and Airborne Telescopes VII},
publisher = {SPIE-INT Soc Optical Engineering},
address = {Bellingham},
isbn = {978-1-5106-1954-8},
issn = {0277-786X},
doi = {10.1117/12.2319248},
pages = {12},
year = {2018},
abstract = {This paper presents the concept of a community-accessible stratospheric balloon-based observatory that is currently under preparation by a consortium of European research institutes and industry. We present the technical motivation, science case, instrumentation, and a two-stage image stabilization approach of the 0.5-m UV/visible platform. In addition, we briefly describe the novel mid-sized stabilized balloon gondola under design to carry telescopes in the 0.5 to 0.6 m range as well as the currently considered flight option for this platform. Secondly, we outline the scientific and technical motivation for a large balloon-based FIR telescope and the ESBO DS approach towards such an infrastructure.},
language = {en}
}
@book{EbkeZanfiKruegeretal.2017,
author = {Ebke, Thomas and Zanfi, Caterina and Kr{\"u}ger, Hans-Peter and Sommer, Christian and Viennet, Thomas and Johannßen, Dennis and Balzaretti, Ugo and Toussaint Ondoua, Herv{\´e} and Agard, Olivier and Henckmann, Wolfhart and Simonotti, Edoardo and Hand, Annika and Tavakkoli, Amirpasha and Hackbarth, Daniel and Edinger, Sebastian and Schollmeyer, Justus and von Kalckreuth, Moritz Alexander and Schmieg, Gregor and Batista Rates, Bruno and Kressmann, Philipp and Hilt, Annette and van Buuren, Jasper and Keusch, Juliane and Guzun, Mădălina and Bruff, Kyla and Stahl, Marion and Held, Lukas},
title = {Das Leben im Menschen oder der Mensch im Leben?},
editor = {Ebke, Thomas and Zanfi, Caterina},
publisher = {Universit{\"a}tsverlag Potsdam},
address = {Potsdam},
isbn = {978-3-86956-382-4},
url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-95409},
publisher = {Universit{\"a}t Potsdam},
pages = {514 Seiten},
year = {2017},
abstract = {In der Philosophie des 20. Jahrhunderts wird deutlich, dass es in Frankreich und in Deutschland voneinander abweichende Sichtweisen auf die Frage gibt, ob der Mensch eine "Sonderstellung" in der Dynamik des biologischen und geschichtlichen Lebens genießt. W{\"a}hrend sich in Deutschland die Tradition eines anthropologischen Denkens neu formiert, ist in Frankreich eine scharfe Skepsis gegen{\"u}ber dem Erbe des Humanismus charakteristisch. Die Beitr{\"a}ge dieses zweisprachigen Buches untersuchen diese deutsch-franz{\"o}sische Konstellation von Fragen und Autoren, und aktualisieren die Reflexion auf die (Grenzen der) Singularit{\"a}t des Menschen.},
language = {de}
}
@misc{ThomasMatuschekGrima2013,
author = {Thomas, Philipp and Matuschek, Hannes and Grima, Ramon},
title = {How reliable is the linear noise approximation of gene regulatory networks?},
series = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe},
journal = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe},
number = {876},
issn = {1866-8372},
doi = {10.25932/publishup-43502},
url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-435028},
pages = {17},
year = {2013},
abstract = {Background: The linear noise approximation (LNA) is commonly used to predict how noise is regulated and exploited at the cellular level. These predictions are exact for reaction networks composed exclusively of first order reactions or for networks involving bimolecular reactions and large numbers of molecules. It is however well known that gene regulation involves bimolecular interactions with molecule numbers as small as a single copy of a particular gene. It is therefore questionable how reliable are the LNA predictions for these systems. Results: We implement in the software package intrinsic Noise Analyzer (iNA), a system size expansion based method which calculates the mean concentrations and the variances of the fluctuations to an order of accuracy higher than the LNA. We then use iNA to explore the parametric dependence of the Fano factors and of the coefficients of variation of the mRNA and protein fluctuations in models of genetic networks involving nonlinear protein degradation, post-transcriptional, post-translational and negative feedback regulation. We find that the LNA can significantly underestimate the amplitude and period of noise-induced oscillations in genetic oscillators. We also identify cases where the LNA predicts that noise levels can be optimized by tuning a bimolecular rate constant whereas our method shows that no such regulation is possible. All our results are confirmed by stochastic simulations. Conclusion: The software iNA allows the investigation of parameter regimes where the LNA fares well and where it does not. We have shown that the parametric dependence of the coefficients of variation and Fano factors for common gene regulatory networks is better described by including terms of higher order than LNA in the system size expansion. This analysis is considerably faster than stochastic simulations due to the extensive ensemble averaging needed to obtain statistically meaningful results. Hence iNA is well suited for performing computationally efficient and quantitative studies of intrinsic noise in gene regulatory networks.},
language = {en}
}
@article{RauchQuinetHoyeretal.2016,
author = {Rauch, Thomas and Quinet, P. and Hoyer, D. and Werner, K. and Richter, Philipp and Kruk, J. W. and Demleitner, M.},
title = {VII. New Kr IV - VII oscillator strengths and an improved spectral analysis of the hot, hydrogen-deficient DO-type white dwarf RE 0503-289},
series = {Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants},
volume = {590},
journal = {Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants},
publisher = {EDP Sciences},
address = {Les Ulis},
organization = {VERITAS Collaboration},
issn = {1432-0746},
doi = {10.1051/0004-6361/201628131},
pages = {26},
year = {2016},
