@article{KastlBraunPresteletal.2015, author = {Kastl, Johanna and Braun, Joachim and Prestel, Andreas and M{\"o}ller, Heiko Michael and Huhn, Thomas and Mayer, Thomas U.}, title = {Mad2 Inhibitor-1 (M2I-1): A Small Molecule Protein-Protein Interaction Inhibitor Targeting the Mitotic Spindle Assembly Checkpoint}, series = {ACS chemical biology}, volume = {10}, journal = {ACS chemical biology}, number = {7}, publisher = {American Chemical Society}, address = {Washington}, issn = {1554-8929}, doi = {10.1021/acschembio.5b00121}, pages = {1661 -- 1666}, year = {2015}, abstract = {The genetic integrity of each organism depends on the faithful segregation of its genome during mitosis. To meet this challenge, a cellular surveillance mechanism, termed the spindle assembly checkpoint (SAC), evolved that monitors the correct attachment of chromosomes and blocks progression through mitosis if corrections are needed. While the central role of the SAC for genome integrity is well established, its functional dissection has been hampered by the limited availability of appropriate small molecule inhibitors. Using a fluorescence polarization-based screen, we identify Mad2 inhibitor-1 (M2I-1), the first small molecule inhibitor targeting the binding of Mad2 to Cdc20, an essential protein-protein interaction (PPI) within the SAC. Based on computational and biochemical analyses, we propose that M2I-1 disturbs conformational dynamics of Mad2 critical for complex formation with Cdc20. Cellular studies revealed that M2I-1 weakens the SAC response, indicating that the compound might be active in cells. Thus, our study identifies the SAC specific complex formation between Mad2 and Cdc20 as a protein-protein interaction that can be targeted by small molecules.}, language = {en} } @article{BeerenwinkelSingLengaueretal.2005, author = {Beerenwinkel, Niko and Sing, Tobias and Lengauer, Thomas and Rahnenfuhrer, Joerg and Roomp, Kirsten and Savenkov, Igor and Fischer, Roman and Hoffmann, Daniel and Selbig, Joachim and Korn, Klaus and Walter, Hauke and Berg, Thomas and Braun, Patrick and Faetkenheuer, Gerd and Oette, Mark and Rockstroh, Juergen and Kupfer, Bernd and Kaiser, Rolf and Daeumer, Martin}, title = {Computational methods for the design of effective therapies against drug resistant HIV strains}, year = {2005}, abstract = {The development of drug resistance is a major obstacle to successful treatment of HIV infection. The extraordinary replication dynamics of HIV facilitates its escape from selective pressure exerted by the human immune system and by combination drug therapy. We have developed several computational methods whose combined use can support the design of optimal antiretroviral therapies based on viral genomic data}, language = {en} } @article{AlkemeyerBraunGebauer1998, author = {Alkemeyer, Thomas and Braun, Sebastian and Gebauer, Gunther}, title = {Spitzensport, soziale Ungleichheit und soziale Reproduktion im deutsch-franz{\"o}sischen Vergleich}, year = {1998}, language = {de} } @article{CescaBraunMaccaferrietal.2013, author = {Cesca, Simone and Braun, Thomas and Maccaferri, Francesco and Passarelli, Luigi and Rivalta, Eleonora and Dahm, Torsten}, title = {Source modelling of the M5-6 Emilia-Romagna, Italy, earthquakes (2012 May 20-29)}, series = {Geophysical journal international}, volume = {193}, journal = {Geophysical journal international}, number = {3}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0956-540X}, doi = {10.1093/gji/ggt069}, pages = {1658 -- 1672}, year = {2013}, abstract = {On 2012 May 20 and 29, two damaging earthquakes with magnitudes M-w 6.1 and 5.9, respectively, struck the Emilia-Romagna region in the sedimentary Po Plain, Northern Italy, causing 26 fatalities, significant damage to historical buildings and substantial impact to the economy of the region. The earthquake sequence included four more aftershocks with M-w, >= 5.0, all at shallow depths (about 7-9 km), with similar WNW-ESE striking reverse mechanism. The timeline of the sequence suggests significant static stress interaction between the largest events. We perform here a detailed source inversion, first adopting a point source approximation and considering pure double couple and full moment tensor source models. We compare different extended source inversion approaches for the two largest events, and find that the rupture occurred in both cases