@book{RanaMohapatraSidorovaetal.2022, author = {Rana, Kaushik and Mohapatra, Durga Prasad and Sidorova, Julia and Lundberg, Lars and Sk{\"o}ld, Lars and Lopes Grim, Lu{\´i}s Fernando and Sampaio Gradvohl, Andr{\´e} Leon and Cremerius, Jonas and Siegert, Simon and Weltzien, Anton von and Baldi, Annika and Klessascheck, Finn and Kalancha, Svitlana and Lichtenstein, Tom and Shaabani, Nuhad and Meinel, Christoph and Friedrich, Tobias and Lenzner, Pascal and Schumann, David and Wiese, Ingmar and Sarna, Nicole and Wiese, Lena and Tashkandi, Araek Sami and van der Walt, Est{\´e}e and Eloff, Jan H. P. and Schmidt, Christopher and H{\"u}gle, Johannes and Horschig, Siegfried and Uflacker, Matthias and Najafi, Pejman and Sapegin, Andrey and Cheng, Feng and Stojanovic, Dragan and Stojnev Ilić, Aleksandra and Djordjevic, Igor and Stojanovic, Natalija and Predic, Bratislav and Gonz{\´a}lez-Jim{\´e}nez, Mario and de Lara, Juan and Mischkewitz, Sven and Kainz, Bernhard and van Hoorn, Andr{\´e} and Ferme, Vincenzo and Schulz, Henning and Knigge, Marlene and Hecht, Sonja and Prifti, Loina and Krcmar, Helmut and Fabian, Benjamin and Ermakova, Tatiana and Kelkel, Stefan and Baumann, Annika and Morgenstern, Laura and Plauth, Max and Eberhard, Felix and Wolff, Felix and Polze, Andreas and Cech, Tim and Danz, Noel and Noack, Nele Sina and Pirl, Lukas and Beilharz, Jossekin Jakob and De Oliveira, Roberto C. L. and Soares, F{\´a}bio Mendes and Juiz, Carlos and Bermejo, Belen and M{\"u}hle, Alexander and Gr{\"u}ner, Andreas and Saxena, Vageesh and Gayvoronskaya, Tatiana and Weyand, Christopher and Krause, Mirko and Frank, Markus and Bischoff, Sebastian and Behrens, Freya and R{\"u}ckin, Julius and Ziegler, Adrian and Vogel, Thomas and Tran, Chinh and Moser, Irene and Grunske, Lars and Sz{\´a}rnyas, G{\´a}bor and Marton, J{\´o}zsef and Maginecz, J{\´a}nos and Varr{\´o}, D{\´a}niel and Antal, J{\´a}nos Benjamin}, title = {HPI Future SOC Lab - Proceedings 2018}, number = {151}, editor = {Meinel, Christoph and Polze, Andreas and Beins, Karsten and Strotmann, Rolf and Seibold, Ulrich and R{\"o}dszus, Kurt and M{\"u}ller, J{\"u}rgen}, publisher = {Universit{\"a}tsverlag Potsdam}, address = {Potsdam}, isbn = {978-3-86956-547-7}, issn = {1613-5652}, doi = {10.25932/publishup-56371}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-563712}, publisher = {Universit{\"a}t Potsdam}, pages = {x, 277}, year = {2022}, abstract = {The "HPI Future SOC Lab" is a cooperation of the Hasso Plattner Institute (HPI) and industry partners. Its mission is to enable and promote exchange and interaction between the research community and the industry partners. The HPI Future SOC Lab provides researchers with free of charge access to a complete infrastructure of state of the art hard and software. This infrastructure includes components, which might be too expensive for an ordinary research environment, such as servers with up to 64 cores and 2 TB main memory. The offerings address researchers particularly from but not limited to the areas of computer science and business information systems. Main areas of research include cloud computing, parallelization, and In-Memory technologies. This technical report presents results of research projects executed in 2018. Selected projects have presented their results on April 17th and November 14th 2017 at the Future SOC Lab Day events.}, language = {en} } @article{ReichWeissmann2021, author = {Reich, Sebastian and Weissmann, Simon}, title = {Fokker-Planck particle systems for Bayesian inference: computational approaches}, series = {SIAM ASA journal on uncertainty quantification}, volume = {9}, journal = {SIAM ASA journal on uncertainty quantification}, number = {2}, publisher = {Society for Industrial and Applied Mathematics}, address = {Philadelphia}, issn = {2166-2525}, doi = {10.1137/19M1303162}, pages = {446 -- 482}, year = {2021}, abstract = {Bayesian inference can be embedded into an appropriately defined dynamics in the space of probability measures. In this paper, we take Brownian motion and its associated Fokker-Planck equation as a starting point for such embeddings and explore several interacting particle approximations. More specifically, we consider both deterministic and stochastic interacting particle systems and combine them with the idea of preconditioning by the empirical covariance matrix. In addition to leading to affine invariant formulations which asymptotically speed up convergence, preconditioning allows for gradient-free implementations in the spirit of the ensemble Kalman filter. While such gradient-free implementations have been demonstrated to work well for posterior measures that are nearly Gaussian, we extend their scope of applicability to multimodal measures by introducing localized gradient-free approximations. Numerical results demonstrate the effectiveness of the considered methodologies.