abstract = {Context. For the spectral analysis of high-resolution and high signal-to-noise (S/N) spectra of hot stars, state-of-the-art non-local thermodynamic equilibrium (NLTE) model atmospheres are mandatory. These are strongly dependent on the reliability of the atomic data that is used for their calculation. Aims. New Kr IV-VII oscillator strengths for a large number of lines enable us to construct more detailed model atoms for our NLTE model-atmosphere calculations. This enables us to search for additional Kr lines in observed spectra and to improve Kr abundance determinations. Methods. We calculated Kr IV-VII oscillator strengths to consider radiative and collisional bound-bound transitions in detail in our NLTE stellar-atmosphere models for the analysis of Kr lines that are exhibited in high-resolution and high S/N ultraviolet (UV) observations of the hot white dwarf RE 0503-289. Results. We reanalyzed the effective temperature and surface gravity and determined T-eff = 70 000 +/- 2000 K and log (g/cm s(-2)) = 7.5 +/- 0.1. We newly identified ten Kr V lines and one Kr vi line in the spectrum of RE 0503-289. We measured a Kr abundance of 3.3 +/- 0.3 (logarithmic mass fraction). We discovered that the interstellar absorption toward RE 0503-289 has a multi-velocity structure within a radial-velocity interval of -40 km s(-1) < upsilon(rad) < +18 km s(-1). Conclusions. Reliable measurements and calculations of atomic data are a prerequisite for state-of-the-art NLTE stellar-atmosphere modeling. Observed Kr V-VII line profiles in the UV spectrum of the white dwarf RE 0503-289 were simultaneously well reproduced with our newly calculated oscillator strengths.},
language = {en}
}
@article{RichterdeBoerWerneretal.2015,
author = {Richter, Philipp and de Boer, Klaas S. and Werner, Klaus and Rauch, Thomas},
title = {High-velocity gas toward the LMC resides in the Milky Way halo},
series = {Astronomy and astrophysics : an international weekly journal},
volume = {584},
journal = {Astronomy and astrophysics : an international weekly journal},
publisher = {EDP Sciences},
address = {Les Ulis},
issn = {1432-0746},
doi = {10.1051/0004-6361/201527451},
pages = {4},
year = {2015},
abstract = {Aims. To explore the origin of high-velocity gas in the direction of the Large Magellanic Cloud, (LMC) we analyze absorption lines in the ultraviolet spectrum of a Galactic halo star that is located in front of the LMC at d = 9.2(-7.2)(+4.1) kpc distance. Methods. We study the velocity-component structure of low and intermediate metal ions (CII, SiII, SiIII) in the spectrum of RXJ0439.8-6809, as obtained with the Cosmic Origins Spectrograph (COS) onboard the Hubble Space Telescope (HST), and measure equivalent widths and column densities for these ions. We supplement our COS data with a Far-Ultraviolet Spectroscopic Explorer (FUSE) spectrum of the nearby LMC star Sk-69 59 and with Hi 21 cm data from the Leiden-Argentina-Bonn (LAB) survey. Results. Metal absorption toward RXJ0439.8-6809 is unambiguously detected in three different velocity components near v(LSR) = 0, + 60, and + 150 km s(-1). The presence of absorption proves that all three gas components are situated in front of the star, thus located in the disk and inner halo of the Milky Way. For the high-velocity cloud (HVC) at v(LSR) = + 150 km s(-1), we derive an oxygen abundance of [O/H] = -0.63 (similar to 0.2 solar) from the neighboring Sk-69 59 sight line, in accordance with previous abundance measurements for this HVC. From the observed kinematics we infer that the HVC hardly participates in the Galactic rotation. Conclusions. Our study shows that the HVC toward the LMC represents a Milky Way halo cloud that traces low column density gas with relatively low metallicity. We rule out scenarios in which the HVC represents material close to the LMC that stems from a LMC outflow.},
language = {en}
}
@article{PrimusRitschelSigueenzaetal.2014,
author = {Primus, Philipp-Alexander and Ritschel, Thomas and Sigueenza, Pilar Y. and Cauqui, Miguel Angel and Hernandez-Garrido, Juan Carlos and Kumke, Michael Uwe},
title = {High-resolution spectroscopy of europium-doped ceria as a tool to correlate structure and catalytic activity},
series = {The journal of physical chemistry : C, Nanomaterials and interfaces},
volume = {118},
journal = {The journal of physical chemistry : C, Nanomaterials and interfaces},
number = {40},
publisher = {American Chemical Society},
address = {Washington},
issn = {1932-7447},
doi = {10.1021/jp505467r},
pages = {23349 -- 23360},
year = {2014},
abstract = {Site-selective emission spectra of Eu3+-doped CeO2 nanoparticles up to the D-5(0) - F-7(5) transition were recorded under cryogenic conditions to identify the local structure around the Eu3+ dopants in ceria. It is found that pretreatment conditions are crucial for the redistribution of dopants from a broad variety of environments to six well-defined lattice sites. The influence of the dopant and the host structure on the catalytic activity was investigated. A relationship between structure and reactivity is discussed. It is shown that oxygen transport is most efficient in particles with a pronounced amorphous character.},
language = {en}
}
@article{ElsaesserHickmannStehle2018,
author = {Els{\"a}sser, Joshua Philipp and Hickmann, Thomas and Stehle, Fee},
title = {The Role of Cities in South Africa's Energy Gridlock},
series = {Case Studies in the Environment},
volume = {2},
journal = {Case Studies in the Environment},
number = {1},
publisher = {University of California Press},
address = {Oakland},
issn = {2473-9510},
doi = {10.1525/cse.2018.001297},
pages = {1 -- 7},
year = {2018},
abstract = {South Africa's energy sector finds itself in a gridlock situation. The sector is controlled by the state-owned utility Eskom holding the monopoly on the generation and transmission of electricity, which is almost exclusively produced from domestically extracted coal. At the same time, the constitutional mandate enables municipalities to distribute and sell electricity generated by Eskom to local consumers, which constitutes a large part of the cities' municipal income. This is a strong disincentive for city governments to promote reductions in energy consumption and substantially limits the scope for urban action on energy efficiency and renewable energies. In the present case study, we portray the current development in South Africa's energy policy and trace how deadlocked legal, financial, and institutional barriers block the transition from a coal-based energy system toward a greener and more sustainable energy economy. We furthermore point to the efforts of major South African cities to introduce low-carbon strategies in their jurisdictions and highlight key challenges for the future development of the country's energy sector. By engaging with this case study, readers will become familiar with a prime example of the wider phenomenon of national political-economic obstacles to the progress in sustainable urban development.},
language = {en}
}
@misc{HickmannPartzschPattbergetal.2019,
author = {Hickmann, Thomas and Partzsch, Lena and Pattberg, Philipp H. and Weiland, Sabine},
title = {Introduction},
