TY - JOUR A1 - Karl, Stefan A1 - Dandekar, Thomas T1 - Convergence behaviour and control in non-linear biological networks JF - Scientific Reports N2 - Control of genetic regulatory networks is challenging to define and quantify. Previous control centrality metrics, which aim to capture the ability of individual nodes to control the system, have been found to suffer from plausibility and applicability problems. Here we present a new approach to control centrality based on network convergence behaviour, implemented as an extension of our genetic regulatory network simulation framework Jimena (http://stefan-karl.de/jimena). We distinguish three types of network control, and show how these mathematical concepts correspond to experimentally verified node functions and signalling pathways in immunity and cell differentiation: Total control centrality quantifies the impact of node mutations and identifies potential pharmacological targets such as genes involved in oncogenesis (e.g. zinc finger protein GLI2 or bone morphogenetic proteins in chondrocytes). Dynamic control centrality describes relaying functions as observed in signalling cascades (e.g. src kinase or Jak/Stat pathways). Value control centrality measures the direct influence of the value of the node on the network (e.g. Indian hedgehog as an essential regulator of proliferation in chondrocytes). Surveying random scale-free networks and biological networks, we find that control of the network resides in few high degree driver nodes and networks can be controlled best if they are sparsely connected. KW - complex networks KW - control profiles KW - differentiation KW - pathways KW - tumors KW - models KW - centrality KW - chondrosarcoma KW - transcriptional regulation KW - regulatory networks Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-148510 VL - 5 IS - 09746 ER - TY - JOUR A1 - Weiße, Sebastian A1 - Heddergott, Niko A1 - Heydt, Matthias A1 - Pflästerer, Daniel A1 - Maier, Timo A1 - Haraszti, Tamas A1 - Grunze, Michael A1 - Engstler, Markus A1 - Rosenhahn, Axel T1 - A Quantitative 3D Motility Analysis of Trypanosoma brucei by Use of Digital In-line Holographic Microscopy JF - PLoS One N2 - We present a quantitative 3D analysis of the motility of the blood parasite Trypanosoma brucei. Digital in-line holographic microscopy has been used to track single cells with high temporal and spatial accuracy to obtain quantitative data on their behavior. Comparing bloodstream form and insect form trypanosomes as well as mutant and wildtype cells under varying external conditions we were able to derive a general two-state-run-and-tumble-model for trypanosome motility. Differences in the motility of distinct strains indicate that adaption of the trypanosomes to their natural environments involves a change in their mode of swimming. KW - african trypanosomes KW - actin cortex KW - flagellum KW - tracking KW - surface KW - models Y1 - 2012 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-130666 VL - 7 IS - 5 ER - TY - JOUR A1 - Dürig, Tobias A1 - Gudmundsson, Magnús Tumi A1 - Karmann, Sven A1 - Zimanowski, Bernd A1 - Dellino, Pierfrancesco A1 - Rietze, Martin A1 - Büttner, Ralf T1 - Mass eruption rates in pulsating eruptions estimated from video analysis of the gas thrust-buoyancy transition-a case study of the 2010 eruption of Eyjafjallajökull, Iceland JF - Earth, Planets and Space N2 - The 2010 eruption of Eyjafjallajokull volcano was characterized by pulsating activity. Discrete ash bursts merged at higher altitude and formed a sustained quasi-continuous eruption column. High-resolution near-field videos were recorded on 8-10 May, during the second explosive phase of the eruption, and supplemented by contemporary aerial observations. In the observed period, pulses occurred at intervals of 0.8 to 23.4 s (average, 4.2 s). On the basis of video analysis, the pulse volume and the velocity of the reversely buoyant jets that initiated each pulse were determined. The expansion history of jets was tracked until the pulses reached the height of transition from a negatively buoyant jet to a convective buoyant plume about 100 m above the vent. Based on the assumption that the density of the gas-solid mixture making up the pulse approximates that of the surrounding air at the level of transition from the jet to the plume, a mass flux ranging between 2.2 and 3.5 . 10\(^4\) kg/s was calculated. This mass eruption rate is in good agreement with results obtained with simple models relating plume height with mass discharge at the vent. Our findings indicate that near-field measurements of eruption source parameters in a pulsating eruption may prove to be an effective monitoring tool. A comparison of the observed pulses with those generated in calibrated large-scale experiments reveals very similar characteristics and suggests that the analysis of near-field sensors could in the future help to constrain the triggering mechanism of explosive eruptions. KW - image KW - dynamics KW - infrasound KW - entrainment KW - jets KW - plumes KW - source parameters KW - Eyjafjallajökull 2010 KW - pulsating explosive eruptions KW - near-field monitoring