}, language = {en} } @article{KoenigAblerAgartzetal.2020, author = {Koenig, Julian and Abler, Birgit and Agartz, Ingrid and akerstedt, Torbjorn and Andreassen, Ole A. and Anthony, Mia and Baer, Karl-Juergen and Bertsch, Katja and Brown, Rebecca C. and Brunner, Romuald and Carnevali, Luca and Critchley, Hugo D. and Cullen, Kathryn R. and de Geus, Eco J. C. and de la Cruz, Feliberto and Dziobek, Isabel and Ferger, Marc D. and Fischer, Hakan and Flor, Herta and Gaebler, Michael and Gianaros, Peter J. and Giummarra, Melita J. and Greening, Steven G. and Guendelman, Simon and Heathers, James A. J. and Herpertz, Sabine C. and Hu, Mandy X. and Jentschke, Sebastian and Kaess, Michael and Kaufmann, Tobias and Klimes-Dougan, Bonnie and Koelsch, Stefan and Krauch, Marlene and Kumral, Deniz and Lamers, Femke and Lee, Tae-Ho and Lekander, Mats and Lin, Feng and Lotze, Martin and Makovac, Elena and Mancini, Matteo and Mancke, Falk and Mansson, Kristoffer N. T. and Manuck, Stephen B. and Mather, Mara and Meeten, Frances and Min, Jungwon and Mueller, Bryon and Muench, Vera and Nees, Frauke and Nga, Lin and Nilsonne, Gustav and Ordonez Acuna, Daniela and Osnes, Berge and Ottaviani, Cristina and Penninx, Brenda W. J. H. and Ponzio, Allison and Poudel, Govinda R. and Reinelt, Janis and Ren, Ping and Sakaki, Michiko and Schumann, Andy and Sorensen, Lin and Specht, Karsten and Straub, Joana and Tamm, Sandra and Thai, Michelle and Thayer, Julian F. and Ubani, Benjamin and van Der Mee, Denise J. and van Velzen, Laura S. and Ventura-Bort, Carlos and Villringer, Arno and Watson, David R. and Wei, Luqing and Wendt, Julia and Schreiner, Melinda Westlund and Westlye, Lars T. and Weymar, Mathias and Winkelmann, Tobias and Wu, Guo-Rong and Yoo, Hyun Joo and Quintana, Daniel S.}, title = {Cortical thickness and resting-state cardiac function across the lifespan}, series = {Psychophysiology : journal of the Society for Psychophysiological Research}, volume = {58}, journal = {Psychophysiology : journal of the Society for Psychophysiological Research}, number = {7}, publisher = {Wiley}, address = {Hoboken}, issn = {0048-5772}, doi = {10.1111/psyp.13688}, pages = {16}, year = {2020}, abstract = {Understanding the association between autonomic nervous system [ANS] function and brain morphology across the lifespan provides important insights into neurovisceral mechanisms underlying health and disease. Resting-state ANS activity, indexed by measures of heart rate [HR] and its variability [HRV] has been associated with brain morphology, particularly cortical thickness [CT]. While findings have been mixed regarding the anatomical distribution and direction of the associations, these inconsistencies may be due to sex and age differences in HR/HRV and CT. Previous studies have been limited by small sample sizes, which impede the assessment of sex differences and aging effects on the association between ANS function and CT. To overcome these limitations, 20 groups worldwide contributed data collected under similar protocols of CT assessment and HR/HRV recording to be pooled in a mega-analysis (N = 1,218 (50.5\% female), mean age 36.7 years (range: 12-87)). Findings suggest a decline in HRV as well as CT with increasing age. CT, particularly in the orbitofrontal cortex, explained additional variance in HRV, beyond the effects of aging. This pattern of results may suggest that the decline in HRV with increasing age is related to a decline in orbitofrontal CT. These effects were independent of sex and specific to HRV; with no significant association between CT and HR. Greater CT across the adult lifespan may be vital for the maintenance of healthy cardiac regulation via the ANS-or greater cardiac vagal activity as indirectly reflected in HRV may slow brain atrophy. Findings reveal an important association between CT and cardiac parasympathetic activity with implications for healthy aging and longevity that should be studied further in longitudinal research.