series = {The Anthropocene Debate and Political Science},
journal = {The Anthropocene Debate and Political Science},
number = {1},
publisher = {Routledge},
address = {London},
isbn = {978-1-351-17412-1},
doi = {10.4324/9781351174121},
pages = {1 -- 12},
year = {2019},
abstract = {Over the past decades, it has become more and more obvious that ongoing globalisation processes have substantial impacts on the natural environment. Studies reveal that intensified global economic relations have caused or accelerated dramatic changes in the Earth system, defined as the sum of our planet's interacting physical, chemical, biological and human processes (Schellnhuber et al. 2004). Climate change, biodiversity loss, disrupted biogeochemical cycles, and land degradation are often cited as emblematic problems of global environmental change (Rockstr{\"o}m et al. 2009; Steffen et al. 2015). In this context, the term Anthropocene has lately received widespread attention and gained some prominence in the academic literature},
language = {en}
}
@article{HickmannElsaesser2020,
author = {Hickmann, Thomas and Els{\"a}sser, Joshua Philipp},
title = {New alliances in global environmental governance},
series = {International environmental agreements: politics, law and economics},
volume = {20},
journal = {International environmental agreements: politics, law and economics},
number = {3},
publisher = {Springer},
address = {Dordrecht [u.a.]},
issn = {1567-9764},
doi = {10.1007/s10784-020-09493-5},
pages = {459 -- 481},
year = {2020},
abstract = {The past few years have witnessed a growing interest among scholars and policy-makers in the interplay of international bureaucracies with civil society organizations, non-profit entities, and the private sector. Authors concerned with global environmental politics have made considerable progress in capturing this phenomenon. Nevertheless, we still lack in-depth empirical knowledge on the precise nature of such institutional interlinkages across governance levels and scales. Building upon the concept oforchestration, this article focuses on the relationship between specific types of international bureaucracies and actors other than the nation-state. In particular, we investigate how the secretariats of the three Rio Conventions reach out to non-state actors in order to exert influence on the outcome of international environmental negotiations. Our analysis demonstrates that the three intergovernmental treaty secretariats utilize various styles of orchestration in their relation to non-state actors and seek to push the global responses to the respective transboundary environmental problems forward. This article points to a recent trend towards a direct collaboration between these secretariats and non-state actors which gives rise to the idea that new alliances between these actors are emerging in global environmental governance.},
language = {en}
}
@incollection{HickmannPartzschPattbergetal.2019,
author = {Hickmann, Thomas and Partzsch, Lena and Pattberg, Philipp H. and Weiland, Sabine},
title = {Conclusion},
series = {The anthropocene debate and political science},
booktitle = {The anthropocene debate and political science},
publisher = {Routledge},
address = {London},
isbn = {978-0-8153-8614-8},
publisher = {Universit{\"a}t Potsdam},
pages = {237 -- 251},
year = {2019},
language = {en}
}
@article{BaierMetznerKoerzdoerferetal.2014,
author = {Baier, Heiko and Metzner, Philipp and K{\"o}rzd{\"o}rfer, Thomas and Kelling, Alexandra and Holdt, Hans-J{\"u}rgen},
title = {Efficient palladium(II) precatalysts bearing 4,5-dicyanoimidazol-2-ylidene for the Mizoroki-Heck reaction},
series = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
journal = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
number = {18},
publisher = {Wiley-VCH},
address = {Weinheim},
issn = {1434-1948},
doi = {10.1002/ejic.201402040},
pages = {2952 -- 2960},
year = {2014},
abstract = {The new N-heterocyclic carbene (NHC) complex [PdCl2{(CN)(2)IMes}(PPh3)] (2) ({(CN)(2)IMes}: 4,5-dicyano-1,3-dimesitylimidazol-2-ylidene) and the NHC palladacycle [PdCl(dmba){(CN)(2)IMes}] (3) (dmba: N,N-dimethylbenzylamine) have been synthesized by thermolysis of 4,5-dicyano-1,3-dimesityl-2-(pentafluorophenyl) imidazoline (1) in the presence of suitable palladium(II) precursors. The acyclic complex 2 was formed by ligand exchange using the mononuclear precursor [PdCl2(PPh3)(2)] and the palladacycle 3 was formed by cleavage of the dinuclear chloro-bridged precursor [Pd(mu-Cl)(dmba)](2). The new NHC precursor 1-benzyl-4,5-dicyano-2-(pentafluorophenyl)-3-picolylimidazoline (5) was formed by condensation of pentafluorobenzaldehyde with N-benzyl-N'-picolyldiaminomaleonitrile (4). The NHC palladacycle [PdCl2{(CN)(2)IBzPic}] (6) ({(CN)(2)IBzPic}: 1-benzyl-4,5-dicyano-3-picolylimidazol-2-ylidene) was prepared by in situ thermolysis of 5 in the presence of [PdCl2(PhCN)(2)]. The three palladium(II) complexes were characterized by NMR and IR spectroscopy, mass spectrometry and elemental analysis. In addition, the molecular structures of 2 and 3 were determined by X-ray diffraction. The pi-acidity of (CN)(2)IBzPic was compared with (CN)(2)IMes and perviously reported pi-acidic imidazol-2-ylidenes by NBO analysis. The Mizoroki-Heck (MH) reactions of various aryl halides with n-butyl acrylate were performed in the presence of complexes 2, 3 and 6. The new precatalysts showed high activity in the MH reactions giving good-to-excellent product yields with 0.1 mol-\% pre-catalyst. The nature of the catalytically active species of 2, 3 and 6 was investigated by poisoning experiments with mercury and transmission electron microscopy. It was found that palladium nanoparticles formed from the precatalysts were involved in the catalytic process.},
language = {en}
}
@article{RoggenbuckBorghiSommaetal.2016,
author = {Roggenbuck, Dirk and Borghi, Maria Orietta and Somma, Valentina and Buettner, Thomas and Schierack, Peter and Hanack, Katja and Grossi, Claudia and Bodio, Caterina and Macor, Paolo and von Landenberg, Philipp and Boccellato, Francesco and Mahler, Michael and Meroni, Pier Luigi},
title = {Antiphospholipid antibodies detected by line immunoassay differentiate among patients with antiphospholipid syndrome, with infections and asymptomatic carriers},
series = {IEEE transactions on geoscience and remote sensing},
volume = {18},
journal = {IEEE transactions on geoscience and remote sensing},
publisher = {BioMed Central},
address = {London},
issn = {1478-6354},