along a subhorizontal plane, dipping towards SSW Directivity is well detected for the May 20 main shock, indicating that the rupture propagated unilaterally towards SE. Based on the focal mechanism solution, we further estimate the co-seismic static stress change induced by the May 20 event. By using the rate-and-state model and a Poissonian earthquake occurrence, we infer that the second largest event of May 29 was induced with a probability in the range 0.2-0.4. This suggests that the segment of fault was already prone to rupture. Finally, we estimate peak ground accelerations for the two main events as occurred separately or simultaneously. For the scenario involving hypothetical rupture areas of both main events, we estimate M-w = 6.3 and an increase of ground acceleration by 50 per cent. The approach we propose may help to quantify rapidly which regions are invested by a significant increase of the hazard, bearing the potential for large aftershocks or even a second main shock.}, language = {en} } @article{JedrusikBodeStudenckaSmolkaetal.2013, author = {Jedrusik-Bode, Monika and Studencka, Maja and Smolka, Christian and Baumann, Tobias and Schmidt, Henning and Kampf, Jan and Paap, Franziska and Martin, Sophie and Tazi, Jamal and M{\"u}ller, Kristian M. and Kr{\"u}ger, Marcus and Braun, Thomas and Bober, Eva}, title = {The sirtuin SIRT6 regulates stress granule formation in C. elegans and mammals}, series = {Journal of cell science}, volume = {126}, journal = {Journal of cell science}, number = {22}, publisher = {Company of Biologists Limited}, address = {Cambridge}, issn = {0021-9533}, doi = {10.1242/jcs.130708}, pages = {5166 -- +}, year = {2013}, abstract = {SIRT6 is a NAD(+)-dependent deacetylase that modulates chromatin structure and safeguards genomic stability. Until now, SIRT6 has been assigned to the nucleus and only nuclear targets of SIRT6 are known. Here, we demonstrate that in response to stress, C. elegans SIR-2.4 and its mammalian orthologue SIRT6 localize to cytoplasmic stress granules, interact with various stress granule components and induce their assembly. Loss of SIRT6 or inhibition of its catalytic activity in mouse embryonic fibroblasts impairs stress granule formation and delays disassembly during recovery, whereas deficiency of SIR-2.4 diminishes maintenance of P granules and decreases survival of C. elegans under stress conditions. Our findings uncover a novel, evolutionary conserved function of SIRT6 in the maintenance of stress granules in response to stress.}, language = {en} } @article{ReusswigBraunHegeretal.2016, author = {Reusswig, Fritz and Braun, Florian and Heger, Ines and Ludewig, Thomas and Eichenauer, Eva and Lass, Wiebke}, title = {Against the wind: Local opposition to the German Energiewende}, series = {Utilities Policy}, volume = {41}, journal = {Utilities Policy}, publisher = {Elsevier}, address = {Oxford}, issn = {0957-1787}, doi = {10.1016/j.jup.2016.02.006}, pages = {214 -- 227}, year = {2016}, abstract = {A growing number of local energy conflicts around wind power and power-grid extensions are slowing down the deployment of the German Energiewende. In this paper, a local conflict on wind energy in the state of Baden-W{\"u}rttemberg is analysed in detail. In the little community of Engelsbrand, local opposition against a planned wind park was able to turn around a set of favourable a priori conditions, such as a supporting state government planning process, a local supporter group, a transparent planning process, including a majority vote pro wind energy, and a round table discussion. Distancing itself from the NIMBY-explanation ('Not In My Back Yard'), the paper applies insights from discourse network analysis and micro-sociology in order to study the local conflict dynamics. Special attention is given to the resource mobilisation strategies of the opponents, including social networks, mass and social media use. The paper ends by drawing some general conclusions for the German Energiewende.