}, language = {en} } @misc{KrahThulinFaiersteinetal.2019, author = {Krah, Markus and Thulin, Mirjam and Faierstein, Morris M. and Drori, Danielle and Coors, Maria and Schramm, Netta and Driver, Cory and Holzman, Gitit and Zuckermann, Ghil'ad and Fishbane, Eitan P. and Gruenbaum, Caroline and Schirrmeister, Sebastian and Ferrari, Francesco and Stemberger, G{\"u}nter and Schm{\"o}lz-H{\"a}berlein, Michaela and M{\"u}ller, Judith and Schulz, Michael Karl and Meyer, Thomas and Artwińska, Anna and Walter, Simon}, title = {PaRDeS : Zeitschrift der Vereinigung f{\"u}r J{\"u}dische Studien = Transformative Translations in Jewish History and Culture}, number = {25}, editor = {Krah, Markus and Thulin, Mirjam and Pick, Bianca}, publisher = {Universit{\"a}tsverlag Potsdam}, address = {Potsdam}, isbn = {978-3-86956-468-5}, issn = {1614-6492}, doi = {10.25932/publishup-43262}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-432621}, pages = {198}, year = {2019}, abstract = {PaRDeS, die Zeitschrift der Vereinigung f{\"u}r J{\"u}dische Studien e. V., erforscht die fruchtbare kulturelle Vielfalt des Judentums sowie ihre Ber{\"u}hrungspunkte zur nichtj{\"u}dischen Umwelt in unterschiedlichen Bereichen. Daneben dient die Zeitschrift als Forum zur Positionierung der F{\"a}cher J{\"u}dische Studien und ­Judaistik innerhalb des wissenschaftlichen Diskurses sowie zur Diskussion ihrer historischen und gesellschaftlichen Verantwortung.}, language = {en} } @article{KunnusJosefssonRajkovicetal.2016, author = {Kunnus, Kristjan and Josefsson, Ida and Rajkovic, Ivan and Schreck, Simon and Quevedo, Wilson and Beye, Martin and Gr{\"u}bel, Sebastian and Scholz, Mirko and Nordlund, Dennis and Zhang, Wenkai and Hartsock, Robert W. and Gaffney, Kelly J. and Schlotter, William F. and Turner, Joshua J. and Kennedy, Brian and Hennies, Franz and Techert, Simone and Wernet, Philippe and Odelius, Michael and F{\"o}hlisch, Alexander}, title = {Anti-Stokes resonant x-ray Raman scattering for atom specific and excited state selective dynamics}, series = {NEW JOURNAL OF PHYSICS}, volume = {18}, journal = {NEW JOURNAL OF PHYSICS}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {1367-2630}, doi = {10.1088/1367-2630/18/10/103011}, pages = {9}, year = {2016}, abstract = {Ultrafast electronic and structural dynamics of matter govern rate and selectivity of chemical reactions, as well as phase transitions and efficient switching in functional materials. Since x-rays determine electronic and structural properties with elemental, chemical, orbital and magnetic selectivity, short pulse x-ray sources have become central enablers of ultrafast science. Despite of these strengths, ultrafast x-rays have been poor at picking up excited state moieties from the unexcited ones. With time-resolved anti-Stokes resonant x-ray Raman scattering (AS-RXRS) performed at the LCLS, and ab initio theory we establish background free excited state selectivity in addition to the elemental, chemical, orbital and magnetic selectivity of x-rays. This unparalleled selectivity extracts low concentration excited state species along the pathway of photo induced ligand exchange of Fe(CO)(5) in ethanol. Conceptually a full theoretical treatment of all accessible insights to excited state dynamics with AS-RXRS with transform-limited x-ray pulses is given-which will be covered experimentally by upcoming transform-limited x-ray sources.}, language = {en} } @article{DejongheKuenenMylleetal.2016, author = {Dejonghe, Wim and Kuenen, Sabine and Mylle, Evelien and Vasileva, Mina and Keech, Olivier and Viotti, Corrado and Swerts, Jef and Fendrych, Matyas and Ortiz-Morea, Fausto Andres and Mishev, Kiril and Delang, Simon and Scholl, Stefan and Zarza, Xavier and Heilmann, Mareike and Kourelis, Jiorgos and Kasprowicz, Jaroslaw and Nguyen, Le Son Long and Drozdzecki, Andrzej and Van Houtte, Isabelle and Szatmari, Anna-Maria and Majda, Mateusz and Baisa, Gary and Bednarek, Sebastian York and Robert, Stephanie and Audenaert, Dominique and Testerink, Christa and Munnik, Teun and Van Damme, Daniel and Heilmann, Ingo and Schumacher, Karin and Winne, Johan and Friml, Jiri and Verstreken, Patrik and Russinova, Eugenia}, title = {Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification}, series = {Nature Communications}, volume = {7}, journal = {Nature Communications}, publisher = {Nature Publ. Group}, address = {London}, issn = {2041-1723}, doi = {10.1038/ncomms11710}, pages = {1959 -- 1968}, year = {2016}, abstract = {ATP production requires the establishment of an electrochemical proton gradient across the inner mitochondrial membrane. Mitochondrial uncouplers dissipate this proton gradient and disrupt numerous cellular processes, including vesicular trafficking, mainly through energy depletion. Here we show that Endosidin9 (ES9), a novel mitochondrial uncoupler, is a potent inhibitor of clathrin-mediated endocytosis (CME) in different systems and that ES9 induces inhibition of CME not because of its effect on cellular ATP, but rather due to its protonophore activity that leads to cytoplasm acidification. We show that the known tyrosine kinase inhibitor tyrphostinA23, which is routinely used to block CME, displays similar properties, thus questioning its use as a specific inhibitor of cargo recognition by the AP-2 adaptor complex via tyrosine motif-based endocytosis signals. Furthermore, we show that cytoplasm acidification dramatically affects the dynamics and recruitment of clathrin and associated adaptors, and leads to reduction of phosphatidylinositol 4,5-biphosphate from the plasma membrane.}, language = {en} } @article{JungKiertscherMenskietal.2015, author = {Jung, J{\"o}rg and Kiertscher, Simon and Menski, Sebastian and Schnor, Bettina}, title = {Self-Adapting Load Balancing for DNS}, series = {Journal of networks}, volume = {10}, journal = {Journal of networks}, number = {4}, publisher = {Kluwer Academic Publishers}, address = {Oulu}, doi = {10.1109/SPECTS.2014.6879994}, pages = {222 -- 231}, year = {2015}, abstract = {The Domain Name System belongs to the core services of the Internet infrastructure. Hence, DNS availability and performance is essential for the operation of the Internet and replication as well as load balancing are used for the root and top level name servers. This paper proposes an architecture for credit based server load balancing (SLB) for DNS. Compared to traditional load balancing algorithms like round robin or least connection, the benefit of credit based SLB is that the load balancer can adapt more easily to heterogeneous load requests and back end server capacities. The challenge of this approach is the definition of a suited credit metric. While this was done before for TCP based services like HTTP, the problem was not solved for UDP based services like DNS. In the following an approach is presented to define credits also for UDP based services. This UDP/DNS approach is implemented within the credit based SLB implementation salbnet. The presented measurements confirm the benefit of the self-adapting credit based SLB approach. In our experiments, the mean (first) response time dropped significantly compared to weighted round robin (WRR) (from over 4 ms to about 0.6 ms for dynamic pressure relieve (DPR)).}, language = {en} } @article{SellbergMcQueenLaksmonoetal.2015, author = {Sellberg, Jonas A. and McQueen, Trevor A. and Laksmono, Hartawan and Schreck, Simon and Beye, Martin and DePonte, Daniel P. and Kennedy, Brian and Nordlund, Dennis and Sierra, Raymond G. and Schlesinger, Daniel and Tokushima, Takashi and Zhovtobriukh, Iurii and Eckert, Sebastian and Segtnan, Vegard H. and Ogasawara, Hirohito and Kubicek, Katharina and Techert, Simone and Bergmann, Uwe and Dakovski, Georgi L. and Schlotter, William F. and Harada, Yoshihisa and Bogan, Michael J. and Wernet, Philippe and F{\"o}hlisch, Alexander and Pettersson, Lars G. M. and Nilsson, Anders}, title = {X-ray emission spectroscopy of bulk liquid water in "no-man's land"}, series = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, volume = {142}, journal = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, number = {4}, publisher = {American Institute of Physics}, address = {Melville}, issn = {0021-9606}, doi = {10.1063/1.4905603}, pages = {9}, year = {2015}, abstract = {The structure of bulk liquid water was recently probed by x-ray scattering below the temperature limit of homogeneous nucleation (T-H) of similar to 232 K [J. A. Sellberg et al., Nature 510, 381-384 (2014)]. Here, we utilize a similar approach to study the structure of bulk liquid water below T-H