doi = {10.1186/s13075-016-1018-x},
pages = {14},
year = {2016},
abstract = {Background: Antiphospholipid antibodies (aPL) can be detected in asymptomatic carriers and infectious patients. The aim was to investigate whether a novel line immunoassay (LIA) differentiates between antiphospholipid syndrome (APS) and asymptomatic aPL+ carriers or patients with infectious diseases (infectious diseases controls (IDC)). Methods: Sixty-one patients with APS (56 primary, 22/56 with obstetric events only, and 5 secondary), 146 controls including 24 aPL+ asymptomatic carriers and 73 IDC were tested on a novel hydrophobic solid phase coated with cardiolipin (CL), phosphatic acid, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylserine, beta2-glycoprotein I (beta 2GPI), prothrombin, and annexin V. Samples were also tested by anti-CL and anti-beta 2GPI ELISAs and for lupus anticoagulant activity. Human monoclonal antibodies (humoAbs) against human beta 2GPI or PL alone were tested on the same LIA substrates in the absence or presence of human serum, purified human beta 2GPI or after CL-micelle absorption. Results: Comparison of LIA with the aPL-classification assays revealed good agreement for IgG/IgM a beta 2GPI and aCL. Anti-CL and anti-beta 2GPI IgG/IgM reactivity assessed by LIA was significantly higher in patients with APS versus healthy controls and IDCs, as detected by ELISA. IgG binding to CL and beta 2GPI in the LIA was significantly lower in aPL+ carriers and Venereal Disease Research Laboratory test (VDRL) + samples than in patients with APS. HumoAb against domain 1 recognized beta 2GPI bound to the LIA-matrix and in anionic phospholipid (PL) complexes. Absorption with CL micelles abolished the reactivity of a PL-specific humoAb but did not affect the binding of anti-beta 2GPI humoAbs. Conclusions: The LIA and ELISA have good agreement in detecting aPL in APS, but the LIA differentiates patients with APS from infectious patients and asymptomatic carriers, likely through the exposure of domain 1.},
language = {en}
}
@misc{RoggenbuckBorghiSommaetal.2016,
author = {Roggenbuck, Dirk and Borghi, Maria Orietta and Somma, Valentina and B{\"u}ttner, Thomas and Schierack, Peter and Hanack, Katja and Grossi, Claudia and Bodio, Caterina and Macor, Paolo and von Landenberg, Philipp and Boccellato, Francesco and Mahler, Michael and Meroni, Pier Luigi},
title = {Antiphospholipid antibodies detected by line immunoassay differentiate among patients with antiphospholipid syndrome, with infections and asymptomatic carriers},
series = {Postprints der Universit{\"a}t Potsdam Mathematisch-Naturwissenschaftliche Reihe},
journal = {Postprints der Universit{\"a}t Potsdam Mathematisch-Naturwissenschaftliche Reihe},
number = {436},
issn = {1866-8372},
url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-407211},
pages = {14},
year = {2016},
abstract = {Background Antiphospholipid antibodies (aPL) can be detected in asymptomatic carriers and infectious patients. The aim was to investigate whether a novel line immunoassay (LIA) differentiates between antiphospholipid syndrome (APS) and asymptomatic aPL+ carriers or patients with infectious diseases (infectious diseases controls (IDC)). Methods Sixty-one patients with APS (56 primary, 22/56 with obstetric events only, and 5 secondary), 146 controls including 24 aPL+ asymptomatic carriers and 73 IDC were tested on a novel hydrophobic solid phase coated with cardiolipin (CL), phosphatic acid, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylserine, beta2-glycoprotein I (β2GPI), prothrombin, and annexin V. Samples were also tested by anti-CL and anti-β2GPI ELISAs and for lupus anticoagulant activity. Human monoclonal antibodies (humoAbs) against human β2GPI or PL alone were tested on the same LIA substrates in the absence or presence of human serum, purified human β2GPI or after CL-micelle absorption. Results Comparison of LIA with the aPL-classification assays revealed good agreement for IgG/IgM aß2GPI and aCL. Anti-CL and anti-ß2GPI IgG/IgM reactivity assessed by LIA was significantly higher in patients with APS versus healthy controls and IDCs, as detected by ELISA. IgG binding to CL and ß2GPI in the LIA was significantly lower in aPL+ carriers and Venereal Disease Research Laboratory test (VDRL) + samples than in patients with APS. HumoAb against domain 1 recognized β2GPI bound to the LIA-matrix and in anionic phospholipid (PL) complexes. Absorption with CL micelles abolished the reactivity of a PL-specific humoAb but did not affect the binding of anti-β2GPI humoAbs. Conclusions The LIA and ELISA have good agreement in detecting aPL in APS, but the LIA differentiates patients with APS from infectious patients and asymptomatic carriers, likely through the exposure of domain 1.},
language = {en}
}
@article{ThomasMatuschekGrima2013,
author = {Thomas, Philipp and Matuschek, Hannes and Grima, Ramon},
title = {How reliable is the linear noise approximation of gene regulatory networks?},
series = {BMC genomics},
volume = {14},
journal = {BMC genomics},
number = {4},
publisher = {BioMed Central},
address = {London},
issn = {1471-2164},
doi = {10.1186/1471-2164-14-S4-S5},
pages = {15},
year = {2013},
abstract = {Background: The linear noise approximation (LNA) is commonly used to predict how noise is regulated and exploited at the cellular level. These predictions are exact for reaction networks composed exclusively of first order reactions or for networks involving bimolecular reactions and large numbers of molecules. It is however well known that gene regulation involves bimolecular interactions with molecule numbers as small as a single copy of a particular gene. It is therefore questionable how reliable are the LNA predictions for these systems. Results: We implement in the software package intrinsic Noise Analyzer (iNA), a system size expansion based method which calculates the mean concentrations and the variances of the fluctuations to an order of accuracy higher than the LNA. We then use iNA to explore the parametric dependence of the Fano factors and of the coefficients of variation of the mRNA and protein fluctuations in models of genetic networks involving nonlinear protein degradation, post-transcriptional, post-translational and negative feedback regulation. We find that the LNA can significantly underestimate the amplitude and period of noise-induced oscillations in genetic oscillators. We also identify cases where the LNA predicts that noise levels can be optimized by tuning a bimolecular rate constant whereas our method shows that no such regulation is possible. All our results are confirmed by stochastic simulations. Conclusion: The software iNA allows the investigation of parameter regimes where the LNA fares well and where it does not. We have shown that the parametric dependence of the coefficients of variation and Fano factors for common gene regulatory networks is better described by including terms of higher order than LNA in the system size expansion. This analysis is considerably faster than stochastic simulations due to the extensive ensemble averaging needed to obtain statistically meaningful results. Hence iNA is well suited for performing computationally efficient and quantitative studies of intrinsic noise in gene regulatory networks.},
