[{"publication_identifier":{"issn":["1944-8244"],"eissn":["1944-8252"]},"date_published":"2021-10-19T00:00:00Z","external_id":{"pmid":["34665616"],"isi":["000715852100070"]},"oa":1,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"},{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"pmid":1,"_id":"10327","oa_version":"Submitted Version","date_created":"2021-11-21T23:01:30Z","publication":"ACS Applied Materials and Interfaces","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["CuxS","PbS","energy conversion","nanocomposite","nanoparticle","solution synthesis","thermoelectric"],"date_updated":"2026-07-06T12:15:05Z","status":"public","title":"PbS–Pb–CuxS composites for thermoelectric application","author":[{"full_name":"Li, Mengyao","first_name":"Mengyao","last_name":"Li"},{"first_name":"Yu","last_name":"Liu","orcid":"0000-0001-7313-6740","full_name":"Liu, Yu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zhang, Yu","first_name":"Yu","last_name":"Zhang"},{"full_name":"Han, Xu","last_name":"Han","first_name":"Xu"},{"full_name":"Xiao, Ke","last_name":"Xiao","first_name":"Ke"},{"first_name":"Mehran","last_name":"Nabahat","full_name":"Nabahat, Mehran"},{"full_name":"Arbiol, Jordi","first_name":"Jordi","last_name":"Arbiol"},{"full_name":"Llorca, Jordi","last_name":"Llorca","first_name":"Jordi"},{"first_name":"Maria","last_name":"Ibáñez","orcid":"0000-0001-5013-2843","full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"}],"main_file_link":[{"open_access":"1","url":"https://upcommons.upc.edu/bitstream/2117/363528/1/Pb%20mengyao.pdf"}],"day":"19","department":[{"_id":"MaIb"}],"ec_funded":1,"das_tickbox":"1","article_type":"original","acknowledgement":"This work was supported by the European Regional Development Funds. M.L., Y.Z., X.H., and K.X. thank the China Scholarship Council for scholarship support. M. I. has been financially supported by IST Austria and the Werner Siemens Foundation. Y.L. acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. J.L. is a Serra Húnter fellow and is grateful to ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and GC 2017 SGR 128. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO project NANOGEN (PID2020-116093RB-C43). ICN2 was supported by the Severo Ochoa program from Spanish MINECO (grant no. SEV-2017-0706) and was funded by the CERCA Programme/Generalitat de Catalunya. X.H. thanks China Scholarship Council for scholarship support (201804910551). Part of the present work was performed in the framework of Universitat Autònoma de Barcelona Materials Science Ph.D. program.","doi":"10.1021/acsami.1c15609","scopus_import":"1","abstract":[{"text":"Composite materials offer numerous advantages in a wide range of applications, including thermoelectrics. Here, semiconductor–metal composites are produced by just blending nanoparticles of a sulfide semiconductor obtained in aqueous solution and at room temperature with a metallic Cu powder. The obtained blend is annealed in a reducing atmosphere and afterward consolidated into dense polycrystalline pellets through spark plasma sintering (SPS). We observe that, during the annealing process, the presence of metallic copper activates a partial reduction of the PbS, resulting in the formation of PbS–Pb–CuxS composites. The presence of metallic lead during the SPS process habilitates the liquid-phase sintering of the composite. Besides, by comparing the transport properties of PbS, the PbS–Pb–CuxS composites, and PbS–CuxS composites obtained by blending PbS and CuxS nanoparticles, we demonstrate that the presence of metallic lead decisively contributes to a strong increase of the charge carrier concentration through spillover of charge carriers enabled by the low work function of lead. The increase in charge carrier concentration translates into much higher electrical conductivities and moderately lower Seebeck coefficients. These properties translate into power factors up to 2.1 mW m–1 K–2 at ambient temperature, well above those of PbS and PbS + CuxS. Additionally, the presence of multiple phases in the final composite results in a notable decrease in the lattice thermal conductivity. Overall, the introduction of metallic copper in the initial blend results in a significant improvement of the thermoelectric performance of PbS, reaching a dimensionless thermoelectric figure of merit ZT = 1.1 at 750 K, which represents about a 400% increase over bare PbS. Besides, an average ZTave = 0.72 in the temperature range 320–773 K is demonstrated.","lang":"eng"}],"citation":{"mla":"Li, Mengyao, et al. “PbS–Pb–CuxS Composites for Thermoelectric Application.” <i>ACS Applied Materials and Interfaces</i>, vol. 13, no. 43, American Chemical Society, 2021, pp. 51373–51382, doi:<a href=\"https://doi.org/10.1021/acsami.1c15609\">10.1021/acsami.1c15609</a>.","apa":"Li, M., Liu, Y., Zhang, Y., Han, X., Xiao, K., Nabahat, M., … Cabot, A. (2021). PbS–Pb–CuxS composites for thermoelectric application. <i>ACS Applied Materials and Interfaces</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsami.1c15609\">https://doi.org/10.1021/acsami.1c15609</a>","chicago":"Li, Mengyao, Yu Liu, Yu Zhang, Xu Han, Ke Xiao, Mehran Nabahat, Jordi Arbiol, Jordi Llorca, Maria Ibáñez, and Andreu Cabot. “PbS–Pb–CuxS Composites for Thermoelectric Application.” <i>ACS Applied Materials and Interfaces</i>. American Chemical Society, 2021. <a href=\"https://doi.org/10.1021/acsami.1c15609\">https://doi.org/10.1021/acsami.1c15609</a>.","ieee":"M. Li <i>et al.</i>, “PbS–Pb–CuxS composites for thermoelectric application,” <i>ACS Applied Materials and Interfaces</i>, vol. 13, no. 43. American Chemical Society, pp. 51373–51382, 2021.","ista":"Li M, Liu Y, Zhang Y, Han X, Xiao K, Nabahat M, Arbiol J, Llorca J, Ibáñez M, Cabot A. 2021. PbS–Pb–CuxS composites for thermoelectric application. ACS Applied Materials and Interfaces. 13(43), 51373–51382.","short":"M. Li, Y. Liu, Y. Zhang, X. Han, K. Xiao, M. Nabahat, J. Arbiol, J. Llorca, M. Ibáñez, A. Cabot, ACS Applied Materials and Interfaces 13 (2021) 51373–51382.","ama":"Li M, Liu Y, Zhang Y, et al. PbS–Pb–CuxS composites for thermoelectric application. <i>ACS Applied Materials and Interfaces</i>. 2021;13(43):51373–51382. doi:<a href=\"https://doi.org/10.1021/acsami.1c15609\">10.1021/acsami.1c15609</a>"},"publisher":"American Chemical Society","type":"journal_article","corr_author":"1","publication_status":"published","intvolume":"        13","year":"2021","quality_controlled":"1","volume":13,"language":[{"iso":"eng"}],"isi":1,"article_processing_charge":"No","issue":"43","page":"51373–51382","month":"10"},{"oa":1,"external_id":{"pmid":["33645986"],"isi":["000634569100106"]},"date_published":"2021-03-01T00:00:00Z","publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"publication":"ACS Nano","date_created":"2021-03-10T20:12:45Z","oa_version":"Submitted Version","_id":"9235","pmid":1,"status":"public","keyword":["General Engineering","General Physics and Astronomy","General Materials Science"],"date_updated":"2026-07-06T12:15:39Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"This work was supported by the European Regional Development Funds. M.Y.L., X.H., T.Z., and K.X. thank the China Scholarship Council for scholarship support. M.I. acknowledges financial support from IST Austria. J.L. acknowledges support from the National Natural Science Foundation of China (No. 22008091), the funding for scientific research startup of Jiangsu University (No. 19JDG044), and Jiangsu Provincial Program for High-Level Innovative and Entrepreneurial Talents Introduction. J.L. is a Serra Húnter fellow and is grateful to the ICREA Academia program and projects MICINN/FEDER RTI2018-093996-B-C31 and GC 2017 SGR 128. ICN2 acknowledges funding from Generalitat de Catalunya 2017 SGR 327 and the Spanish MINECO ENE2017-85087-C3. ICN2 is supported by the Severo Ochoa program from Spanish MINECO (Grant No. SEV-2017-0706) and is funded by the CERCA Programme/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science PhD program. T.Z. has received funding from the CSC-UAB PhD scholarship program.","article_type":"original","das_tickbox":"1","department":[{"_id":"MaIb"}],"day":"01","title":"Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide","author":[{"last_name":"Li","first_name":"Mengyao","full_name":"Li, Mengyao"},{"id":"2A70014E-F248-11E8-B48F-1D18A9856A87","first_name":"Yu","last_name":"Liu","full_name":"Liu, Yu","orcid":"0000-0001-7313-6740"},{"full_name":"Zhang, Yu","last_name":"Zhang","first_name":"Yu"},{"full_name":"Han, Xu","last_name":"Han","first_name":"Xu"},{"last_name":"Zhang","first_name":"Ting","full_name":"Zhang, Ting"},{"last_name":"Zuo","first_name":"Yong","full_name":"Zuo, Yong"},{"full_name":"Xie, Chenyang","last_name":"Xie","first_name":"Chenyang"},{"first_name":"Ke","last_name":"Xiao","full_name":"Xiao, Ke"},{"last_name":"Arbiol","first_name":"Jordi","full_name":"Arbiol, Jordi"},{"full_name":"Llorca, Jordi","first_name":"Jordi","last_name":"Llorca"},{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","first_name":"Maria","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843"},{"last_name":"Liu","first_name":"Junfeng","full_name":"Liu, Junfeng"},{"full_name":"Cabot, Andreu","first_name":"Andreu","last_name":"Cabot"}],"main_file_link":[{"open_access":"1","url":"https://upcommons.upc.edu/bitstream/handle/2117/363528/Pb%20mengyao.pdf?sequence=1&isAllowed=y"}],"citation":{"mla":"Li, Mengyao, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” <i>ACS Nano</i>, vol. 15, no. 3, American Chemical Society, 2021, pp. 4967–4978, doi:<a href=\"https://doi.org/10.1021/acsnano.0c09866\">10.1021/acsnano.0c09866</a>.","apa":"Li, M., Liu, Y., Zhang, Y., Han, X., Zhang, T., Zuo, Y., … Cabot, A. (2021). Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.0c09866\">https://doi.org/10.1021/acsnano.0c09866</a>","chicago":"Li, Mengyao, Yu Liu, Yu Zhang, Xu Han, Ting Zhang, Yong Zuo, Chenyang Xie, et al. “Effect of the Annealing Atmosphere on Crystal Phase and Thermoelectric Properties of Copper Sulfide.” <i>ACS Nano</i>. American Chemical Society, 2021. <a href=\"https://doi.org/10.1021/acsnano.0c09866\">https://doi.org/10.1021/acsnano.0c09866</a>.","ieee":"M. Li <i>et al.</i>, “Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide,” <i>ACS Nano</i>, vol. 15, no. 3. American Chemical Society, pp. 4967–4978, 2021.","ista":"Li M, Liu Y, Zhang Y, Han X, Zhang T, Zuo Y, Xie C, Xiao K, Arbiol J, Llorca J, Ibáñez M, Liu J, Cabot A. 2021. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. ACS Nano. 15(3), 4967–4978.","ama":"Li M, Liu Y, Zhang Y, et al. Effect of the annealing atmosphere on crystal phase and thermoelectric properties of copper sulfide. <i>ACS Nano</i>. 2021;15(3):4967–4978. doi:<a href=\"https://doi.org/10.1021/acsnano.0c09866\">10.1021/acsnano.0c09866</a>","short":"M. Li, Y. Liu, Y. Zhang, X. Han, T. Zhang, Y. Zuo, C. Xie, K. Xiao, J. Arbiol, J. Llorca, M. Ibáñez, J. Liu, A. Cabot, ACS Nano 15 (2021) 4967–4978."},"abstract":[{"text":"Cu2–xS has become one of the most promising thermoelectric materials for application in the middle-high temperature range. Its advantages include the abundance, low cost, and safety of its elements and a high performance at relatively elevated temperatures. However, stability issues limit its operation current and temperature, thus calling for the optimization of the material performance in the middle temperature range. Here, we present a synthetic protocol for large scale production of covellite CuS nanoparticles at ambient temperature and atmosphere, and using water as a solvent. The crystal phase and stoichiometry of the particles are afterward tuned through an annealing process at a moderate temperature under inert or reducing atmosphere. While annealing under argon results in Cu1.8S nanopowder with a rhombohedral crystal phase, annealing in an atmosphere containing hydrogen leads to tetragonal Cu1.96S. High temperature X-ray diffraction analysis shows the material annealed in argon to transform to the cubic phase at ca. 400 K, while the material annealed in the presence of hydrogen undergoes two phase transitions, first to hexagonal and then to the cubic structure. The annealing atmosphere, temperature, and time allow adjustment of the density of copper vacancies and thus tuning of the charge carrier concentration and material transport properties. In this direction, the material annealed under Ar is characterized by higher electrical conductivities but lower Seebeck coefficients than the material annealed in the presence of hydrogen. By optimizing the charge carrier concentration through the annealing time, Cu2–xS with record figures of merit in the middle temperature range, up to 1.41 at 710 K, is obtained. We finally demonstrate that this strategy, based on a low-cost and scalable solution synthesis process, is also suitable for the production of high performance Cu2–xS layers using high throughput and cost-effective printing technologies.","lang":"eng"}],"scopus_import":"1","doi":"10.1021/acsnano.0c09866","intvolume":"        15","publication_status":"published","type":"journal_article","corr_author":"1","publisher":"American Chemical Society","language":[{"iso":"eng"}],"volume":15,"quality_controlled":"1","year":"2021","month":"03","issue":"3","page":"4967–4978","article_processing_charge":"No","isi":1},{"scopus_import":"1","doi":"10.1103/physrevlett.127.160602","citation":{"short":"F. Suzuki, M. Lemeshko, W.H. Zurek, R.V. Krems, Physical Review Letters 127 (2021).","ama":"Suzuki F, Lemeshko M, Zurek WH, Krems RV. Anderson localization of composite particles. <i>Physical Review Letters</i>. 