}, language = {en} } @article{KoshkinaWestmeierLangetal.2016, author = {Koshkina, Olga and Westmeier, Dana and Lang, Thomas and Bantz, Christoph and Hahlbrock, Angelina and W{\"u}rth, Christian and Resch-Genger, Ute and Braun, Ulrike and Thiermann, Raphael and Weise, Christoph and Eravci, Murat and Mohr, Benjamin and Schlaad, Helmut and Stauber, Roland H. and Docter, Dominic and Bertin, Annabelle and Maskos, Michael}, title = {Tuning the Surface of Nanoparticles: Impact of Poly(2-ethyl-2-oxazoline) on Protein Adsorption in Serum and Cellular Uptake}, series = {Macromolecular bioscience}, volume = {16}, journal = {Macromolecular bioscience}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {1616-5187}, doi = {10.1002/mabi.201600074}, pages = {1287 -- 1300}, year = {2016}, abstract = {Due to the adsorption of biomolecules, the control of the biodistribution of nanoparticles is still one of the major challenges of nanomedicine. Poly(2-ethyl-2-oxazoline) (PEtOx) for surface modification of nanoparticles is applied and both protein adsorption and cellular uptake of PEtOxylated nanoparticles versus nanoparticles coated with poly(ethylene glycol) (PEG) and non-coated positively and negatively charged nanoparticles are compared. Therefore, fluorescent poly(organosiloxane) nanoparticles of 15 nm radius are synthesized, which are used as a scaffold for surface modification in a grafting onto approach. With multi-angle dynamic light scattering, asymmetrical flow field-flow fractionation, gel electrophoresis, and liquid chromatography-mass spectrometry, it is demonstrated that protein adsorption on PEtOxylated nanoparticles is extremely low, similar as on PEGylated nanoparticles. Moreover, quantitative microscopy reveals that PEtOxylation significantly reduces the non-specific cellular uptake, particularly by macrophage-like cells. Collectively, studies demonstrate that PEtOx is a very effective alternative to PEG for stealth modification of the surface of nanoparticles.}, language = {en} } @unpublished{BraunBrechenmacherDambergetal.2014, author = {Braun, Karl-Heinz and Brechenmacher, Thomas and Damberg, Wilhelm and Felten, Franz J. and Kampmann, Christoph and Koerner, Hans-Michael and Schindling, Anton}, title = {Editiorial}, series = {Historisches Jahrbuch}, volume = {134}, journal = {Historisches Jahrbuch}, publisher = {Alber}, address = {Freiburg Breisgau}, issn = {0018-2621}, pages = {IX -- IX}, year = {2014}, language = {de} } @article{DahmCescaHainzletal.2015, author = {Dahm, Torsten and Cesca, Simone and Hainzl, Sebastian and Braun, Thomas and Kr{\"u}ger, Frank}, title = {Discrimination between induced, triggered, and natural earthquakes close to hydrocarbon reservoirs: A probabilistic approach based on the modeling of depletion-induced stress changes and seismological source parameters}, series = {Journal of geophysical research : Solid earth}, volume = {120}, journal = {Journal of geophysical research : Solid earth}, number = {4}, publisher = {American Geophysical Union}, address = {Washington}, issn = {2169-9313}, doi = {10.1002/2014JB011778}, pages = {2491 -- 2509}, year = {2015}, abstract = {Earthquakes occurring close to hydrocarbon fields under production are often under critical view of being induced or triggered. However, clear and testable rules to discriminate the different events have rarely been developed and tested. The unresolved scientific problem may lead to lengthy public disputes with unpredictable impact on the local acceptance of the exploitation and field operations. We propose a quantitative approach to discriminate induced, triggered, and natural earthquakes, which is based on testable input parameters. Maxima of occurrence probabilities are compared for the cases under question, and a single probability of being triggered or induced is reported. The uncertainties of earthquake location and other input parameters are considered in terms of the integration over probability density functions. The probability that events have been human triggered/induced is derived from the modeling of Coulomb stress changes and a rate and state-dependent seismicity model. In our case a 3-D boundary element method has been adapted for the nuclei of strain approach to estimate the stress changes outside the reservoir, which are related to pore pressure changes in the field formation. The predicted rate of natural earthquakes is either derived from the background seismicity or, in case of rare events, from an estimate of the tectonic stress rate. Instrumentally derived seismological information on the event location, source mechanism, and the size of the rupture plane is of advantage for the method. If the rupture plane has been estimated, the discrimination between induced or only triggered events is theoretically possible if probability functions are convolved with a rupture fault filter. We apply the approach to three recent main shock events: (1) the M-w 4.3 Ekofisk 2001, North Sea, earthquake close to the Ekofisk oil field; (2) the M-w 4.4 Rotenburg 2004, Northern Germany, earthquake in the vicinity of the Sohlingen gas field; and (3) the M-w 6.1 Emilia 2012, Northern Italy, earthquake in the vicinity of a hydrocarbon reservoir. The three test cases cover the complete range of possible causes: clearly human induced, not even human triggered, and a third case in between both extremes.