language = {en}
}
@article{GoetzChmielewskiHomannetal.2014,
author = {Goetz, Klaus-Peter and Chmielewski, Frank M. and Homann, Thomas and Huschek, Gerd and Matzneller, Philipp and Rawel, Harshadrai Manilal},
title = {Seasonal changes of physiological parameters in sweet cherry (Prunus avium L.) buds},
series = {Scientia horticulturae : an international journal sponsored by the International Society for Horticultural Science},
volume = {172},
journal = {Scientia horticulturae : an international journal sponsored by the International Society for Horticultural Science},
publisher = {Elsevier},
address = {Amsterdam},
issn = {0304-4238},
doi = {10.1016/j.scienta.2014.04.012},
pages = {183 -- 190},
year = {2014},
abstract = {The transition from dormant stage to the beginning of growth was first obvious by markedly changes of the water content. The phase from green tip to tight cluster, with a length of only 4 days, was the period of the most physiological activity in single buds, because of the highest daily accumulation rates of fresh/dry weight, C, N. We assume a concentration dependant regulation of the member of the aspartate family (asparagine, aspartic acid, isoleucine) during dormancy, growth and development in sweet cherry buds. The ABA content showed 2011/12 a clear bimodal pattern which was at lower level similar in 2012/13, but not so strong incisive. In both years, the first peak was probably related to the end of endodormancy. However the ABA-isomer content showed in both seasons a unimodal pattern. The maximum of the ratio of ABA-isomer/ABA indicated the beginning of ontogenetic development which starts 3 and 2 weeks later, respectively. Our results suggest that ABA and the ABA-isomer in the sweet cherry buds regulate differentiated metabolic processes in the dormant stage and during bud growth and development. After replication in the season 2013/14 the estimated dates of release of endodormancy, beginning of ecodormancy and start of ontogenetic development will be used to validate and improve phenological models for the beginning of cherry blossom. (C) 2014 Elsevier B.V. All rights reserved.},
language = {en}
}
@article{ThomasMatuschekGrima2012,
author = {Thomas, Philipp and Matuschek, Hannes and Grima, Ramon},
title = {Intrinsic noise analyzer A software package for the exploration of stochastic biochemical kinetics using the system size expansion},
series = {PLoS one},
volume = {7},
journal = {PLoS one},
number = {6},
publisher = {PLoS},
address = {San Fransisco},
issn = {1932-6203},
doi = {10.1371/journal.pone.0038518},
pages = {20},
year = {2012},
abstract = {The accepted stochastic descriptions of biochemical dynamics under well-mixed conditions are given by the Chemical Master Equation and the Stochastic Simulation Algorithm, which are equivalent. The latter is a Monte-Carlo method, which, despite enjoying broad availability in a large number of existing software packages, is computationally expensive due to the huge amounts of ensemble averaging required for obtaining accurate statistical information. The former is a set of coupled differential-difference equations for the probability of the system being in any one of the possible mesoscopic states; these equations are typically computationally intractable because of the inherently large state space. Here we introduce the software package intrinsic Noise Analyzer (iNA), which allows for systematic analysis of stochastic biochemical kinetics by means of van Kampen's system size expansion of the Chemical Master Equation. iNA is platform independent and supports the popular SBML format natively. The present implementation is the first to adopt a complementary approach that combines state-of-the-art analysis tools using the computer algebra system Ginac with traditional methods of stochastic simulation. iNA integrates two approximation methods based on the system size expansion, the Linear Noise Approximation and effective mesoscopic rate equations, which to-date have not been available to non-expert users, into an easy-to-use graphical user interface. In particular, the present methods allow for quick approximate analysis of time-dependent mean concentrations, variances, covariances and correlations coefficients, which typically outperforms stochastic simulations. These analytical tools are complemented by automated multi-core stochastic simulations with direct statistical evaluation and visualization. We showcase iNA's performance by using it to explore the stochastic properties of cooperative and non-cooperative enzyme kinetics and a gene network associated with circadian rhythms. The software iNA is freely available as executable binaries for Linux, MacOSX and Microsoft Windows, as well as the full source code under an open source license.},
language = {en}
}
@article{AbouserieZehbeMetzneretal.2017,
author = {Abouserie, Ahed and Zehbe, Kerstin and Metzner, Philipp and Kelling, Alexandra and G{\"u}nter, Christina and Schilde, Uwe and Strauch, Peter and K{\"o}rzd{\"o}rfer, Thomas and Taubert, Andreas},
title = {Alkylpyridinium Tetrahalidometallate Ionic Liquids and Ionic Liquid Crystals: Insights into the Origin of Their Phase Behavior},
series = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
journal = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
publisher = {Wiley-VCH},
address = {Weinheim},
issn = {1434-1948},
doi = {10.1002/ejic.201700826},
pages = {5640 -- 5649},
year = {2017},