2021;127(16). doi:<a href=\"https://doi.org/10.1103/physrevlett.127.160602\">10.1103/physrevlett.127.160602</a>","chicago":"Suzuki, Fumika, Mikhail Lemeshko, Wojciech H. Zurek, and Roman V. Krems. “Anderson Localization of Composite Particles.” <i>Physical Review Letters</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/physrevlett.127.160602\">https://doi.org/10.1103/physrevlett.127.160602</a>.","ieee":"F. Suzuki, M. Lemeshko, W. H. Zurek, and R. V. Krems, “Anderson localization of composite particles,” <i>Physical Review Letters</i>, vol. 127, no. 16. American Physical Society, 2021.","ista":"Suzuki F, Lemeshko M, Zurek WH, Krems RV. 2021. Anderson localization of composite particles. Physical Review Letters. 127(16), 160602.","mla":"Suzuki, Fumika, et al. “Anderson Localization of Composite Particles.” <i>Physical Review Letters</i>, vol. 127, no. 16, 160602, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/physrevlett.127.160602\">10.1103/physrevlett.127.160602</a>.","apa":"Suzuki, F., Lemeshko, M., Zurek, W. H., &#38; Krems, R. V. (2021). Anderson localization of composite particles. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevlett.127.160602\">https://doi.org/10.1103/physrevlett.127.160602</a>"},"abstract":[{"text":"We investigate the effect of coupling between translational and internal degrees of freedom of composite quantum particles on their localization in a random potential. We show that entanglement between the two degrees of freedom weakens localization due to the upper bound imposed on the inverse participation ratio by purity of a quantum state. We perform numerical calculations for a two-particle system bound by a harmonic force in a 1D disordered lattice and a rigid rotor in a 2D disordered lattice. We illustrate that the coupling has a dramatic effect on localization properties, even with a small number of internal states participating in quantum dynamics.","lang":"eng"}],"publication_status":"published","publisher":"American Physical Society","type":"journal_article","corr_author":"1","intvolume":"       127","quality_controlled":"1","year":"2021","language":[{"iso":"eng"}],"volume":127,"article_processing_charge":"No","isi":1,"month":"10","issue":"16","date_published":"2021-10-12T00:00:00Z","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"arxiv":1,"external_id":{"isi":["000707495700001"],"arxiv":["2011.06279"]},"oa":1,"article_number":"160602","oa_version":"Preprint","date_created":"2021-10-13T09:21:33Z","project":[{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"call_identifier":"H2020","name":"Angulon: physics and applications of a new quasiparticle","grant_number":"801770","_id":"2688CF98-B435-11E9-9278-68D0E5697425"}],"_id":"10134","publication":"Physical Review Letters","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2026-07-06T12:22:26Z","keyword":["General Physics and Astronomy"],"title":"Anderson localization of composite particles","main_file_link":[{"url":"https://arxiv.org/abs/2011.06279","open_access":"1"}],"author":[{"id":"650C99FC-1079-11EA-A3C0-73AE3DDC885E","last_name":"Suzuki","first_name":"Fumika","full_name":"Suzuki, Fumika","orcid":"0000-0003-4982-5970"},{"first_name":"Mikhail","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Wojciech H.","last_name":"Zurek","full_name":"Zurek, Wojciech H."},{"full_name":"Krems, Roman V.","last_name":"Krems","first_name":"Roman V."}],"article_type":"original","acknowledgement":"We acknowledge helpful discussions with W. G. Unruh and A. Rodriguez. F. S. is supported by European Union’s\r\nHorizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant No. 754411. M. L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). W. H. Z. is\r\nsupported by Department of Energy under the Los\r\nAlamos National Laboratory LDRD Program as well as by the U.S. Department of Energy, Office of Science, Basic\r\nEnergy Sciences, Materials Sciences and Engineering Division, Condensed Matter Theory Program. R. V. K. is supported by NSERC of Canada.\r\n","department":[{"_id":"MiLe"}],"day":"12","ec_funded":1,"das_tickbox":"1"},{"volume":17,"language":[{"iso":"eng"}],"ddc":["570"],"year":"2021","quality_controlled":"1","file_date_updated":"2021-02-04T12:30:48Z","month":"01","isi":1,"article_processing_charge":"Yes","abstract":[{"lang":"eng","text":"Phenomenological relations such as Ohm’s or Fourier’s law have a venerable history in physics but are still scarce in biology. This situation restrains predictive theory. Here, we build on bacterial “growth laws,” which capture physiological feedback between translation and cell growth, to construct a minimal biophysical model for the combined action of ribosome-targeting antibiotics. Our model predicts drug interactions like antagonism or synergy solely from responses to individual drugs. We provide analytical results for limiting cases, which agree well with numerical results. We systematically refine the model by including direct physical interactions of different antibiotics on the ribosome. In a limiting case, our model provides a mechanistic underpinning for recent predictions of higher-order interactions that were derived using entropy maximization. We further refine the model to include the effects of antibiotics that mimic starvation and the presence of resistance genes. We describe the impact of a starvation-mimicking antibiotic on drug interactions analytically and verify it experimentally. Our extended model suggests a change in the type of drug interaction that depends on the strength of resistance, which challenges established rescaling paradigms. We experimentally show that the presence of unregulated resistance genes can lead to altered drug interaction, which agrees with the prediction of the model. While minimal, the model is readily adaptable and opens the door to predicting interactions of second and higher-order in a broad range of biological systems."}],"citation":{"short":"B. Kavcic, G. Tkačik, M.T. Bollenbach, PLOS Computational Biology 17 (2021).","ama":"Kavcic B, Tkačik G, Bollenbach MT. Minimal biophysical model of combined antibiotic action. <i>PLOS Computational Biology</i>. 2021;17. doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1008529\">10.1371/journal.pcbi.1008529</a>","ieee":"B. Kavcic, G. Tkačik, and M. T. Bollenbach, “Minimal biophysical model of combined antibiotic action,” <i>PLOS Computational Biology</i>, vol. 17. Public Library of Science, 2021.","ista":"Kavcic B, Tkačik G, Bollenbach MT. 2021. Minimal biophysical model of combined antibiotic action. PLOS Computational Biology. 17, e1008529.","chicago":"Kavcic, Bor, Gašper Tkačik, and Mark Tobias Bollenbach. “Minimal Biophysical Model of Combined Antibiotic Action.” <i>PLOS Computational Biology</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pcbi.1008529\">https://doi.org/10.1371/journal.pcbi.1008529</a>.","apa":"Kavcic, B., Tkačik, G., &#38; Bollenbach, M. T. (2021). Minimal biophysical model of combined antibiotic action. <i>PLOS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1008529\">https://doi.org/10.1371/journal.pcbi.1008529</a>","mla":"Kavcic, Bor, et al. “Minimal Biophysical Model of Combined Antibiotic Action.” <i>PLOS Computational Biology</i>, vol. 17, e1008529, Public Library of Science, 2021, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1008529\">10.1371/journal.pcbi.1008529</a>."},"related_material":{"record":[{"relation":"research_data","id":"8930","status":"public"},{"status":"public","relation":"earlier_version","id":"7673"}]},"doi":"10.1371/journal.pcbi.1008529","scopus_import":"1","intvolume":"        17","has_accepted_license":"1","publisher":"Public Library of Science","type":"journal_article","publication_status":"published","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"keyword":["Modelling and Simulation","Genetics","Molecular Biology","Antibiotics","Drug interactions"],"date_updated":"2026-07-06T12:44:35Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"07","department":[{"_id":"GaTk"}],"article_type":"original","acknowledgement":"This work was supported in part by Tum stipend of Knafelj foundation (to B.K.), Austrian Science Fund (FWF) standalone grants P 27201-B22 (to T.B.) and P 28844(to G.T.), HFSP program Grant RGP0042/2013 (to T.B.), German Research Foundation (DFG) individual grant BO 3502/2-1 (to T.B.), and German Research Foundation (DFG) Collaborative Research Centre (SFB) 1310 (to T.B.). ","title":"Minimal biophysical model of combined antibiotic action","author":[{"full_name":"Kavcic, Bor","orcid":"0000-0001-6041-254X","first_name":"Bor","last_name":"Kavcic","id":"350F91D2-F248-11E8-B48F-1D18A9856A87"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper","orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper"},{"first_name":"Tobias","last_name":"Bollenbach","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87"}],"external_id":{"isi":["000608045000010"],"pmid":["33411759"]},"oa":1,"publication_identifier":{"issn":["1553-7358"]},"date_published":"2021-01-07T00:00:00Z","file":[{"relation":"main_file","date_created":"2021-02-04T12:30:48Z","checksum":"e29f2b42651bef8e034781de8781ffac","file_size":3690053,"creator":"dernst","file_name":"2021_PlosComBio_Kavcic.pdf","file_id":"9092","date_updated":"2021-02-04T12:30:48Z","success":1,"content_type":"application/pdf","access_level":"open_access"}],"publication":"PLOS Computational Biology","pmid":1,"project":[{"name":"Revealing the mechanisms underlying drug interactions","call_identifier":"FWF","grant_number":"P27201-B22","_id":"25E9AF9E-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Biophysics of information processing in gene regulation","grant_number":"P28844-B27","_id":"254E9036-B435-11E9-9278-68D0E5697425"}],"_id":"8997","article_number":"e1008529","oa_version":"Published Version","date_created":"2021-01-08T07:16:18Z"},{"doi":"10.1101/2020.12.31.425016","date_published":"2021-01-01T00:00:00Z","abstract":[{"text":"Acquired mutations are sufficiently frequent such that the genome of a single cell offers a record of its history of cell divisions. Among more common somatic genomic alterations are loss of heterozygosity (LOH). Large LOH events are potentially detectable in single cell RNA sequencing (scRNA-seq) datasets as tracts of monoallelic expression for constitutionally heterozygous single nucleotide variants (SNVs) located among contiguous genes. We identified runs of monoallelic expression, consistent with LOH, uniquely distributed throughout the genome in single cell brain cortex transcriptomes of F1 hybrids involving different inbred mouse strains. We then phylogenetically reconstructed single cell lineages and simultaneously identified cell types by corresponding gene expression patterns. Our results are consistent with progenitor cells giving rise to multiple cortical cell types through stereotyped expansion and distinct waves of neurogenesis. Compared to engineered recording systems, LOH events accumulate throughout the genome and across the lifetime of an organism, affording tremendous capacity for encoding lineage information and increasing resolution for later cell divisions. This approach can conceivably be computationally incorporated into scRNA-seq analysis and may be useful for organisms where genetic engineering is prohibitive, such as humans.","lang":"eng"}],"citation":{"apa":"Anderson, D. J., Pauler, F., McKenna, A., Shendure, J., Hippenmeyer, S., &#38; Horwitz, M. S. (n.d.). Simultaneous identification of brain cell type and lineage via single cell RNA sequencing. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2020.12.31.425016\">https://doi.org/10.1101/2020.12.31.425016</a>","mla":"Anderson, Donovan J., et al. “Simultaneous Identification of Brain Cell Type and Lineage via Single Cell RNA Sequencing.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2020.12.31.425016\">10.1101/2020.12.31.425016</a>.","chicago":"Anderson, Donovan J., Florian Pauler, Aaron McKenna, Jay Shendure, Simon Hippenmeyer, and Marshall S. Horwitz. “Simultaneous Identification of Brain Cell Type and Lineage via Single Cell RNA Sequencing.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2020.12.31.425016\">https://doi.org/10.1101/2020.12.31.425016</a>.","ista":"Anderson DJ, Pauler F, McKenna A, Shendure J, Hippenmeyer S, Horwitz MS. Simultaneous identification of brain cell type and lineage via single cell RNA sequencing. bioRxiv, <a href=\"https://doi.org/10.1101/2020.12.31.425016\">10.1101/2020.12.31.425016</a>.","ieee":"D. J. Anderson, F. Pauler, A. McKenna, J. Shendure, S. Hippenmeyer, and M. S. Horwitz, “Simultaneous identification of brain cell type and lineage via single cell RNA sequencing,” <i>bioRxiv</i>. .","short":"D.J. Anderson, F. Pauler, A. McKenna, J. Shendure, S. Hippenmeyer, M.S. Horwitz, BioRxiv (n.d.).","ama":"Anderson DJ, Pauler F, McKenna A, Shendure J, Hippenmeyer S, Horwitz MS. Simultaneous identification of brain cell type and lineage via single cell RNA sequencing. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2020.12.31.425016\">10.1101/2020.12.31.425016</a>"},"oa":1,"project":[{"call_identifier":"H2020","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","grant_number":"725780","_id":"260018B0-B435-11E9-9278-68D0E5697425"}],"_id":"9082","type":"preprint","oa_version":"Preprint","publication_status":"submitted","date_created":"2021-02-04T07:23:23Z","publication":"bioRxiv","year":"2021","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-07-06T12:46:11Z","language":[{"iso":"eng"}],"status":"public","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2020.12.31.425016"}],"title":"Simultaneous identification of brain cell type and lineage via single cell RNA sequencing","author":[{"full_name":"Anderson, Donovan J.","first_name":"Donovan J.","last_name":"Anderson"},{"id":"48EA0138-F248-11E8-B48F-1D18A9856A87","last_name":"Pauler","first_name":"Florian","orcid":"0000-0002-7462-0048","full_name":"Pauler, Florian"},{"full_name":"McKenna, Aaron","last_name":"McKenna","first_name":"Aaron"},{"first_name":"Jay","last_name":"Shendure","full_name":"Shendure, Jay"},{"first_name":"Simon","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Horwitz, Marshall S.","first_name":"Marshall S.","last_name":"Horwitz"}],"article_processing_charge":"No","day":"01","department":[{"_id":"SiHi"}],"das_tickbox":"1","ec_funded":1,"acknowledgement":"We thank Bill Bolosky, Microsoft Research, for earlier work showing proof of concept in TCGA\r\nbulk RNA-seq data. Supported by the Paul G. Allen Frontiers Group (University of Washington);\r\nNIH R00HG010152 (Dartmouth); and NÖ Forschung und Bildung n[f+b] life science call grant\r\n(C13-002) to SH, and the European Research Council (ERC) under the European Union’s\r\nHorizon 2020 research and innovation program 725780 LinPro to SH.","month":"01"},{"month":"11","issue":"4","file_date_updated":"2021-11-15T13:11:27Z","article_processing_charge":"Yes (via OA deal)","isi":1,"language":[{"iso":"eng"}],"volume":213,"quality_controlled":"1","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"ddc":["572"],"year":"2021","has_accepted_license":"1","intvolume":"       213","publication_status":"published","publisher":"Elsevier","type":"journal_article","corr_author":"1","citation":{"short":"G.A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, F.K. Schur, Journal of Structural Biology 213 (2021).","ama":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. <i>Journal of Structural Biology</i>. 2021;213(4). doi:<a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">10.1016/j.jsb.2021.107808</a>","chicago":"Dimchev, Georgi A, Behnam Amiri, Florian Fäßler, Martin Falcke, and Florian KM Schur. “Computational Toolbox for Ultrastructural Quantitative Analysis of Filament Networks in Cryo-ET Data.” <i>Journal of Structural Biology</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">https://doi.org/10.1016/j.jsb.2021.107808</a>.","ista":"Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. 2021. Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. Journal of Structural Biology. 213(4), 107808.","ieee":"G. A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, and F. K. Schur, “Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data,” <i>Journal of Structural Biology</i>, vol. 213, no. 4. Elsevier, 2021.","apa":"Dimchev, G. A., Amiri, B., Fäßler, F., Falcke, M., &#38; Schur, F. K. (2021). Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data. <i>Journal of Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">https://doi.org/10.1016/j.jsb.2021.107808</a>","mla":"Dimchev, Georgi A., et al. “Computational Toolbox for Ultrastructural Quantitative Analysis of Filament Networks in Cryo-ET Data.” <i>Journal of Structural Biology</i>, vol. 213, no. 4, 107808, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.jsb.2021.107808\">10.1016/j.jsb.2021.107808</a>."},"abstract":[{"text":"A precise quantitative description of the ultrastructural characteristics underlying biological mechanisms is often key to their understanding. This is particularly true for dynamic extra- and intracellular filamentous assemblies, playing a role in cell motility, cell integrity, cytokinesis, tissue formation and maintenance. For example, genetic manipulation or modulation of actin regulatory proteins frequently manifests in changes of the morphology, dynamics, and ultrastructural architecture of actin filament-rich cell peripheral structures, such as lamellipodia or filopodia. However, the observed ultrastructural effects often remain subtle and require sufficiently large datasets for appropriate quantitative analysis. The acquisition of such large datasets has been enabled by recent advances in high-throughput cryo-electron tomography (cryo-ET) methods. This also necessitates the development of complementary approaches to maximize the extraction of relevant biological information. We have developed a computational toolbox for the semi-automatic quantification of segmented and vectorized filamentous networks from pre-processed cryo-electron tomograms, facilitating the analysis and cross-comparison of multiple experimental conditions. GUI-based components simplify the processing of data and allow users to obtain a large number of ultrastructural parameters describing filamentous assemblies. We demonstrate the feasibility of this workflow by analyzing cryo-ET data of untreated and chemically perturbed branched actin filament networks and that of parallel actin filament arrays. In principle, the computational toolbox presented here is applicable for data analysis comprising any type of filaments in regular (i.e. parallel) or random arrangement. We show that it can ease the identification of key differences between experimental groups and facilitate the in-depth analysis of ultrastructural data in a time-efficient manner.","lang":"eng"}],"scopus_import":"1","related_material":{"record":[{"status":"public","id":"14502","relation":"software"}]},"doi":"10.1016/j.jsb.2021.107808","article_type":"original","acknowledgement":"This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF), and the Electron Microscopy Facility (EMF). We also thank Victor-Valentin Hodirnau for help with cryo-ET data acquisition. The authors acknowledge support from IST Austria and from the Austrian Science Fund (FWF): M02495 to G.D. and Austrian Science Fund (FWF): P33367 to F.K.M.S.","department":[{"_id":"FlSc"}],"day":"03","das_tickbox":"1","author":[{"id":"38C393BE-F248-11E8-B48F-1D18A9856A87","full_name":"Dimchev, Georgi A","orcid":"0000-0001-8370-6161","first_name":"Georgi A","last_name":"Dimchev"},{"first_name":"Behnam","last_name":"Amiri","full_name":"Amiri, Behnam"},{"first_name":"Florian","last_name":"Fäßler","full_name":"Fäßler, Florian","orcid":"0000-0001-7149-769X","id":"404F5528-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Martin","last_name":"Falcke","full_name":"Falcke, Martin"},{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4790-8078","full_name":"Schur, Florian KM","last_name":"Schur","first_name":"Florian KM"}],"title":"Computational toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET data","status":"public","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2026-07-06T12:57:43Z","keyword":["Structural Biology"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Journal of Structural Biology","file":[{"checksum":"6b209e4d44775d4e02b50f78982c15fa","date_created":"2021-11-15T13:11:27Z","file_size":16818304,"relation":"main_file","file_name":"2021_JournalStructBiol_Dimchev.pdf","creator":"cchlebak","file_id":"10291","access_level":"open_access","date_updated":"2021-11-15T13:11:27Z","content_type":"application/pdf","success":1}],"article_number":"107808","oa_version":"Published Version","date_created":"2021-11-15T12:21:42Z","project":[{"grant_number":"P33367","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","name":"Structure and isoform diversity of the Arp2/3 complex"},{"_id":"2674F658-B435-11E9-9278-68D0E5697425","grant_number":"M02495","name":"Protein structure and function in filopodia across scales","call_identifier":"FWF"}],"_id":"10290","external_id":{"isi":["000720259500002"]},"oa":1,"date_published":"2021-11-03T00:00:00Z","publication_identifier":{"issn":["1047-8477"]}},{"month":"04","isi":1,"article_processing_charge":"No","volume":524,"language":[{"iso":"eng"}],"year":"2021","quality_controlled":"1","intvolume":"       524","type":"journal_article","publisher":"Elsevier","publication_status":"published","abstract":[{"lang":"eng","text":"We report the complete analysis of a deterministic model of deleterious mutations and negative selection against them at two haploid loci without recombination. As long as mutation is a weaker force than selection, mutant alleles remain rare at the only stable equilibrium, and otherwise, a variety of dynamics are possible. If the mutation-free genotype is absent, generally the only stable equilibrium is the one that corresponds to fixation of the mutant allele at the locus where it is less deleterious. This result suggests that fixation of a deleterious allele that follows a click of the Muller’s ratchet is governed by natural selection, instead of random drift."}],"citation":{"ieee":"K. Khudiakova, T. Y. Neretina, and A. S. Kondrashov, “Two linked loci under mutation-selection balance and Muller’s ratchet,” <i>Journal of Theoretical Biology</i>, vol. 524. Elsevier, 2021.","chicago":"Khudiakova, Kseniia, Tatiana Yu. Neretina, and Alexey S. Kondrashov. “Two Linked Loci under Mutation-Selection Balance and Muller’s Ratchet.” <i>Journal of Theoretical Biology</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.jtbi.2021.110729\">https://doi.org/10.1016/j.jtbi.2021.110729</a>.","ista":"Khudiakova K, Neretina TY, Kondrashov AS. 2021. Two linked loci under mutation-selection balance and Muller’s ratchet. Journal of Theoretical Biology. 524, 110729.","short":"K. Khudiakova, T.Y. Neretina, A.S. Kondrashov, Journal of Theoretical Biology 524 (2021).","ama":"Khudiakova K, Neretina TY, Kondrashov AS. Two linked loci under mutation-selection balance and Muller’s ratchet. <i>Journal of Theoretical Biology</i>. 2021;524. doi:<a href=\"https://doi.org/10.1016/j.jtbi.2021.110729\">10.1016/j.jtbi.2021.110729</a>","apa":"Khudiakova, K., Neretina, T. Y., &#38; Kondrashov, A. S. (2021). Two linked loci under mutation-selection balance and Muller’s ratchet. <i>Journal of Theoretical Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jtbi.2021.110729\">https://doi.org/10.1016/j.jtbi.2021.110729</a>","mla":"Khudiakova, Kseniia, et al. “Two Linked Loci under Mutation-Selection Balance and Muller’s Ratchet.” <i>Journal of Theoretical Biology</i>, vol. 524, 110729, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.jtbi.2021.110729\">10.1016/j.jtbi.2021.110729</a>."},"doi":"10.1016/j.jtbi.2021.110729","scopus_import":"1","department":[{"_id":"GradSch"}],"day":"24","das_tickbox":"1","article_type":"original","acknowledgement":"This work was supported by the Russian Science Foundation grant N 16-14-10173.","author":[{"id":"4E6DC800-AE37-11E9-AC72-31CAE5697425","full_name":"Khudiakova, Kseniia","orcid":"0000-0002-6246-1465","last_name":"Khudiakova","first_name":"Kseniia"},{"first_name":"Tatiana Yu.","last_name":"Neretina","full_name":"Neretina, Tatiana Yu."},{"last_name":"Kondrashov","first_name":"Alexey S.","full_name":"Kondrashov, Alexey S."}],"title":"Two linked loci under mutation-selection balance and Muller’s ratchet","main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/477489v1","open_access":"1"}],"keyword":["General Biochemistry","Genetics and Molecular Biology","Modelling and Simulation","Statistics and Probability","General Immunology and Microbiology","Applied Mathematics","General Agricultural and Biological Sciences","General Medicine"],"date_updated":"2026-07-06T12:58:31Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Journal of Theoretical Biology","pmid":1,"_id":"9387","article_number":"110729","oa_version":"Preprint","date_created":"2021-05-12T05:58:42Z","external_id":{"isi":["000659161500002"],"pmid":["33901507"]},"oa":1,"publication_identifier":{"issn":["0022-5193"]},"date_published":"2021-04-24T00:00:00Z"},{"isi":1,"article_processing_charge":"Yes (via OA deal)","issue":"52","file_date_updated":"2022-02-03T13:16:14Z","month":"12","ddc":["620"],"year":"2021","quality_controlled":"1","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"NanoFab"}],"volume":33,"language":[{"iso":"eng"}],"publisher":"Wiley","corr_author":"1","type":"journal_article","publication_status":"published","intvolume":"        33","has_accepted_license":"1","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"12885"},{"relation":"later_version","id":"17062","status":"public"}]},"doi":"10.1002/adma.202106858","scopus_import":"1","abstract":[{"lang":"eng","text":"Solution synthesis of particles emerged as an alternative to prepare thermoelectric materials with less demanding processing conditions than conventional solid-state synthetic methods. However, solution synthesis generally involves the presence of additional molecules or ions belonging to the precursors or added to enable solubility and/or regulate nucleation and growth. These molecules or ions can end up in the particles as surface adsorbates and interfere in the material properties. This work demonstrates that ionic adsorbates, in particular Na⁺ ions, are electrostatically adsorbed in SnSe particles synthesized in water and play a crucial role not only in directing the material nano/microstructure but also in determining the transport properties of the consolidated material. In dense pellets prepared by sintering SnSe particles, Na remains within the crystal lattice as dopant, in dislocations, precipitates, and forming grain boundary complexions. These results highlight the importance of considering all the possible unintentional impurities to establish proper structure-property relationships and control material properties in solution-processed thermoelectric materials."