}, language = {en} } @article{HofmanHaywardHeimetal.2019, author = {Hofman, Maarten P. G. and Hayward, M. W. and Heim, M. and Marchand, P. and Rolandsen, C. M. and Mattisson, Jenny and Urbano, F. and Heurich, M. and Mysterud, A. and Melzheimer, J. and Morellet, N. and Voigt, Ulrich and Allen, B. L. and Gehr, Benedikt and Rouco Zufiaurre, Carlos and Ullmann, Wiebke and Holand, O. and Jorgensen, n H. and Steinheim, G. and Cagnacci, F. and Kroeschel, M. and Kaczensky, P. and Buuveibaatar, B. and Payne, J. C. and Palmegiani, I and Jerina, K. and Kjellander, P. and Johansson, O. and LaPoint, S. and Bayrakcismith, R. and Linnell, J. D. C. and Zaccaroni, M. and Jorge, M. L. S. and Oshima, J. E. F. and Songhurst, A. and Fischer, C. and Mc Bride, R. T. and Thompson, J. J. and Streif, S. and Sandfort, R. and Bonenfant, Christophe and Drouilly, M. and Klapproth, M. and Zinner, Dietmar and Yarnell, Richard and Stronza, A. and Wilmott, L. and Meisingset, E. and Thaker, Maria and Vanak, A. T. and Nicoloso, S. and Graeber, R. and Said, S. and Boudreau, M. R. and Devlin, A. and Hoogesteijn, R. and May-Junior, J. A. and Nifong, J. C. and Odden, J. and Quigley, H. B. and Tortato, F. and Parker, D. M. and Caso, A. and Perrine, J. and Tellaeche, C. and Zieba, F. and Zwijacz-Kozica, T. and Appel, C. L. and Axsom, I and Bean, W. T. and Cristescu, B. and Periquet, S. and Teichman, K. J. and Karpanty, S. and Licoppe, A. and Menges, V and Black, K. and Scheppers, Thomas L. and Schai-Braun, S. C. and Azevedo, F. C. and Lemos, F. G. and Payne, A. and Swanepoel, L. H. and Weckworth, B. and Berger, A. and Bertassoni, Alessandra and McCulloch, G. and Sustr, P. and Athreya, V and Bockmuhl, D. and Casaer, J. and Ekori, A. and Melovski, D. and Richard-Hansen, C. and van de Vyver, D. and Reyna-Hurtado, R. and Robardet, E. and Selva, N. and Sergiel, A. and Farhadinia, M. S. and Sunde, P. and Portas, R. and Ambarli, H{\"u}seyin and Berzins, R. and Kappeler, P. M. and Mann, G. K. and Pyritz, L. and Bissett, C. and Grant, T. and Steinmetz, R. and Swedell, Larissa and Welch, R. J. and Armenteras, D. and Bidder, O. R. and Gonzalez, T. M. and Rosenblatt, A. and Kachel, S. and Balkenhol, N.}, title = {Right on track?}, series = {PLoS one}, volume = {14}, journal = {PLoS one}, number = {5}, publisher = {PLoS}, address = {San Fransisco}, issn = {1932-6203}, doi = {10.1371/journal.pone.0216223}, pages = {26}, year = {2019}, abstract = {Satellite telemetry is an increasingly utilized technology in wildlife research, and current devices can track individual animal movements at unprecedented spatial and temporal resolutions. However, as we enter the golden age of satellite telemetry, we need an in-depth understanding of the main technological, species-specific and environmental factors that determine the success and failure of satellite tracking devices across species and habitats. Here, we assess the relative influence of such factors on the ability of satellite telemetry units to provide the expected amount and quality of data by analyzing data from over 3,000 devices deployed on 62 terrestrial species in 167 projects worldwide. We evaluate the success rate in obtaining GPS fixes as well as in transferring these fixes to the user and we evaluate failure rates. Average fix success and data transfer rates were high and were generally better predicted by species and unit characteristics, while environmental characteristics influenced the variability of performance. However, 48\% of the unit deployments ended prematurely, half of them due to technical failure. Nonetheless, this study shows that the performance of satellite telemetry applications has shown improvements over time, and based on our findings, we provide further recommendations for both users and manufacturers.}, language = {en} }