abstract = {Six N-alkylpyridinium salts [CnPy](2)[MCl4] (n = 4 or 12 and M = Co, Cu, Zn) were synthesized, and their structure and thermal properties were studied. The [C4Py](2)[MCl4] compounds are monoclinic and crystallize in the space group P2(1)/n. The crystals of the longer chain analogues [C12Py](2)[MCl4] are triclinic and crystallize in the space group P (1) over bar. Above the melting temperature, all compounds are ionic liquids (ILs). The derivatives with the longer C12 chain exhibit liquid crystallinity and the shorter chain compounds only show a melting transition. Consistent with single-crystal analysis, electron paramagnetic resonance spectroscopy suggests that the [CuCl4](2-) ions in the Cu-based ILs have a distorted tetrahedral geometry.},
language = {en}
}
@article{AbouserieZehbeMetzneretal.2017,
author = {Abouserie, Ahed and Zehbe, Kerstin and Metzner, Philipp and Kelling, Alexandra and G{\"u}nter, Christina and Schilde, Uwe and Strauch, Peter and K{\"o}rzd{\"o}rfer, Thomas and Taubert, Andreas},
title = {Alkylpyridinium Tetrahalidometallate Ionic Liquids and Ionic Liquid Crystals: Insights into the Origin of Their Phase Behavior},
series = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
journal = {European journal of inorganic chemistry : a journal of ChemPubSoc Europe},
publisher = {Wiley-VCH},
address = {Weinheim},
issn = {1434-1948},
doi = {10.1002/ejic.201700826},
pages = {5640 -- 5649},
year = {2017},
abstract = {Six N-alkylpyridinium salts [CnPy](2)[MCl4] (n = 4 or 12 and M = Co, Cu, Zn) were synthesized, and their structure and thermal properties were studied. The [C4Py](2)[MCl4] compounds are monoclinic and crystallize in the space group P2(1)/n. The crystals of the longer chain analogues [C12Py](2)[MCl4] are triclinic and crystallize in the space group P (1) over bar. Above the melting temperature, all compounds are ionic liquids (ILs). The derivatives with the longer C12 chain exhibit liquid crystallinity and the shorter chain compounds only show a melting transition. Consistent with single-crystal analysis, electron paramagnetic resonance spectroscopy suggests that the [CuCl4](2-) ions in the Cu-based ILs have a distorted tetrahedral geometry.},
language = {en}
}
@article{HickmannWiderbergLedereretal.2021,
author = {Hickmann, Thomas and Widerberg, Oscar and Lederer, Markus and Pattberg, Philipp H.},
title = {The United Nations Framework Convention on Climate Change Secretariat as an orchestrator in global climate policymaking},
series = {International review of administrative sciences : an international journal of comparative public administration},
volume = {87},
journal = {International review of administrative sciences : an international journal of comparative public administration},
number = {1},
publisher = {Sage},
address = {Los Angeles, Calif. [u.a.]},
issn = {0020-8523},
doi = {10.1177/0020852319840425},
pages = {21 -- 38},
year = {2021},
abstract = {Scholars have recently devoted increasing attention to the role and function of international bureaucracies in global policymaking. Some of them contend that international public officials have gained significant political influence in various policy fields. Compared to other international bureaucracies, the political leeway of the Secretariat of the United Nations Framework Convention on Climate Change has been considered rather limited. Due to the specific problem structure of the policy domain of climate change, national governments endowed this intergovernmental treaty secretariat with a relatively narrow mandate. However, this article argues that in the past few years, the United Nations Framework Convention on Climate Change Secretariat has gradually loosened its straitjacket and expanded its original spectrum of activity by engaging different sub-national and non-state actors into a policy dialogue using facilitative orchestration as a mode of governance. The present article explores the recent evolution of the United Nations Framework Convention on Climate Change Secretariat and investigates the way in which it initiates, guides, broadens and strengthens sub-national and non-state climate actions to achieve progress in the international climate negotiations.
Points for practitioners
The Secretariat of the United Nations Framework Convention on Climate Change has lately adopted new roles and functions in global climate policymaking. While previously seen as a rather technocratic body that, first and foremost, serves national governments, the Climate Secretariat increasingly interacts with sub-national governments, civil society organizations and private companies to push the global response to climate change forward. We contend that the Climate Secretariat can contribute to global climate policymaking by coordinating and steering the initiatives of non-nation-state actors towards coherence and good practice.},
language = {en}
}
@article{KegelmannTockhornWolffetal.2019,
author = {Kegelmann, Lukas and Tockhorn, Philipp and Wolff, Christian Michael and M{\´a}rquez, Jos{\´e} A. and Caicedo D{\´a}vila, Sebasti{\´a}n and Korte, Lars and Unold, Thomas and Loevenich, Wilfried and Neher, Dieter and Rech, Bernd and Albrecht, Steve},
title = {Mixtures of Dopant-Free Spiro-OMeTAD and Water-Free PEDOT as a Passivating Hole Contact in Perovskite Solar Cells},
series = {ACS applied materials \& interfaces},
volume = {11},
journal = {ACS applied materials \& interfaces},
number = {9},
publisher = {American Chemical Society},
address = {Washington},
issn = {1944-8244},
doi = {10.1021/acsami.9b01332},
pages = {9172 -- 9181},
year = {2019},
abstract = {Doped spiro-OMeTAD at present is the most commonly used hole transport material (HTM) in n-i-p-type perovskite solar cells, enabling high efficiencies around 22\%. However, the required dopants were shown to induce nonradiative recombination of charge carriers and foster degradation of the solar cell. Here, in a novel approach, highly conductive and inexpensive water-free poly(3,4-ethylenedioxythiophene) (PEDOT) is used to replace these dopants. The resulting spiro-OMeTAD/PEDOT (SpiDOT) mixed films achieve higher lateral conductivities than layers of doped spiro-OMeTAD. Furthermore, combined transient and steady-state photoluminescence studies reveal a passivating effect of PEDOT, suppressing nonradiative recombination losses at the perovskite/HTM interface. This enables excellent quasi-Fermi level splitting values of up to 1.24 eV in perovskite/SpiDOT layer stacks and high open-circuit voltages (V-OC) up to 1.19 V in complete solar cells. Increasing the amount of dopant-free spiro-OMeTAD in SpiDOT layers is shown to enhance hole extraction and thereby improves the fill factor in solar cells. As a consequence, stabilized efficiencies up to 18.7\% are realized, exceeding cells with doped spiro-OMeTAD as a HTM in this study. Moreover, to the best of our knowledge, these results mark the lowest nonradiative recombination loss in the V-OC (140 mV with respect to the Shockley-Queisser limit) and highest efficiency reported so far for perovskite solar cells using PEDOT as a HTM.},