}],"citation":{"apa":"Liu, Y., Calcabrini, M., Yu, Y., Genç, A., Chang, C., Costanzo, T., … Ibáñez, M. (2021). The importance of surface adsorbates in solution‐processed thermoelectric materials: The case of SnSe. <i>Advanced Materials</i>. Wiley. <a href=\"https://doi.org/10.1002/adma.202106858\">https://doi.org/10.1002/adma.202106858</a>","mla":"Liu, Yu, et al. “The Importance of Surface Adsorbates in Solution‐processed Thermoelectric Materials: The Case of SnSe.” <i>Advanced Materials</i>, vol. 33, no. 52, 2106858, Wiley, 2021, doi:<a href=\"https://doi.org/10.1002/adma.202106858\">10.1002/adma.202106858</a>.","short":"Y. Liu, M. Calcabrini, Y. Yu, A. Genç, C. Chang, T. Costanzo, T. Kleinhanns, S. Lee, J. Llorca, O. Cojocaru‐Mirédin, M. Ibáñez, Advanced Materials 33 (2021).","ama":"Liu Y, Calcabrini M, Yu Y, et al. The importance of surface adsorbates in solution‐processed thermoelectric materials: The case of SnSe. <i>Advanced Materials</i>. 2021;33(52). doi:<a href=\"https://doi.org/10.1002/adma.202106858\">10.1002/adma.202106858</a>","chicago":"Liu, Yu, Mariano Calcabrini, Yuan Yu, Aziz Genç, Cheng Chang, Tommaso Costanzo, Tobias Kleinhanns, et al. “The Importance of Surface Adsorbates in Solution‐processed Thermoelectric Materials: The Case of SnSe.” <i>Advanced Materials</i>. Wiley, 2021. <a href=\"https://doi.org/10.1002/adma.202106858\">https://doi.org/10.1002/adma.202106858</a>.","ieee":"Y. Liu <i>et al.</i>, “The importance of surface adsorbates in solution‐processed thermoelectric materials: The case of SnSe,” <i>Advanced Materials</i>, vol. 33, no. 52. Wiley, 2021.","ista":"Liu Y, Calcabrini M, Yu Y, Genç A, Chang C, Costanzo T, Kleinhanns T, Lee S, Llorca J, Cojocaru‐Mirédin O, Ibáñez M. 2021. The importance of surface adsorbates in solution‐processed thermoelectric materials: The case of SnSe. Advanced Materials. 33(52), 2106858."},"title":"The importance of surface adsorbates in solution‐processed thermoelectric materials: The case of SnSe","author":[{"id":"2A70014E-F248-11E8-B48F-1D18A9856A87","full_name":"Liu, Yu","orcid":"0000-0001-7313-6740","last_name":"Liu","first_name":"Yu"},{"full_name":"Calcabrini, Mariano","orcid":"0000-0003-4566-5877","last_name":"Calcabrini","first_name":"Mariano","id":"45D7531A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Yu","first_name":"Yuan","full_name":"Yu, Yuan"},{"last_name":"Genç","first_name":"Aziz","full_name":"Genç, Aziz"},{"id":"9E331C2E-9F27-11E9-AE48-5033E6697425","last_name":"Chang","first_name":"Cheng","orcid":"0000-0002-9515-4277","full_name":"Chang, Cheng"},{"last_name":"Costanzo","first_name":"Tommaso","orcid":"0000-0001-9732-3815","full_name":"Costanzo, Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425"},{"id":"8BD9DE16-AB3C-11E9-9C8C-2A03E6697425","first_name":"Tobias","last_name":"Kleinhanns","full_name":"Kleinhanns, Tobias","orcid":"0000-0003-1537-7436"},{"full_name":"Lee, Seungho","orcid":"0000-0002-6962-8598","last_name":"Lee","first_name":"Seungho","id":"BB243B88-D767-11E9-B658-BC13E6697425"},{"last_name":"Llorca","first_name":"Jordi","full_name":"Llorca, Jordi"},{"first_name":"Oana","last_name":"Cojocaru‐Mirédin","full_name":"Cojocaru‐Mirédin, Oana"},{"orcid":"0000-0001-5013-2843","full_name":"Ibáñez, Maria","last_name":"Ibáñez","first_name":"Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"EM-Fac"},{"_id":"MaIb"}],"day":"29","ec_funded":1,"article_type":"original","acknowledgement":"Y.L. and M.C. contributed equally to this work. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Electron Microscopy Facility (EMF) and the Nanofabrication Facility (NNF). This work was financially supported by IST Austria and the Werner Siemens Foundation. Y.L. acknowledges funding from the European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. M.C. has received funding from the European Union's Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 665385. Y.Y. and O.C.-M. acknowledge the financial support from DFG within the project SFB 917: Nanoswitches. J.L. is a Serra Húnter Fellow and is grateful to ICREA Academia program. C.C. acknowledges funding from the FWF “Lise Meitner Fellowship” grant agreement M 2889-N.","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"keyword":["mechanical engineering","mechanics of materials","general materials science"],"date_updated":"2026-07-06T13:07:38Z","status":"public","pmid":1,"project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"name":"Bottom-up Engineering for Thermoelectric Applications","grant_number":"M02889","_id":"9B8804FC-BA93-11EA-9121-9846C619BF3A"},{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"_id":"10123","article_number":"2106858","oa_version":"Published Version","date_created":"2021-10-11T20:07:24Z","file":[{"creator":"cchlebak","file_name":"2021_AdvancedMaterials_Liu.pdf","relation":"main_file","file_size":5595666,"date_created":"2022-02-03T13:16:14Z","checksum":"990bccc527c64d85cf1c97885110b5f4","success":1,"content_type":"application/pdf","date_updated":"2022-02-03T13:16:14Z","access_level":"open_access","file_id":"10720"}],"publication":"Advanced Materials","publication_identifier":{"issn":["0935-9648"],"eissn":["1521-4095"]},"date_published":"2021-12-29T00:00:00Z","external_id":{"isi":["000709899300001"],"pmid":["34626034"]},"oa":1},{"citation":{"mla":"Xia, Peng, and Carl-Philipp J. Heisenberg. “Quantifying Tissue Tension in the Granulosa Layer after Laser Surgery.” <i>Germline Development in the Zebrafish</i>, edited by Roland Dosch, vol. 2218, Humana Press, 2021, pp. 117–28, doi:<a href=\"https://doi.org/10.1007/978-1-0716-0970-5_10\">10.1007/978-1-0716-0970-5_10</a>.","apa":"Xia, P., &#38; Heisenberg, C.-P. J. (2021). Quantifying tissue tension in the granulosa layer after laser surgery. In R. Dosch (Ed.), <i>Germline Development in the Zebrafish</i> (Vol. 2218, pp. 117–128). Humana Press. <a href=\"https://doi.org/10.1007/978-1-0716-0970-5_10\">https://doi.org/10.1007/978-1-0716-0970-5_10</a>","short":"P. Xia, C.-P.J. Heisenberg, in:, R. Dosch (Ed.), Germline Development in the Zebrafish, Humana Press, 2021, pp. 117–128.","ama":"Xia P, Heisenberg C-PJ. Quantifying tissue tension in the granulosa layer after laser surgery. In: Dosch R, ed. <i>Germline Development in the Zebrafish</i>. Vol 2218. Humana Press; 2021:117-128. doi:<a href=\"https://doi.org/10.1007/978-1-0716-0970-5_10\">10.1007/978-1-0716-0970-5_10</a>","ieee":"P. Xia and C.-P. J. Heisenberg, “Quantifying tissue tension in the granulosa layer after laser surgery,” in <i>Germline Development in the Zebrafish</i>, vol. 2218, R. Dosch, Ed. Humana Press, 2021, pp. 117–128.","chicago":"Xia, Peng, and Carl-Philipp J Heisenberg. “Quantifying Tissue Tension in the Granulosa Layer after Laser Surgery.” In <i>Germline Development in the Zebrafish</i>, edited by Roland Dosch, 2218:117–28. Humana Press, 2021. <a href=\"https://doi.org/10.1007/978-1-0716-0970-5_10\">https://doi.org/10.1007/978-1-0716-0970-5_10</a>.","ista":"Xia P, Heisenberg C-PJ. 2021.Quantifying tissue tension in the granulosa layer after laser surgery. In: Germline Development in the Zebrafish. Methods in Molecular Biology, vol. 2218, 117–128."},"abstract":[{"lang":"eng","text":"Tissue morphogenesis is driven by mechanical forces triggering cell movements and shape changes. Quantitatively measuring tension within tissues is of great importance for understanding the role of mechanical signals acting on the cell and tissue level during morphogenesis. Here we introduce laser ablation as a useful tool to probe tissue tension within the granulosa layer, an epithelial monolayer of somatic cells that surround the zebrafish female gamete during folliculogenesis. We describe in detail how to isolate follicles, mount samples, perform laser surgery, and analyze the data."}],"scopus_import":"1","doi":"10.1007/978-1-0716-0970-5_10","intvolume":"      2218","publication_status":"published","publisher":"Humana Press","type":"book_chapter","corr_author":"1","language":[{"iso":"eng"}],"volume":2218,"quality_controlled":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"year":"2021","month":"02","page":"117-128","editor":[{"full_name":"Dosch, Roland","last_name":"Dosch","first_name":"Roland"}],"article_processing_charge":"No","external_id":{"pmid":["33606227"]},"date_published":"2021-02-20T00:00:00Z","publication_identifier":{"isbn":["978-1-0716-0969-9"],"eisbn":["978-1-0716-0970-5"],"issn":["1064-3745"],"eissn":["1940-6029"]},"publication":"Germline Development in the Zebrafish","oa_version":"None","date_created":"2021-03-14T23:01:34Z","pmid":1,"project":[{"grant_number":"742573","_id":"260F1432-B435-11E9-9278-68D0E5697425","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","call_identifier":"H2020"}],"_id":"9245","status":"public","keyword":["Tissue tension","Morphogenesis","Laser ablation","Zebrafish folliculogenesis","Granulosa cells"],"date_updated":"2026-07-06T13:11:10Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank Prof. Masazumi Tada and Roland Dosch for providing transgenic zebrafish lines, the Heisenberg lab for technical assistance and feedback on the manuscript, and the Bioimaging and Fish facilities of IST Austria for continuous support. This work was funded by an ERC advanced grant (MECSPEC to C.-P.H.).","department":[{"_id":"CaHe"}],"day":"20","das_tickbox":"1","ec_funded":1,"alternative_title":["Methods in Molecular Biology"],"author":[{"full_name":"Xia, Peng","orcid":"0000-0002-5419-7756","last_name":"Xia","first_name":"Peng","id":"4AB6C7D0-F248-11E8-B48F-1D18A9856A87"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J"}],"title":"Quantifying tissue tension in the granulosa layer after laser surgery"},{"language":[{"iso":"eng"}],"status":"public","date_updated":"2026-07-06T13:07:52Z","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2021","conference":{"start_date":"2021-06-28","location":"Virtual","end_date":"2021-07-02","name":"iNCNC: Internet nanoGe Conference on Nanocrystals"},"ddc":["530"],"month":"06","day":"08","department":[{"_id":"MaIb"},{"_id":"LifeSc"}],"article_processing_charge":"No","author":[{"id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","full_name":"Balazs, Daniel","orcid":"0000-0001-7597-043X","last_name":"Balazs","first_name":"Daniel"},{"last_name":"Cimada da Silva","first_name":"Jessica","full_name":"Cimada da Silva, Jessica"},{"full_name":"Dunbar, Tyler","last_name":"Dunbar","first_name":"Tyler"},{"first_name":"Maria","last_name":"Ibáñez","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843","id":"43C61214-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hanrath","first_name":"Tobias","full_name":"Hanrath, Tobias"}],"title":"Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics","main_file_link":[{"open_access":"1","url":"https://doi.org/10.29363/nanoge.incnc.2021.050"}],"oa":1,"citation":{"chicago":"Balazs, Daniel, Jessica Cimada da Silva, Tyler Dunbar, Maria Ibáñez, and Tobias Hanrath. “Controlled Reactive Assembly of Colloidal Nanocrystal Superlattices: Mechanism and Kinetics.” In <i>Proceedings of the Internet NanoGe Conference on Nanocrystals</i>. Fundació de la comunitat valenciana SCITO, 2021. <a href=\"https://doi.org/10.29363/nanoge.incnc.2021.050\">https://doi.org/10.29363/nanoge.incnc.2021.050</a>.","ieee":"D. Balazs, J. Cimada da Silva, T. Dunbar, M. Ibáñez, and T. Hanrath, “Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics,” in <i>Proceedings of the Internet NanoGe Conference on Nanocrystals</i>, Virtual, 2021.","ista":"Balazs D, Cimada da Silva J, Dunbar T, Ibáñez M, Hanrath T. 2021. Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics. Proceedings of the Internet NanoGe Conference on Nanocrystals. iNCNC: Internet nanoGe Conference on Nanocrystals, 050.","short":"D. Balazs, J. Cimada da Silva, T. Dunbar, M. Ibáñez, T. Hanrath, in:, Proceedings of the Internet NanoGe Conference on Nanocrystals, Fundació de la comunitat valenciana SCITO, 2021.","ama":"Balazs D, Cimada da Silva J, Dunbar T, Ibáñez M, Hanrath T. Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics. In: <i>Proceedings of the Internet NanoGe Conference on Nanocrystals</i>. Fundació de la comunitat valenciana SCITO; 2021. doi:<a href=\"https://doi.org/10.29363/nanoge.incnc.2021.050\">10.29363/nanoge.incnc.2021.050</a>","apa":"Balazs, D., Cimada da Silva, J., Dunbar, T., Ibáñez, M., &#38; Hanrath, T. (2021). Controlled reactive assembly of colloidal nanocrystal superlattices: Mechanism and kinetics. In <i>Proceedings of the Internet NanoGe Conference on Nanocrystals</i>. Virtual: Fundació de la comunitat valenciana SCITO. <a href=\"https://doi.org/10.29363/nanoge.incnc.2021.050\">https://doi.org/10.29363/nanoge.incnc.2021.050</a>","mla":"Balazs, Daniel, et al. “Controlled Reactive Assembly of Colloidal Nanocrystal Superlattices: Mechanism and Kinetics.” <i>Proceedings of the Internet NanoGe Conference on Nanocrystals</i>, 050, Fundació de la comunitat valenciana SCITO, 2021, doi:<a href=\"https://doi.org/10.29363/nanoge.incnc.2021.050\">10.29363/nanoge.incnc.2021.050</a>."},"date_published":"2021-06-08T00:00:00Z","doi":"10.29363/nanoge.incnc.2021.050","publication":"Proceedings of the Internet NanoGe Conference on Nanocrystals","date_created":"2024-04-03T08:28:26Z","article_number":"050","publication_status":"published","oa_version":"Published Version","_id":"15280","type":"conference_abstract","publisher":"Fundació de la comunitat valenciana SCITO","corr_author":"1"},{"doi":"10.1007/978-3-030-90453-1_19","related_material":{"record":[{"id":"10048","relation":"earlier_version","status":"public"}]},"scopus_import":"1","abstract":[{"text":"The security of cryptographic primitives and protocols against adversaries that are allowed to make adaptive choices (e.g., which parties to corrupt or which queries to make) is notoriously difficult to establish. A broad theoretical framework was introduced by Jafargholi et al. [Crypto’17] for this purpose. In this paper we initiate the study of lower bounds on loss in adaptive security for certain cryptographic protocols considered in the framework. We prove lower bounds that almost match the upper bounds (proven using the framework) for proxy re-encryption, prefix-constrained PRFs and generalized selective decryption, a security game that captures the security of certain group messaging and broadcast encryption schemes. Those primitives have in common that their security game involves an underlying graph that can be adaptively built by the adversary. Some of our lower bounds only apply to a restricted class of black-box reductions which we term “oblivious” (the existing upper bounds are of this restricted type), some apply to the broader but still restricted class of non-rewinding reductions, while our lower bound for proxy re-encryption applies to all black-box reductions. The fact that some of our lower bounds seem to crucially rely on obliviousness or at least a non-rewinding reduction hints to the exciting possibility that the existing upper bounds can be improved by using more sophisticated reductions. Our main conceptual contribution is a two-player multi-stage game called the Builder-Pebbler Game. We can translate bounds on the winning probabilities for various instantiations of this game into cryptographic lower bounds for the above-mentioned primitives using oracle separation techniques.","lang":"eng"}],"citation":{"mla":"Kamath Hosdurg, Chethan, et al. “The Cost of Adaptivity in Security Games on Graphs.” <i>19th International Conference</i>, vol. 13043, Springer Nature, 2021, pp. 550–81, doi:<a href=\"https://doi.org/10.1007/978-3-030-90453-1_19\">10.1007/978-3-030-90453-1_19</a>.","apa":"Kamath Hosdurg, C., Klein, K., Pietrzak, K. Z., &#38; Walter, M. (2021). The cost of adaptivity in security games on graphs. In <i>19th International Conference</i> (Vol. 13043, pp. 550–581). Raleigh, NC, United States: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-90453-1_19\">https://doi.org/10.1007/978-3-030-90453-1_19</a>","ama":"Kamath Hosdurg C, Klein K, Pietrzak KZ, Walter M. The cost of adaptivity in security games on graphs. In: <i>19th International Conference</i>. Vol 13043. Springer Nature; 2021:550-581. doi:<a href=\"https://doi.org/10.1007/978-3-030-90453-1_19\">10.1007/978-3-030-90453-1_19</a>","short":"C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, M. Walter, in:, 19th International Conference, Springer Nature, 2021, pp. 550–581.","ieee":"C. Kamath Hosdurg, K. Klein, K. Z. Pietrzak, and M. Walter, “The cost of adaptivity in security games on graphs,” in <i>19th International Conference</i>, Raleigh, NC, United States, 2021, vol. 13043, pp. 550–581.","chicago":"Kamath Hosdurg, Chethan, Karen Klein, Krzysztof Z Pietrzak, and Michael Walter. “The Cost of Adaptivity in Security Games on Graphs.” In <i>19th International Conference</i>, 13043:550–81. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-90453-1_19\">https://doi.org/10.1007/978-3-030-90453-1_19</a>.","ista":"Kamath Hosdurg C, Klein K, Pietrzak KZ, Walter M. 2021. The cost of adaptivity in security games on graphs. 19th International Conference. TCC: Theory of Cryptography, LNCS, vol. 13043, 550–581."},"publisher":"Springer Nature","type":"conference","publication_status":"published","intvolume":"     13043","year":"2021","conference":{"name":"TCC: Theory of Cryptography","end_date":"2021-11-11","location":"Raleigh, NC, United States","start_date":"2021-11-08"},"quality_controlled":"1","volume":13043,"language":[{"iso":"eng"}],"isi":1,"article_processing_charge":"No","page":"550-581","month":"11","publication_identifier":{"isbn":["9-783-0309-0452-4"],"issn":["0302-9743"],"eissn":["1611-3349"]},"date_published":"2021-11-04T00:00:00Z","oa":1,"external_id":{"isi":["000728364000019"]},"_id":"10410","project":[{"grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","name":"Teaching Old Crypto New Tricks","call_identifier":"H2020"}],"date_created":"2021-12-05T23:01:43Z","oa_version":"Preprint","publication":"19th International Conference","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2026-07-06T13:16:17Z","status":"public","main_file_link":[{"open_access":"1","url":"https://ia.cr/2021/059"}],"author":[{"id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87","orcid":"0009-0006-6812-7317","full_name":"Kamath Hosdurg, Chethan","last_name":"Kamath Hosdurg","first_name":"Chethan"},{"first_name":"Karen","last_name":"Klein","full_name":"Klein, Karen","id":"3E83A2F8-F248-11E8-B48F-1D18A9856A87"},{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","last_name":"Pietrzak","first_name":"Krzysztof Z"},{"id":"488F98B0-F248-11E8-B48F-1D18A9856A87","full_name":"Walter, Michael","orcid":"0000-0003-3186-2482","first_name":"Michael","last_name":"Walter"}],"title":"The cost of adaptivity in security games on graphs","alternative_title":["LNCS"],"ec_funded":1,"day":"04","department":[{"_id":"KrPi"}],"acknowledgement":"C. Kamath—Supported by Azrieli International Postdoctoral Fellowship. Most of the work was done while the author was at Northeastern University and Charles University, funded by the IARPA grant IARPA/2019-19-020700009 and project PRIMUS/17/SCI/9, respectively. K. Klein—Supported in part by ERC CoG grant 724307. Most of the work was done while the author was at IST Austria funded by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (682815 - TOCNeT). K. Pietrzak—Funded by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (682815 - TOCNeT)."},{"oa":1,"external_id":{"isi":["000728364000017"]},"publication_identifier":{"isbn":["9-783-0309-0452-4"],"eissn":["1611-3349"],"issn":["0302-9743"]},"date_published":"2021-11-04T00:00:00Z","publication":"19th International Conference","_id":"10409","project":[{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425"}],"date_created":"2021-12-05T23:01:43Z","oa_version":"Preprint","date_updated":"2026-07-06T13:15:57Z","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ec_funded":1,"day":"04","department":[{"_id":"KrPi"}],"acknowledgement":"We are grateful to Daniel Wichs for helpful discussions on the landscape of adaptive security of Yao’s garbling. We would also like to thank Crypto 2021 and TCC 2021 reviewers for their detailed review and suggestions, which helped improve presentation considerably.","title":"On treewidth, separators and Yao’s garbling","main_file_link":[{"url":"https://eprint.iacr.org/2021/926","open_access":"1"}],"author":[{"id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87","orcid":"0009-0006-6812-7317","full_name":"Kamath Hosdurg, Chethan","last_name":"Kamath Hosdurg","first_name":"Chethan"},{"id":"3E83A2F8-F248-11E8-B48F-1D18A9856A87","last_name":"Klein","first_name":"Karen","full_name":"Klein, Karen"},{"last_name":"Pietrzak","first_name":"Krzysztof Z","full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["LNCS"],"abstract":[{"lang":"eng","text":"We show that Yao’s garbling scheme is adaptively indistinguishable for the class of Boolean circuits of size   S  and treewidth   w  with only a   SO(w)  loss in security. For instance, circuits with constant treewidth are as a result adaptively indistinguishable with only a polynomial loss. This (partially) complements a negative result of Applebaum et al. (Crypto 2013), which showed (assuming one-way functions) that Yao’s garbling scheme cannot be adaptively simulatable. As main technical contributions, we introduce a new pebble game that abstracts out our security reduction and then present a pebbling strategy for this game where the number of pebbles used is roughly   O(δwlog(S)) ,   δ  being the fan-out of the circuit. The design of the strategy relies on separators, a graph-theoretic notion with connections to circuit complexity.  with only a   SO(w)  loss in security. For instance, circuits with constant treewidth are as a result adaptively indistinguishable with only a polynomial loss. This (partially) complements a negative result of Applebaum et al. (Crypto 2013), which showed (assuming one-way functions) that Yao’s garbling scheme cannot be adaptively simulatable. As main technical contributions, we introduce a new pebble game that abstracts out our security reduction and then present a pebbling strategy for this game where the number of pebbles used is roughly   O(δwlog(S)) ,   δ  being the fan-out of the circuit. The design of the strategy relies on separators, a graph-theoretic notion with connections to circuit complexity."}],"citation":{"short":"C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, in:, 19th International Conference, Springer Nature, 2021, pp. 486–517.","ama":"Kamath Hosdurg C, Klein K, Pietrzak KZ. On treewidth, separators and Yao’s garbling. In: <i>19th International Conference</i>. Vol 13043. Springer Nature; 2021:486-517. doi:<a href=\"https://doi.org/10.1007/978-3-030-90453-1_17\">10.1007/978-3-030-90453-1_17</a>","ista":"Kamath Hosdurg C, Klein K, Pietrzak KZ. 2021. On treewidth, separators and Yao’s garbling. 19th International Conference. TCC: Theory of Cryptography, LNCS, vol. 13043, 486–517.","ieee":"C. Kamath Hosdurg, K. Klein, and K. Z. Pietrzak, “On treewidth, separators and Yao’s garbling,” in <i>19th International Conference</i>, Raleigh, NC, United States, 2021, vol. 13043, pp. 486–517.","chicago":"Kamath Hosdurg, Chethan, Karen Klein, and Krzysztof Z Pietrzak. “On Treewidth, Separators and Yao’s Garbling.” In <i>19th International Conference</i>, 13043:486–517. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-90453-1_17\">https://doi.org/10.1007/978-3-030-90453-1_17</a>.","mla":"Kamath Hosdurg, Chethan, et al. “On Treewidth, Separators and Yao’s Garbling.” <i>19th International Conference</i>, vol. 13043, Springer Nature, 2021, pp. 486–517, doi:<a href=\"https://doi.org/10.1007/978-3-030-90453-1_17\">10.1007/978-3-030-90453-1_17</a>.","apa":"Kamath Hosdurg, C., Klein, K., &#38; Pietrzak, K. Z. (2021). On treewidth, separators and Yao’s garbling. In <i>19th International Conference</i> (Vol. 13043, pp. 486–517). Raleigh, NC, United States: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-90453-1_17\">https://doi.org/10.1007/978-3-030-90453-1_17</a>"},"doi":"10.1007/978-3-030-90453-1_17","related_material":{"record":[{"relation":"earlier_version","id":"10044","status":"public"}]},"scopus_import":"1","publisher":"Springer Nature","type":"conference","publication_status":"published","volume":"13043 ","language":[{"iso":"eng"}],"conference":{"start_date":"2021-11-08","location":"Raleigh, NC, United States","name":"TCC: Theory of Cryptography","end_date":"2021-11-11"},"year":"2021","quality_controlled":"1","page":"486-517","month":"11","isi":1,"article_processing_charge":"No"},{"date_updated":"2026-07-06T13:16:17Z","language":[{"iso":"eng"}],"status":"public","conference":{"location":"Raleigh, NC, United States","name":"TCC: Theory of Cryptography Conference","end_date":"2021-11-11","start_date":"2021-11-08"},"year":"2021","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","cryptoeprintid":1,"department":[{"_id":"KrPi"}],"day":"08","das_tickbox":"1","month":"07","title":"The cost of adaptivity in security games on graphs","author":[{"first_name":"Chethan","last_name":"Kamath Hosdurg","full_name":"Kamath Hosdurg, Chethan","orcid":"0009-0006-6812-7317","id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87"},{"id":"3E83A2F8-F248-11E8-B48F-1D18A9856A87","last_name":"Klein","first_name":"Karen","full_name":"Klein, Karen"},{"last_name":"Pietrzak","first_name":"Krzysztof Z","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-3186-2482","full_name":"Walter, Michael","last_name":"Walter","first_name":"Michael","id":"488F98B0-F248-11E8-B48F-1D18A9856A87"}],"main_file_link":[{"url":"https://ia.cr/2021/059","open_access":"1"}],"article_processing_charge":"No","abstract":[{"lang":"eng","text":"The security of cryptographic primitives and protocols against adversaries that are allowed to make adaptive choices (e.g., which parties to corrupt or which queries to make) is notoriously difficult to establish. A broad theoretical\r\nframework was introduced by Jafargholi et al. [Crypto’17] for this purpose. In this paper we initiate the study of lower bounds on loss in adaptive security for certain cryptographic protocols considered in the framework. We prove lower\r\nbounds that almost match the upper bounds (proven using the framework) for proxy re-encryption, prefix-constrained PRFs and generalized selective decryption, a security game that captures the security of certain group messaging and\r\nbroadcast encryption schemes. Those primitives have in common that their security game involves an underlying graph that can be adaptively built by the adversary. Some of our lower bounds only apply to a restricted class of black-box reductions which we term “oblivious” (the existing upper bounds are of this restricted type), some apply to the broader but still restricted class of non-rewinding reductions, while our lower bound for proxy re-encryption applies to all black-box reductions. The fact that some of our lower bounds seem to crucially rely on obliviousness or at least a non-rewinding reduction hints to the exciting possibility that the existing upper bounds can be improved by using more sophisticated reductions. Our main conceptual contribution is a two-player multi-stage game called the Builder-Pebbler Game. We can translate bounds on the winning probabilities for various instantiations of this game into cryptographic lower bounds for the above-mentioned primitives using oracle separation techniques.\r\n"}],"citation":{"apa":"Kamath Hosdurg, C., Klein, K., Pietrzak, K. Z., &#38; Walter, M. (2021). The cost of adaptivity in security games on graphs. In <i>19th Theory of Cryptography Conference 2021</i>. Raleigh, NC, United States: International Association for Cryptologic Research.","mla":"Kamath Hosdurg, Chethan, et al. “The Cost of Adaptivity in Security Games on Graphs.” <i>19th Theory of Cryptography Conference 2021</i>, International Association for Cryptologic Research, 2021.","ieee":"C. Kamath Hosdurg, K. Klein, K. Z. Pietrzak, and M. Walter, “The cost of adaptivity in security games on graphs,” in <i>19th Theory of Cryptography Conference 2021</i>, Raleigh, NC, United States, 2021.","chicago":"Kamath Hosdurg, Chethan, Karen Klein, Krzysztof Z Pietrzak, and Michael Walter. “The Cost of Adaptivity in Security Games on Graphs.” In <i>19th Theory of Cryptography Conference 2021</i>. International Association for Cryptologic Research, 2021.","ista":"Kamath Hosdurg C, Klein K, Pietrzak KZ, Walter M. 2021. The cost of adaptivity in security games on graphs. 19th Theory of Cryptography Conference 2021. TCC: Theory of Cryptography Conference.","short":"C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, M. Walter, in:, 19th Theory of Cryptography Conference 2021, International Association for Cryptologic Research, 2021.","ama":"Kamath Hosdurg C, Klein K, Pietrzak KZ, Walter M. The cost of adaptivity in security games on graphs. In: <i>19th Theory of Cryptography Conference 2021</i>. International Association for Cryptologic Research; 2021."},"external_id":{"cryptoeprintid":["2021/059"]},"oa":1,"related_material":{"record":[{"status":"public","id":"10410","relation":"later_version"},{"id":"10035","relation":"dissertation_contains","status":"public"}]},"date_published":"2021-07-08T00:00:00Z","publication":"19th Theory of Cryptography Conference 2021","publisher":"International Association for Cryptologic Research","_id":"10048","type":"conference","oa_version":"Preprint","publication_status":"published","date_created":"2021-09-27T12:52:05Z"},{"status":"public","date_updated":"2026-07-06T13:15:57Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We would like to thank Daniel Wichs for helpful discussions on the landscape of adaptive security of Yao’s garbling.  ","ec_funded":1,"das_tickbox":"1","day":"08","department":[{"_id":"KrPi"}],"main_file_link":[{"url":"https://eprint.iacr.org/2021/926","open_access":"1"}],"author":[{"first_name":"Chethan","last_name":"Kamath Hosdurg","full_name":"Kamath Hosdurg, Chethan","orcid":"0009-0006-6812-7317","id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Klein, Karen","last_name":"Klein","first_name":"Karen","id":"3E83A2F8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Pietrzak","first_name":"Krzysztof Z","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87"}],"title":"On treewidth, separators and Yao's garbling","oa":1,"external_id":{"cryptoeprintid":["2021/926"]},"date_published":"2021-07-08T00:00:00Z","publication":"19th Theory of Cryptography Conference 2021","date_created":"2021-09-24T12:01:34Z","oa_version":"Preprint","article_number":"2021/926","_id":"10044","project":[{"_id":"258AA5B2-B435-11E9-9278-68D0E5697425","grant_number":"682815","call_identifier":"H2020","name":"Teaching Old Crypto New Tricks"}],"language":[{"iso":"eng"}],"cryptoeprintid":1,"quality_controlled":"1","conference":{"start_date":"2021-11-08","end_date":"2021-11-11","name":"TCC: Theory of Cryptography Conference","location":"Raleigh, NC, United States"},"year":"2021","month":"07","article_processing_charge":"No","citation":{"apa":"Kamath Hosdurg, C., Klein, K., &#38; Pietrzak, K. Z. (2021). On treewidth, separators and Yao’s garbling. In <i>19th Theory of Cryptography Conference 2021</i>. Raleigh, NC, United States: International Association for Cryptologic Research.","mla":"Kamath Hosdurg, Chethan, et al. “On Treewidth, Separators and Yao’s Garbling.” <i>19th Theory of Cryptography Conference 2021</i>, 2021/926, International Association for Cryptologic Research, 2021.","short":"C. Kamath Hosdurg, K. Klein, K.Z. Pietrzak, in:, 19th Theory of Cryptography Conference 2021, International Association for Cryptologic Research, 2021.","ama":"Kamath Hosdurg C, Klein K, Pietrzak KZ. On treewidth, separators and Yao’s garbling. In: <i>19th Theory of Cryptography Conference 2021</i>. International Association for Cryptologic Research; 2021.","chicago":"Kamath Hosdurg, Chethan, Karen Klein, and Krzysztof Z Pietrzak. “On Treewidth, Separators and Yao’s Garbling.” In <i>19th Theory of Cryptography Conference 2021</i>. International Association for Cryptologic Research, 2021.","ista":"Kamath Hosdurg C, Klein K, Pietrzak KZ. 2021. On treewidth, separators and Yao’s garbling. 19th Theory of Cryptography Conference 2021. TCC: Theory of Cryptography Conference, 2021/926.","ieee":"C. Kamath Hosdurg, K. Klein, and K. Z. Pietrzak, “On treewidth, separators and Yao’s garbling,” in <i>19th Theory of Cryptography Conference 2021</i>, Raleigh, NC, United States, 2021."},"abstract":[{"text":"We show that Yao’s garbling scheme is adaptively indistinguishable for the class of Boolean circuits of size S and treewidth w with only a S^O(w) loss in security. For instance, circuits with constant treewidth are as a result adaptively indistinguishable with only a polynomial loss. This (partially) complements a negative result of Applebaum et al. (Crypto 2013), which showed (assuming one-way functions) that Yao’s garbling scheme cannot be adaptively simulatable. As main technical contributions, we introduce a new pebble game that abstracts out our security reduction and then present a pebbling strategy for this game where the number of pebbles used is roughly O(d w log(S)), d being the fan-out of the circuit. The design of the strategy relies on separators, a graph-theoretic notion with connections to circuit complexity.","lang":"eng"}],"related_material":{"record":[{"id":"10409","relation":"later_version","status":"public"},{"status":"public","relation":"dissertation_contains","id":"10035"}]},"publication_status":"published","type":"conference","publisher":"International Association for Cryptologic Research"},{"oa_version":"Published Version","date_created":"2022-01-25T16:32:13Z","project":[{"call_identifier":"FWF","name":"Formal Methods meets Algorithmic Game Theory","_id":"264B3912-B435-11E9-9278-68D0E5697425","grant_number":"M02369"},{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S11402-N23","_id":"25F2ACDE-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"}],"_id":"10674","publication":"Logical Methods in Computer Science","file":[{"access_level":"open_access","date_updated":"2022-01-26T08:04:50Z","content_type":"application/pdf","success":1,"file_id":"10690","file_name":"2021_LMCS_AGHAJOHAR.pdf","creator":"alisjak","checksum":"b35586a50ed1ca8f44767de116d18d81","date_created":"2022-01-26T08:04:50Z","file_size":819878,"relation":"main_file"}],"date_published":"2021-02-03T00:00:00Z","publication_identifier":{"eissn":["1860-5974"]},"arxiv":1,"external_id":{"isi":["000658724600010"],"arxiv":["1905.03588"]},"oa":1,"author":[{"first_name":"Milad","last_name":"Aghajohari","full_name":"Aghajohari, Milad"},{"orcid":"0000-0001-5588-8287","full_name":"Avni, Guy","first_name":"Guy","last_name":"Avni","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger","full_name":"Henzinger, Thomas A","orcid":"0000-0002-2985-7724"}],"title":"Determinacy in discrete-bidding infinite-duration games","article_type":"original","acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE), Z211-N23 (Wittgenstein Award), and M 2369-N33 (Meitner fellowship).\r\n","day":"03","department":[{"_id":"ToHe"}],"das_tickbox":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"keyword":["computer science","computer science and game theory","logic in computer science"],"date_updated":"2026-07-06T13:21:45Z","publication_status":"published","corr_author":"1","publisher":"EPI Sciences","type":"journal_article","has_accepted_license":"1","intvolume":"        17","scopus_import":"1","doi":"10.23638/LMCS-17(1:10)2021","citation":{"apa":"Aghajohari, M., Avni, G., &#38; Henzinger, T. A. (2021). Determinacy in discrete-bidding infinite-duration games. <i>Logical Methods in Computer Science</i>. EPI Sciences. <a href=\"https://doi.org/10.23638/LMCS-17(1:10)2021\">https://doi.org/10.23638/LMCS-17(1:10)2021</a>","mla":"Aghajohari, Milad, et al. “Determinacy in Discrete-Bidding Infinite-Duration Games.” <i>Logical Methods in Computer Science</i>, vol. 17, no. 1, EPI Sciences, 2021, p. 10:1-10:23, doi:<a href=\"https://doi.org/10.23638/LMCS-17(1:10)2021\">10.23638/LMCS-17(1:10)2021</a>.","chicago":"Aghajohari, Milad, Guy Avni, and Thomas A Henzinger. “Determinacy in Discrete-Bidding Infinite-Duration Games.” <i>Logical Methods in Computer Science</i>. EPI Sciences, 2021. <a href=\"https://doi.org/10.23638/LMCS-17(1:10)2021\">https://doi.org/10.23638/LMCS-17(1:10)2021</a>.","ieee":"M. Aghajohari, G. Avni, and T. A. Henzinger, “Determinacy in discrete-bidding infinite-duration games,” <i>Logical Methods in Computer Science</i>, vol. 17, no. 1. EPI Sciences, p. 10:1-10:23, 2021.","ista":"Aghajohari M, Avni G, Henzinger TA. 2021. Determinacy in discrete-bidding infinite-duration games. Logical Methods in Computer Science. 17(1), 10:1-10:23.","ama":"Aghajohari M, Avni G, Henzinger TA. Determinacy in discrete-bidding infinite-duration games. <i>Logical Methods in Computer Science</i>. 2021;17(1):10:1-10:23. doi:<a href=\"https://doi.org/10.23638/LMCS-17(1:10)2021\">10.23638/LMCS-17(1:10)2021</a>","short":"M. Aghajohari, G. Avni, T.A. Henzinger, Logical Methods in Computer Science 17 (2021) 10:1-10:23."},"abstract":[{"lang":"eng","text":"In two-player games on graphs, the players move a token through a graph to produce an infinite path, which determines the winner of the game. Such games are central in formal methods since they model the interaction between a non-terminating system and its environment. In bidding games the players bid for the right to move the token: in each round, the players simultaneously submit bids, and the higher bidder moves the token and pays the other player. Bidding games are known to have a clean and elegant mathematical structure that relies on the ability of the players to submit arbitrarily small bids. Many applications, however, require a fixed granularity for the bids, which can represent, for example, the monetary value expressed in cents. We study, for the first time, the combination of discrete-bidding and infinite-duration games. Our most important result proves that these games form a large determined subclass of concurrent games, where determinacy is the strong property that there always exists exactly one player who can guarantee winning the game. In particular, we show that, in contrast to non-discrete bidding games, the mechanism with which tied bids are resolved plays an important role in discrete-bidding games. We study several natural tie-breaking mechanisms and show that, while some do not admit determinacy, most natural mechanisms imply determinacy for every pair of initial budgets."