KW - eruption rate KW - volcano KW - energy KW - models KW - explosive volcanism KW - mass Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-138635 VL - 67 IS - 180 ER - TY - JOUR A1 - Timmermans, Wim J. A1 - van der Tol, Christiaan A1 - Timmermans, Joris A1 - Ucer, Murat A1 - Chen, Xuelong A1 - Alonso, Luis A1 - Moreno, Jose A1 - Carrara, Arnaud A1 - Lopez, Ramon A1 - Fernando de la Cruz, Tercero A1 - Corcoles, Horacio L. A1 - de Miguel, Eduardo A1 - Sanchez, Jose A. G. A1 - Perez, Irene A1 - Belen, Perez A1 - Munoz, Juan-Carlos J. A1 - Skokovic, Drazen A1 - Sobrino, Jose A1 - Soria, Guillem A1 - MacArthur, Alasdair A1 - Vescovo, Loris A1 - Reusen, Ils A1 - Andreu, Ana A1 - Burkart, Andreas A1 - Cilia, Chiara A1 - Contreras, Sergio A1 - Corbari, Chiara A1 - Calleja, Javier F. A1 - Guzinski, Radoslaw A1 - Hellmann, Christine A1 - Herrmann, Ittai A1 - Kerr, Gregoire A1 - Lazar, Adina-Laura A1 - Leutner, Benjamin A1 - Mendiguren, Gorka A1 - Nasilowska, Sylwia A1 - Nieto, Hector A1 - Pachego-Labrador, Javier A1 - Pulanekar, Survana A1 - Raj, Rahul A1 - Schikling, Anke A1 - Siegmann, Bastian A1 - von Bueren, Stefanie A1 - Su, Zhongbo (Bob) T1 - An Overview of the Regional Experiments for Land-atmosphere Exchanges 2012 (REFLEX 2012) Campaign JF - Acta Geophysica N2 - The REFLEX 2012 campaign was initiated as part of a training course on the organization of an airborne campaign to support advancement of the understanding of land-atmosphere interaction processes. This article describes the campaign, its objectives and observations, remote as well as in situ. The observations took place at the experimental Las Tiesas farm in an agricultural area in the south of Spain. During the period of ten days, measurements were made to capture the main processes controlling the local and regional land-atmosphere exchanges. Apart from multi-temporal, multi-directional and multi-spatial space-borne and airborne observations, measurements of the local meteorology, energy fluxes, soil temperature profiles, soil moisture profiles, surface temperature, canopy structure as well as leaf-level measurements were carried out. Additional thermo-dynamical monitoring took place at selected sites. After presenting the different types of measurements, some examples are given to illustrate the potential of the observations made. KW - multi scale heterogeneity KW - quantitative remote sensing KW - remote KW - evapotranspiration KW - validation KW - issues KW - energy KW - models KW - water KW - flux KW - land-atmosphere interaction KW - turbulence KW - calibration and validation Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-136491 VL - 63 IS - 6 ER - TY - JOUR A1 - Grabenhenrich, Linus B. A1 - Reich, Andreas A1 - Fischer, Felix A1 - Zepp, Fred A1 - Forster, Johannes A1 - Schuster, Antje A1 - Bauer, Carl-Peter A1 - Bergmann, Renate L. A1 - Bergmann, Karl E. A1 - Wahn, Ulrich A1 - Keil, Thomas A1 - Lau, Susanne T1 - The Novel 10-Item Asthma Prediction Tool: External Validation in the German MAS Birth Cohort JF - PLOS ONE N2 - Background: A novel non-invasive asthma prediction tool from the Leicester Cohort, UK, forecasts asthma at age 8 years based on 10 predictors assessed in early childhood, including current respiratory symptoms, eczema, and parental history of asthma. Objective: We aimed to externally validate the proposed asthma prediction method in a German birth cohort. Methods: The MAS-90 study (Multicentre Allergy Study) recorded details on allergic diseases prospectively in about yearly follow-up assessments up to age 20 years in a cohort of 1,314 children born 1990. We replicated the scoring method from the Leicester cohort and assessed prediction, performance and discrimination. The primary outcome was defined as the combination of parent-reported wheeze and asthma drugs (both in last 12 months) at age 8. Sensitivity analyses assessed model performance for outcomes related to asthma up to age 20 years. Results: For 140 children parents reported current wheeze or cough at age 3 years. Score distribution and frequencies of later asthma resembled the Leicester cohort: 9% vs. 16% (MAS-90 vs. Leicester) of children at low risk at 3 years had asthma at 8 years, at medium risk 45% vs. 48%. Performance of the asthma prediction tool in the MAS-90 cohort was similar (Brier score 0.22 vs. 0.23) and discrimination slightly better than in the original cohort (area under the curve, AUC 0.83 vs. 0.78). Prediction and discrimination were robust against changes of inclusion criteria, scoring and outcome definitions. The secondary outcome 'physicians' diagnosed asthma at 20 years' showed the highest discrimination (AUC 0.89). Conclusion: The novel asthma prediction tool from the Leicester cohort, UK, performed well in another population, a German birth cohort, supporting its use and further development as a simple aid to predict asthma risk in clinical settings. KW - disease KW - models KW - symptoms KW - risk KW - early-life KW - young children KW - preschool children KW - sample KW - wheeze KW - age Y1 - 2014 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-114202 SN - 1932-6203 VL - 9 IS - 12 ER -