language = {en}
}
@article{ElsaesserHickmannJinnahetal.2022,
author = {Els{\"a}sser, Joshua Philipp and Hickmann, Thomas and Jinnah, Sikina and Oberthur, Sebastian and Van de Graaf, Thijs},
title = {Institutional interplay in global environmental governance},
series = {International environmental agreements: politics, law and economics},
volume = {22},
journal = {International environmental agreements: politics, law and economics},
number = {2},
publisher = {Springer},
address = {Dordrecht},
issn = {1567-9764},
doi = {10.1007/s10784-022-09569-4},
pages = {373 -- 391},
year = {2022},
abstract = {Over the past decades, the growing proliferation of international institutions governing the global environment has impelled institutional interplay as a result of functional and normative overlap across multiple regimes. This article synthesizes primary contributions made in research on institutional interplay over the past twenty years, with particular focus on publications with International Environmental Agreements: Politics, Law and Economics. Broadening our understanding about the different types, dimensions, pathways, and effects of institutional interplay, scholars have produced key insights into the ways and means by which international institutions cooperate, manage discord, engage in problem solving, and capture synergies across levels and scales. As global environmental governance has become increasingly fragmented and complex, we recognize that recent studies have highlighted the growing interactions between transnationally operating institutions in the wake of polycentric governance and hybrid institutional complexes. However, our findings reveal that there is insufficient empirical and conceptual research to fully understand the relationship, causes, and consequences of interplay between intergovernmental and transnational institutions. Reflecting on the challenges of addressing regulatory gaps and mitigating the crisis of multilateralism, we expound the present research frontier for further advancing research on institutional interplay and provide recommendations to support policy-making.},
language = {en}
}
@article{GrafDolzblaszWuerschumetal.2010,
author = {Graf, Philipp and Dolzblasz, Alicja and W{\"u}rschum, Tobias and Lenhard, Michael and Pfreundt, Ulrike and Laux, Thomas},
title = {MGOUN1 encodes an Arabidopsis type Ib DNA topoisomerase required in stem cell regulation and to maintain develpmentally regulated gene silencing},
issn = {1040-4651},
year = {2010},
language = {en}
}
@misc{PutaSteidtenBaumbachetal.2018,
author = {Puta, Christian and Steidten, Thomas and Baumbach, Philipp and W{\"o}hrl, Toni and May, Rico and Kellmann, Michael and Herbsleb, Marco and Gabriel, Brunhild and Weber, Stephanie and Granacher, Urs and Gabriel, Holger H. W.},
title = {Standardized assessment of resistance training},
series = {Postprints der Universit{\"a}t Potsdam Humanwissenschaftliche Reihe},
journal = {Postprints der Universit{\"a}t Potsdam Humanwissenschaftliche Reihe},
number = {542},
issn = {1866-8364},
doi = {10.25932/publishup-42628},
url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-426289},
pages = {11},
year = {2018},
abstract = {From a health and performance-related perspective, it is crucial to evaluate subjective symptoms and objective signs of acute training-induced immunological responses in young athletes. The limited number of available studies focused on immunological adaptations following aerobic training. Hardly any studies have been conducted on resistance-training induced stress responses. Therefore, the aim of this observational study was to investigate subjective symptoms and objective signs of immunological stress responses following resistance training in young athletes. Fourteen (7 females and 7 males) track and field athletes with a mean age of 16.4 years and without any symptoms of upper or lower respiratory tract infections participated in this study. Over a period of 7 days, subjective symptoms using the Acute Recovery and Stress Scale (ARSS) and objective signs of immunological responses using capillary blood markers were taken each morning and after the last training session. Differences between morning and evening sessions and associations between subjective and objective parameters were analyzed using generalized estimating equations (GEE). In post hoc analyses, daily change-scores of the ARSS dimensions were compared between participants and revealed specific changes in objective capillary blood samples. In the GEE models, recovery (ARSS) was characterized by a significant decrease while stress (ARSS) showed a significant increase between morning and evening-training sessions. A concomitant increase in white blood cell count (WBC), granulocytes (GRAN) and percentage shares of granulocytes (GRAN\%) was found between morning and evening sessions. Of note, percentage shares of lymphocytes (LYM\%) showed a significant decrease. Furthermore, using multivariate regression analyses, we identified that recovery was significantly associated with LYM\%, while stress was significantly associated with WBC and GRAN\%. Post hoc analyses revealed significantly larger increases in participants' stress dimensions who showed increases in GRAN\%. For recovery, significantly larger decreases were found in participants with decreases in LYM\% during recovery. More specifically, daily change-scores of the recovery and stress dimensions of the ARSS were associated with specific changes in objective immunological markers (GRAN\%, LYM\%) between morning and evening-training sessions. Our results indicate that changes of subjective symptoms of recovery and stress dimensions using the ARSS were associated with specific changes in objectively measured immunological markers.},
language = {en}
}
@techreport{AdriaansGrieseAuspurgetal.2021,
author = {Adriaans, Jule and Griese, Florian and Auspurg, Katrin and Bledow, Nona and Bohmann, Sandra and Busemeyer, Marius R. and Delhey, Jan and Goebel, Jan and Groh-Samberg, Olaf and Heckhausen, Jutta and Hinz, Thomas and Kroh, Martin and Lengfeld, Holger and Lersch, Philipp M. and Liebig, Stefan and Richter, David and Sachweh, Patrick and Schupp, J{\"u}rgen and Schwerdt, Guido and Verwiebe, Roland},