}],"article_processing_charge":"No","isi":1,"month":"02","issue":"1","page":"10:1-10:23","file_date_updated":"2022-01-26T08:04:50Z","quality_controlled":"1","ddc":["510"],"year":"2021","language":[{"iso":"eng"}],"volume":17},{"keyword":["Markov Chain","relative entropy","time reversal","steepest descent","gradient flow"],"date_updated":"2026-07-06T13:38:10Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","das_tickbox":"1","ec_funded":1,"department":[{"_id":"JaMa"}],"day":"04","acknowledgement":"I.K. acknowledges support from the U.S. National Science Foundation under Grant NSF-DMS-20-04997. J.M. acknowledges support from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 716117) and from the Austrian Science Fund (FWF) through project F65. W.S. acknowledges support from the Austrian Science Fund (FWF) under grant P28861 and by the Vienna Science and Technology Fund (WWTF) through projects MA14-008 and MA16-021.","article_type":"original","author":[{"last_name":"Karatzas","first_name":"Ioannis","full_name":"Karatzas, Ioannis"},{"id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","last_name":"Maas","first_name":"Jan","full_name":"Maas, Jan","orcid":"0000-0002-0845-1338"},{"last_name":"Schachermayer","first_name":"Walter","full_name":"Schachermayer, Walter"}],"main_file_link":[{"url":"https://arxiv.org/abs/2005.14177","open_access":"1"}],"title":"Trajectorial dissipation and gradient flow for the relative entropy in Markov chains","oa":1,"external_id":{"arxiv":["2005.14177"]},"arxiv":1,"publication_identifier":{"issn":["1526-7555"]},"date_published":"2021-06-04T00:00:00Z","publication":"Communications in Information and Systems","_id":"10023","project":[{"_id":"256E75B8-B435-11E9-9278-68D0E5697425","grant_number":"716117","call_identifier":"H2020","name":"Optimal Transport and Stochastic Dynamics"},{"name":"Taming Complexity in Partial Differential Systems","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","grant_number":"F6504"}],"date_created":"2021-09-19T08:53:19Z","oa_version":"Preprint","volume":21,"language":[{"iso":"eng"}],"year":"2021","quality_controlled":"1","issue":"4","page":"481-536","month":"06","article_processing_charge":"No","abstract":[{"lang":"eng","text":"We study the temporal dissipation of variance and relative entropy for ergodic Markov Chains in continuous time, and compute explicitly the corresponding dissipation rates. These are identified, as is well known, in the case of the variance in terms of an appropriate Hilbertian norm; and in the case of the relative entropy, in terms of a Dirichlet form which morphs into a version of the familiar Fisher information under conditions of detailed balance. Here we obtain trajectorial versions of these results, valid along almost every path of the random motion and most transparent in the backwards direction of time. Martingale arguments and time reversal play crucial roles, as in the recent work of Karatzas, Schachermayer and Tschiderer for conservative diffusions. Extensions are developed to general “convex divergences” and to countable state-spaces. The steepest descent and gradient flow properties for the variance, the relative entropy, and appropriate generalizations, are studied along with their respective geometries under conditions of detailed balance, leading to a very direct proof for the HWI inequality of Otto and Villani in the present context."}],"citation":{"apa":"Karatzas, I., Maas, J., &#38; Schachermayer, W. (2021). Trajectorial dissipation and gradient flow for the relative entropy in Markov chains. <i>Communications in Information and Systems</i>. International Press of Boston. <a href=\"https://doi.org/10.4310/CIS.2021.v21.n4.a1\">https://doi.org/10.4310/CIS.2021.v21.n4.a1</a>","mla":"Karatzas, Ioannis, et al. “Trajectorial Dissipation and Gradient Flow for the Relative Entropy in Markov Chains.” <i>Communications in Information and Systems</i>, vol. 21, no. 4, International Press of Boston, 2021, pp. 481–536, doi:<a href=\"https://doi.org/10.4310/CIS.2021.v21.n4.a1\">10.4310/CIS.2021.v21.n4.a1</a>.","ieee":"I. Karatzas, J. Maas, and W. Schachermayer, “Trajectorial dissipation and gradient flow for the relative entropy in Markov chains,” <i>Communications in Information and Systems</i>, vol. 21, no. 4. International Press of Boston, pp. 481–536, 2021.","ista":"Karatzas I, Maas J, Schachermayer W. 2021. Trajectorial dissipation and gradient flow for the relative entropy in Markov chains. Communications in Information and Systems. 21(4), 481–536.","chicago":"Karatzas, Ioannis, Jan Maas, and Walter Schachermayer. “Trajectorial Dissipation and Gradient Flow for the Relative Entropy in Markov Chains.” <i>Communications in Information and Systems</i>. International Press of Boston, 2021. <a href=\"https://doi.org/10.4310/CIS.2021.v21.n4.a1\">https://doi.org/10.4310/CIS.2021.v21.n4.a1</a>.","ama":"Karatzas I, Maas J, Schachermayer W. Trajectorial dissipation and gradient flow for the relative entropy in Markov chains. <i>Communications in Information and Systems</i>. 2021;21(4):481-536. doi:<a href=\"https://doi.org/10.4310/CIS.2021.v21.n4.a1\">10.4310/CIS.2021.v21.n4.a1</a>","short":"I. Karatzas, J. Maas, W. Schachermayer, Communications in Information and Systems 21 (2021) 481–536."},"doi":"10.4310/CIS.2021.v21.n4.a1","intvolume":"        21","publisher":"International Press of Boston","type":"journal_article","publication_status":"published"},{"publication_status":"published","type":"journal_article","publisher":"Royal Society of Chemistry","has_accepted_license":"1","intvolume":"        17","scopus_import":"1","doi":"10.1039/d1sm00774b","citation":{"mla":"Osang, Georg F., et al. “Topological Signatures and Stability of Hexagonal Close Packing and Barlow Stackings.” <i>Soft Matter</i>, vol. 17, no. 40, Royal Society of Chemistry, 2021, pp. 9107–15, doi:<a href=\"https://doi.org/10.1039/d1sm00774b\">10.1039/d1sm00774b</a>.","apa":"Osang, G. F., Edelsbrunner, H., &#38; Saadatfar, M. (2021). Topological signatures and stability of hexagonal close packing and Barlow stackings. <i>Soft Matter</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/d1sm00774b\">https://doi.org/10.1039/d1sm00774b</a>","ama":"Osang GF, Edelsbrunner H, Saadatfar M. Topological signatures and stability of hexagonal close packing and Barlow stackings. <i>Soft Matter</i>. 2021;17(40):9107-9115. doi:<a href=\"https://doi.org/10.1039/d1sm00774b\">10.1039/d1sm00774b</a>","short":"G.F. Osang, H. Edelsbrunner, M. Saadatfar, Soft Matter 17 (2021) 9107–9115.","chicago":"Osang, Georg F, Herbert Edelsbrunner, and Mohammad Saadatfar. “Topological Signatures and Stability of Hexagonal Close Packing and Barlow Stackings.” <i>Soft Matter</i>. Royal Society of Chemistry, 2021. <a href=\"https://doi.org/10.1039/d1sm00774b\">https://doi.org/10.1039/d1sm00774b</a>.","ieee":"G. F. Osang, H. Edelsbrunner, and M. Saadatfar, “Topological signatures and stability of hexagonal close packing and Barlow stackings,” <i>Soft Matter</i>, vol. 17, no. 40. Royal Society of Chemistry, pp. 9107–9115, 2021.","ista":"Osang GF, Edelsbrunner H, Saadatfar M. 2021. Topological signatures and stability of hexagonal close packing and Barlow stackings. Soft Matter. 17(40), 9107–9115."},"abstract":[{"text":"Two common representations of close packings of identical spheres consisting of hexagonal layers, called Barlow stackings, appear abundantly in minerals and metals. These motifs, however, occupy an identical portion of space and bear identical first-order topological signatures as measured by persistent homology. Here we present a novel method based on k-fold covers that unambiguously distinguishes between these patterns. Moreover, our approach provides topological evidence that the FCC motif is the more stable of the two in the context of evolving experimental sphere packings during the transition from disordered to an ordered state. We conclude that our approach can be generalised to distinguish between various Barlow stackings manifested in minerals and metals.","lang":"eng"}],"article_processing_charge":"No","isi":1,"month":"10","page":"9107-9115","issue":"40","file_date_updated":"2023-10-03T09:21:42Z","quality_controlled":"1","ddc":["540"],"year":"2021","language":[{"iso":"eng"}],"volume":17,"oa_version":"Submitted Version","date_created":"2021-10-31T23:01:30Z","pmid":1,"project":[{"grant_number":"788183","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","name":"Alpha Shape Theory Extended","call_identifier":"H2020"},{"name":"Mathematics, Computer Science","call_identifier":"FWF","_id":"268116B8-B435-11E9-9278-68D0E5697425","grant_number":"Z00342"}],"_id":"10204","publication":"Soft Matter","file":[{"file_id":"14385","access_level":"open_access","success":1,"content_type":"application/pdf","date_updated":"2023-10-03T09:21:42Z","file_size":4678788,"date_created":"2023-10-03T09:21:42Z","checksum":"b4da0c420530295e61b153960f6cb350","relation":"main_file","file_name":"2021_SoftMatter_acceptedversion_Osang.pdf","creator":"dernst"}],"date_published":"2021-10-20T00:00:00Z","publication_identifier":{"issn":["1744-683X"],"eissn":["1744-6848"]},"external_id":{"pmid":["34569592"],"isi":["000700090000001"]},"oa":1,"author":[{"id":"464B40D6-F248-11E8-B48F-1D18A9856A87","full_name":"Osang, Georg F","orcid":"0000-0002-8882-5116","first_name":"Georg F","last_name":"Osang"},{"full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","first_name":"Herbert","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Saadatfar","first_name":"Mohammad","full_name":"Saadatfar, Mohammad"}],"title":"Topological signatures and stability of hexagonal close packing and Barlow stackings","article_type":"original","acknowledgement":"MS acknowledges the support by Australian Research Council funding through the ARC Training Centre for M3D Innovation (IC180100008). MS thanks M. Hanifpour and N. Francois for their input and valuable discussions. This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme, grant no. 788183 and from the Wittgenstein Prize, Austrian Science Fund (FWF), grant no. Z 342-N31.","department":[{"_id":"HeEd"}],"day":"20","das_tickbox":"1","ec_funded":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2026-07-06T13:55:05Z"},{"alternative_title":["ISTA Thesis"],"title":"The polaron at strong coupling","author":[{"orcid":"0000-0003-0754-8530","full_name":"Feliciangeli, Dario","first_name":"Dario","last_name":"Feliciangeli","id":"41A639AA-F248-11E8-B48F-1D18A9856A87"}],"OA_place":"publisher","degree_awarded":"PhD","department":[{"_id":"GradSch"},{"_id":"RoSe"},{"_id":"JaMa"}],"day":"20","ec_funded":1,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","tmp":{"short":"CC BY-ND (4.0)","name":"Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)","image":"/image/cc_by_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nd/4.0/legalcode"},"date_updated":"2026-07-06T14:02:25Z","oa_version":"Published Version","date_created":"2021-07-27T15:48:30Z","project":[{"name":"Optimal Transport and Stochastic Dynamics","call_identifier":"H2020","_id":"256E75B8-B435-11E9-9278-68D0E5697425","grant_number":"716117"},{"grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","name":"Analysis of quantum many-body systems","call_identifier":"H2020"},{"name":"Taming Complexity in Partial Differential Systems","grant_number":"F6504","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2"}],"_id":"9733","file":[{"file_id":"9944","access_level":"open_access","content_type":"application/pdf","date_updated":"2021-09-06T09:28:56Z","file_size":1958710,"date_created":"2021-08-19T14:03:48Z","checksum":"e88bb8ca43948abe060eb2d2fa719881","relation":"main_file","file_name":"Thesis_FeliciangeliA.pdf","creator":"dfelicia"},{"relation":"source_file","file_size":3771669,"checksum":"72810843abee83705853505b3f8348aa","date_created":"2021-08-19T14:06:35Z","creator":"dfelicia","file_name":"thesis.7z","file_id":"9945","content_type":"application/octet-stream","date_updated":"2022-03-10T12:13:57Z","access_level":"closed"}],"date_published":"2021-08-20T00:00:00Z","publication_identifier":{"issn":["2663-337X"]},"oa":1,"article_processing_charge":"No","license":"https://creativecommons.org/licenses/by-nd/4.0/","month":"08","page":"180","file_date_updated":"2022-03-10T12:13:57Z","year":"2021","ddc":["515","519","539"],"language":[{"iso":"eng"}],"publication_status":"published","supervisor":[{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"},{"id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","full_name":"Maas, Jan","orcid":"0000-0002-0845-1338","first_name":"Jan","last_name":"Maas"}],"corr_author":"1","type":"dissertation","publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","related_material":{"record":[{"status":"public","id":"9787","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"9792"},{"relation":"part_of_dissertation","id":"9791","status":"public"},{"relation":"part_of_dissertation","id":"9225","status":"public"},{"id":"9781","relation":"part_of_dissertation","status":"public"}]},"doi":"10.15479/at:ista:9733","citation":{"mla":"Feliciangeli, Dario. <i>The Polaron at Strong Coupling</i>. Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/at:ista:9733\">10.15479/at:ista:9733</a>.","apa":"Feliciangeli, D. (2021). <i>The polaron at strong coupling</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:9733\">https://doi.org/10.15479/at:ista:9733</a>","short":"D. Feliciangeli, The Polaron at Strong Coupling, Institute of Science and Technology Austria, 2021.","ama":"Feliciangeli D. The polaron at strong coupling. 2021. doi:<a href=\"https://doi.org/10.15479/at:ista:9733\">10.15479/at:ista:9733</a>","chicago":"Feliciangeli, Dario. “The Polaron at Strong Coupling.” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/at:ista:9733\">https://doi.org/10.15479/at:ista:9733</a>.","ieee":"D. Feliciangeli, “The polaron at strong coupling,” Institute of Science and Technology Austria, 2021.","ista":"Feliciangeli D. 2021. The polaron at strong coupling. Institute of Science and Technology Austria."},"abstract":[{"text":"This thesis is the result of the research carried out by the author during his PhD at IST Austria between 2017 and 2021. It mainly focuses on the Fröhlich polaron model, specifically to its regime of strong coupling. This model, which is rigorously introduced and discussed in the introduction, has been of great interest in condensed matter physics and field theory for more than eighty years. It is used to describe an electron interacting with the atoms of a solid material (the strength of this interaction is modeled by the presence of a coupling constant α in the Hamiltonian of the system). The particular regime examined here, which is mathematically described by considering the limit α →∞, displays many interesting features related to the emergence of classical behavior, which allows for a simplified effective description of the system under analysis. The properties, the range of validity and a quantitative analysis of the precision of such classical approximations are the main object of the present work. We specify our investigation to the study of the ground state energy of the system, its dynamics and its effective mass. For each of these problems, we provide in the introduction an overview of the previously known results and a detailed account of the original contributions by the author.","lang":"eng"}]},{"isi":1,"article_processing_charge":"Yes (via OA deal)","file_date_updated":"2023-08-14T11:55:10Z","page":"1-15","month":"10","ddc":["510"],"year":"2021","quality_controlled":"1","language":[{"iso":"eng"}],"publisher":"Taylor & Francis","corr_author":"1","type":"journal_article","publication_status":"published","has_accepted_license":"1","doi":"10.1080/10586458.2021.1980459","scopus_import":"1","abstract":[{"text":"Consider a random set of points on the unit sphere in ℝd, which can be either uniformly sampled or a Poisson point process. Its convex hull is a random inscribed polytope, whose boundary approximates the sphere. We focus on the case d = 3, for which there are elementary proofs and fascinating formulas for metric properties. In particular, we study the fraction of acute facets, the expected intrinsic volumes, the total edge length, and the distance to a fixed point. Finally we generalize the results to the ellipsoid with homeoid density.","lang":"eng"}],"citation":{"apa":"Akopyan, A., Edelsbrunner, H., &#38; Nikitenko, A. (2021). The beauty of random polytopes inscribed in the 2-sphere. <i>Experimental Mathematics</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.1080/10586458.2021.1980459\">https://doi.org/10.1080/10586458.2021.1980459</a>","mla":"Akopyan, Arseniy, et al. “The Beauty of Random Polytopes Inscribed in the 2-Sphere.” <i>Experimental Mathematics</i>, Taylor &#38; Francis, 2021, pp. 1–15, doi:<a href=\"https://doi.org/10.1080/10586458.2021.1980459\">10.1080/10586458.2021.1980459</a>.","chicago":"Akopyan, Arseniy, Herbert Edelsbrunner, and Anton Nikitenko. “The Beauty of Random Polytopes Inscribed in the 2-Sphere.” <i>Experimental Mathematics</i>. Taylor &#38; Francis, 2021. <a href=\"https://doi.org/10.1080/10586458.2021.1980459\">https://doi.org/10.1080/10586458.2021.1980459</a>.","ieee":"A. Akopyan, H. Edelsbrunner, and A. Nikitenko, “The beauty of random polytopes inscribed in the 2-sphere,” <i>Experimental Mathematics</i>. Taylor &#38; Francis, pp. 1–15, 2021.","ista":"Akopyan A, Edelsbrunner H, Nikitenko A. 2021. The beauty of random polytopes inscribed in the 2-sphere. Experimental Mathematics., 1–15.","ama":"Akopyan A, Edelsbrunner H, Nikitenko A. The beauty of random polytopes inscribed in the 2-sphere. <i>Experimental Mathematics</i>. 2021:1-15. doi:<a href=\"https://doi.org/10.1080/10586458.2021.1980459\">10.1080/10586458.2021.1980459</a>","short":"A. Akopyan, H. Edelsbrunner, A. Nikitenko, Experimental Mathematics (2021) 1–15."},"author":[{"id":"430D2C90-F248-11E8-B48F-1D18A9856A87","first_name":"Arseniy","last_name":"Akopyan","full_name":"Akopyan, Arseniy","orcid":"0000-0002-2548-617X"},{"first_name":"Herbert","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87","last_name":"Nikitenko","first_name":"Anton","full_name":"Nikitenko, Anton","orcid":"0000-0002-0659-3201"}],"title":"The beauty of random polytopes inscribed in the 2-sphere","ec_funded":1,"das_tickbox":"1","department":[{"_id":"HeEd"}],"day":"25","acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme, grant no. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), grant no. Z 342-N31, and from the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, Austrian Science Fund (FWF), grant no. I 02979-N35.\r\nWe are grateful to Dmitry Zaporozhets and Christoph Thäle for valuable comments and for directing us to relevant references. We also thank to Anton Mellit for a useful discussion on Bessel functions.","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-07-07T05:33:35Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","_id":"10222","project":[{"call_identifier":"H2020","name":"Alpha Shape Theory Extended","grant_number":"788183","_id":"266A2E9E-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Mathematics, Computer Science","_id":"268116B8-B435-11E9-9278-68D0E5697425","grant_number":"Z00342"},{"grant_number":"I4887","_id":"0aa4bc98-070f-11eb-9043-e6fff9c6a316","name":"Persistent Homology, Algorithms and Stochastic Geometry"},{"_id":"2561EBF4-B435-11E9-9278-68D0E5697425","grant_number":"I02979-N35","name":"Persistence and stability of geometric complexes","call_identifier":"FWF"}],"date_created":"2021-11-07T23:01:25Z","oa_version":"Published Version","file":[{"access_level":"open_access","date_updated":"2023-08-14T11:55:10Z","content_type":"application/pdf","success":1,"file_id":"14053","file_name":"2023_ExperimentalMath_Akopyan.pdf","creator":"dernst","date_created":"2023-08-14T11:55:10Z","checksum":"3514382e3a1eb87fa6c61ad622874415","file_size":1966019,"relation":"main_file"}],"publication":"Experimental Mathematics","arxiv":1,"publication_identifier":{"eissn":["1944-950X"],"issn":["1058-6458"]},"date_published":"2021-10-25T00:00:00Z","oa":1,"external_id":{"arxiv":["2007.07783"],"isi":["000710893500001"]}},{"article_processing_charge":"No","isi":1,"month":"03","file_date_updated":"2021-03-22T08:15:28Z","issue":"5","page":"7568-7588","quality_controlled":"1","ddc":["000"],"year":"2021","language":[{"iso":"eng"}],"volume":29,"publication_status":"published","publisher":"Optica Publishing Group","type":"journal_article","has_accepted_license":"1","intvolume":"        29","scopus_import":"1","doi":"10.1364/OE.406095","citation":{"apa":"Elek, O., Zhang, R., Sumin, D., Myszkowski, K., Bickel, B., Wilkie, A., … Weyrich, T. (2021). Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. <i>Optics Express</i>. Optica Publishing Group. <a href=\"https://doi.org/10.1364/OE.406095\">https://doi.org/10.1364/OE.406095</a>","mla":"Elek, Oskar, et al. “Robust and Practical Measurement of Volume Transport Parameters in Solid Photo-Polymer Materials for 3D Printing.” <i>Optics Express</i>, vol. 29, no. 5, Optica Publishing Group, 2021, pp. 7568–88, doi:<a href=\"https://doi.org/10.1364/OE.406095\">10.1364/OE.406095</a>.","chicago":"Elek, Oskar, Ran Zhang, Denis Sumin, Karol Myszkowski, Bernd Bickel, Alexander Wilkie, Jaroslav Křivánek, and Tim Weyrich. “Robust and Practical Measurement of Volume Transport Parameters in Solid Photo-Polymer Materials for 3D Printing.” <i>Optics Express</i>. Optica Publishing Group, 2021. <a href=\"https://doi.org/10.1364/OE.406095\">https://doi.org/10.1364/OE.406095</a>.","ieee":"O. Elek <i>et al.</i>, “Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing,” <i>Optics Express</i>, vol. 29, no. 5. Optica Publishing Group, pp. 7568–7588, 2021.","ista":"Elek O, Zhang R, Sumin D, Myszkowski K, Bickel B, Wilkie A, Křivánek J, Weyrich T. 2021. Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. Optics Express. 29(5), 7568–7588.","ama":"Elek O, Zhang R, Sumin D, et al. Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing. <i>Optics Express</i>. 2021;29(5):7568-7588. doi:<a href=\"https://doi.org/10.1364/OE.406095\">10.1364/OE.406095</a>","short":"O. Elek, R. Zhang, D. Sumin, K. Myszkowski, B. Bickel, A. Wilkie, J. Křivánek, T. Weyrich, Optics Express 29 (2021) 7568–7588."},"abstract":[{"lang":"eng","text":"Volumetric light transport is a pervasive physical phenomenon, and therefore its accurate simulation is important for a broad array of disciplines. While suitable mathematical models for computing the transport are now available, obtaining the necessary material parameters needed to drive such simulations is a challenging task: direct measurements of these parameters from material samples are seldom possible. Building on the inverse scattering paradigm, we present a novel measurement approach which indirectly infers the transport parameters from extrinsic observations of multiple-scattered radiance. The novelty of the proposed approach lies in replacing structured illumination with a structured reflector bonded to the sample, and a robust fitting procedure that largely compensates for potential systematic errors in the calibration of the setup. We show the feasibility of our approach by validating simulations of complex 3D compositions of the measured materials against physical prints, using photo-polymer resins. As presented in this paper, our technique yields colorspace data suitable for accurate appearance reproduction in the area of 3D printing. Beyond that, and without fundamental changes to the basic measurement methodology, it could equally well be used to obtain spectral measurements that are useful for other application areas."}],"author":[{"full_name":"Elek, Oskar","first_name":"Oskar","last_name":"Elek"},{"last_name":"Zhang","first_name":"Ran","orcid":"0000-0002-3808-281X","full_name":"Zhang, Ran","id":"4DDBCEB0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Sumin, Denis","first_name":"Denis","last_name":"Sumin"},{"last_name":"Myszkowski","first_name":"Karol","full_name":"Myszkowski, Karol"},{"full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","first_name":"Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Wilkie, Alexander","first_name":"Alexander","last_name":"Wilkie"},{"last_name":"Křivánek","first_name":"Jaroslav","full_name":"Křivánek, Jaroslav"},{"full_name":"Weyrich, Tim","first_name":"Tim","last_name":"Weyrich"}],"title":"Robust and practical measurement of volume transport parameters in solid photo-polymer materials for 3D printing","acknowledgement":"H2020 Marie Skłodowska-Curie Actions (642841); European Research Council (715767); Grantová Agentura České Republiky (16-08111S, 16-18964S); Univerzita Karlova v Praze (SVV-2017-260452); Engineering and Physical Sciences Research Council (EP/K023578/1).\r\nWe are grateful to Stratasys Ltd. for access to the voxel-level print interface of the J750\r\nmachine.","article_type":"original","ec_funded":1,"day":"01","department":[{"_id":"BeBi"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2026-07-07T05:54:53Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_created":"2021-03-14T23:01:33Z","oa_version":"Published Version","_id":"9241","project":[{"name":"Distributed 3D Object Design","call_identifier":"H2020","grant_number":"642841","_id":"2508E324-B435-11E9-9278-68D0E5697425"},{"grant_number":"715767","_id":"24F9549A-B435-11E9-9278-68D0E5697425","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","call_identifier":"H2020"}],"publication":"Optics Express","file":[{"file_id":"9269","date_updated":"2021-03-22T08:15:28Z","success":1,"content_type":"application/pdf","access_level":"open_access","relation":"main_file","date_created":"2021-03-22T08:15:28Z","checksum":"a9697ad83136c19ad87e46aa2db63cfd","file_size":10873700,"creator":"dernst","file_name":"2021_OpticsExpress_Elek.pdf"}],"date_published":"2021-03-01T00:00:00Z","publication_identifier":{"eissn":["1094-4087"]},"oa":1,"external_id":{"isi":["000624968100103"]}}]