using oxygen K-edge x-ray emission spectroscopy (XES). Based on previous XES experiments [T. Tokushima et al., Chem. Phys. Lett. 460, 387-400 (2008)] at higher temperatures, we expected the ratio of the 1b(1)' and 1b(1)" peaks associated with the lone-pair orbital in water to change strongly upon deep supercooling as the coordination of the hydrogen (H-) bonds becomes tetrahedral. In contrast, we observed only minor changes in the lone-pair spectral region, challenging an interpretation in terms of two interconverting species. A number of alternative hypotheses to explain the results are put forward and discussed. Although the spectra can be explained by various contributions from these hypotheses, we here emphasize the interpretation that the line shape of each component changes dramatically when approaching lower temperatures, where, in particular, the peak assigned to the proposed disordered component would become more symmetrical as vibrational interference becomes more important. (C) 2015 AIP Publishing LLC.}, language = {en} } @article{SchreckBeyeSellbergetal.2014, author = {Schreck, Simon and Beye, Martin and Sellberg, Jonas A. and McQueen, Trevor and Laksmono, Hartawan and Kennedy, Brian and Eckert, Sebastian and Schlesinger, Daniel and Nordlund, Dennis and Ogasawara, Hirohito and Sierra, Raymond G. and Segtnan, Vegard H. and Kubicek, Katharina and Schlotter, William F. and Dakovski, Georgi L. and Moeller, Stefan P. and Bergmann, Uwe and Techert, Simone and Pettersson, Lars G. M. and Wernet, Philippe and Bogan, Michael J. and Harada, Yoshihisa and Nilsson, Anders and F{\"o}hlisch, Alexander}, title = {Reabsorption of soft x-ray emission at high x-ray free-electron laserfluences}, series = {Physical review letters}, volume = {113}, journal = {Physical review letters}, number = {15}, publisher = {American Physical Society}, address = {College Park}, issn = {0031-9007}, doi = {10.1103/PhysRevLett.113.153002}, pages = {6}, year = {2014}, abstract = {We report on oxygen K-edge soft x-ray emission spectroscopy from a liquid water jet at the Linac Coherent Light Source. We observe significant changes in the spectral content when tuning over a wide range of incident x-ray fluences. In addition the total emission yield decreases at high fluences. These modifications result from reabsorption of x-ray emission by valence-excited molecules generated by the Auger cascade. Our observations have major implications for future x-ray emission studies at intense x-ray sources. We highlight the importance of the x-ray pulse length with respect to the core-hole lifetime.}, language = {en} } @article{KunnusRajkovicSchrecketal.2012, author = {Kunnus, Kristjan and Rajkovic, Ivan and Schreck, Simon and Quevedo, Wilson and Eckert, Sebastian and Beye, Martin and Suljoti, Edlira and Weniger, Christian and Kalus, Christian and Gruebel, Sebastian and Scholz, Mirko and Nordlund, Dennis and Zhang, Wenkai and Hartsock, Robert W. and Gaffney, Kelly J. and Schlotter, William F. and Turner, Joshua J. and Kennedy, Brian and Hennies, Franz and Techert, Simone and Wernet, Philippe and F{\"o}hlisch, Alexander}, title = {A setup for resonant inelastic soft x-ray scattering on liquids at free electron laser light sources}, series = {Review of scientific instruments : a monthly journal devoted to scientific instruments, apparatus, and techniques}, volume = {83}, journal = {Review of scientific instruments : a monthly journal devoted to scientific instruments, apparatus, and techniques}, number = {12}, publisher = {American Institute of Physics}, address = {Melville}, issn = {0034-6748}, doi = {10.1063/1.4772685}, pages = {8}, year = {2012}, abstract = {We present a flexible and compact experimental setup that combines an in vacuum liquid jet with an x-ray emission spectrometer to enable static and femtosecond time-resolved resonant inelastic soft x-ray scattering (RIXS) measurements from liquids at free electron laser (FEL) light sources. We demonstrate the feasibility of this type of experiments with the measurements performed at the Linac Coherent Light Source FEL facility. At the FEL we observed changes in the RIXS spectra at high peak fluences which currently sets a limit to maximum attainable count rate at FELs. The setup presented here opens up new possibilities to study the structure and dynamics in liquids.}, language = {en} }