title = {Dokumentation zum Entwicklungsprozess des Moduls Einstellungen zu sozialer Ungleichheit im SOEP (v38)},
series = {SOEP survey papers, series B - survey reports (Methodenberichte)},
volume = {1071},
journal = {SOEP survey papers, series B - survey reports (Methodenberichte)},
publisher = {Deutsches Institut f{\"u}r Wirtschaftsforschung (DIW)},
address = {Berlin},
issn = {2193-5580},
pages = {35},
year = {2021},
abstract = {Im Rahmen eines einj{\"a}hrigen Entwicklungsprozesses wurde das Fragebogenmodul "Einstellungen zu sozialer Ungleichheit" unter der Leitung der Infrastruktureinrichtung SOEP entwickelt und in der 38. Welle der Haupterhebung des Sozio-oekonomischen Panels erstmalig erhoben. Das finale Fragebogenmodul umfasst 43 Items zu den Themenbereichen Soziale Vergleiche, Soziale Mobilit{\"a}t, Sozialstaat und Nicht-materielle Ungleichheit. In der Tradition des SOEP als forschungsbasierte Infrastruktureinrichtung erfolgte die Fragebogenentwicklung in enger Zusammenarbeit mit externen Forschenden aus dem Bereich der Einstellungs- und Ungleichheitsforschung. Neben der etablierten Nutzung des SOEP Innovation Samples (SOEP-IS) f{\"u}r quantitative Pretests neu entwickelter Fragen kam erstmals ein kognitiver Pretest zum Einsatz. Der vorliegende Bericht dokumentiert den Entwicklungsprozess von der Konzeption bis zum finalen Fragebogen.},
language = {de}
}
@article{PutaSteidtenBaumbachetal.2018,
author = {Puta, Christian and Steidten, Thomas and Baumbach, Philipp and Woehrl, Toni and May, Rico and Kellmann, Michael and Herbsleb, Marco and Gabriel, Brunhild and Weber, Stephanie and Granacher, Urs and Gabriel, Holger H. W.},
title = {Standardized assessment of resistance training-Induced subjective symptoms and objective signs of immunological stress responses in young athletes},
series = {Frontiers in physiology},
volume = {9},
journal = {Frontiers in physiology},
publisher = {Frontiers Research Foundation},
address = {Lausanne},
issn = {1664-042X},
doi = {10.3389/fphys.2018.00698},
pages = {11},
year = {2018},
abstract = {From a health and performance-related perspective, it is crucial to evaluate subjective symptoms and objective signs of acute training-induced immunological responses in young athletes. The limited number of available studies focused on immunological adaptations following aerobic training. Hardly any studies have been conducted on resistance-training induced stress responses. Therefore, the aim of this observational study was to investigate subjective symptoms and objective signs of immunological stress responses following resistance training in young athletes. Fourteen (7 females and 7 males) track and field athletes with a mean age of 16.4 years and without any symptoms of upper or lower respiratory tract infections participated in this study. Over a period of 7 days, subjective symptoms using the Acute Recovery and Stress Scale (ARSS) and objective signs of immunological responses using capillary blood markers were taken each morning and after the last training session. Differences between morning and evening sessions and associations between subjective and objective parameters were analyzed using generalized estimating equations (GEE). In post hoc analyses, daily change-scores of the ARSS dimensions were compared between participants and revealed specific changes in objective capillary blood samples. In the GEE models, recovery (ARSS) was characterized by a significant decrease while stress (ARSS) showed a significant increase between morning and evening-training sessions. A concomitant increase in white blood cell count (WBC), granulocytes (GRAN) and percentage shares of granulocytes (GRAN\%) was found between morning and evening sessions. Of note, percentage shares of lymphocytes (LYM\%) showed a significant decrease. Furthermore, using multivariate regression analyses, we identified that recovery was significantly associated with LYM\%, while stress was significantly associated with WBC and GRAN\%. Post hoc analyses revealed significantly larger increases in participants' stress dimensions who showed increases in GRAN\%. For recovery, significantly larger decreases were found in participants with decreases in LYM\% during recovery. More specifically, daily change-scores of the recovery and stress dimensions of the ARSS were associated with specific changes in objective immunological markers (GRAN\%, LYM\%) between morning and evening-training sessions. Our results indicate that changes of subjective symptoms of recovery and stress dimensions using the ARSS were associated with specific changes in objectively measured immunological markers.},
language = {en}
}
@article{GebserObermeierOttoetal.2018,
author = {Gebser, Martin and Obermeier, Philipp and Otto, Thomas and Schaub, Torsten and Sabuncu, Orkunt and Van Nguyen, and Tran Cao Son,},
title = {Experimenting with robotic intra-logistics domains},
series = {Theory and practice of logic programming},
volume = {18},
journal = {Theory and practice of logic programming},
number = {3-4},
publisher = {Cambridge Univ. Press},
address = {New York},
issn = {1471-0684},
doi = {10.1017/S1471068418000200},
pages = {502 -- 519},
year = {2018},
abstract = {We introduce the asprilo1 framework to facilitate experimental studies of approaches addressing complex dynamic applications. For this purpose, we have chosen the domain of robotic intra-logistics. This domain is not only highly relevant in the context of today's fourth industrial revolution but it moreover combines a multitude of challenging issues within a single uniform framework. This includes multi-agent planning, reasoning about action, change, resources, strategies, etc. In return, asprilo allows users to study alternative solutions as regards effectiveness and scalability. Although asprilo relies on Answer Set Programming and Python, it is readily usable by any system complying with its fact-oriented interface format. This makes it attractive for benchmarking and teaching well beyond logic programming. More precisely, asprilo consists of a versatile benchmark generator, solution checker and visualizer as well as a bunch of reference encodings featuring various ASP techniques. Importantly, the visualizer's animation capabilities are indispensable for complex scenarios like intra-logistics in order to inspect valid as well as invalid solution candidates. Also, it allows for graphically editing benchmark layouts that can be used as a basis for generating benchmark suites.},
language = {en}
}