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In this model, a quantitative trait is expressed as the sum of a genetic and a non-genetic (environmental) component and the genetic component of offspring traits within a family follows a normal distribution around the average of the parents’ trait values, and has a variance that is independent of the trait values of the parents. Although the trait distribution across the whole population can be far from normal, the trait distributions within families are normally distributed with a variance-covariance matrix that is determined entirely by that in  the ancestral population and the probabilities of identity determined by the pedigree. Moreover, conditioning on some of the trait values within the pedigree has predictable effects on the mean and variance within and between families. In previous work, Barton et al. (2017), we showed that when trait values are determined by the sum of a large number of Mendelian factors, each  of small effect, one can justify the infinitesimal model as limit of Mendelian inheritance. It was also shown that under some forms of epistasis, trait values within a family are still normally distributed."}],"has_accepted_license":"1","type":"research_data","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"14452"}]},"day":"13","oa_version":"Published Version","_id":"12949","keyword":["Quantitative genetics","infinitesimal model"],"year":"2023","department":[{"_id":"NiBa"}],"date_created":"2023-05-13T09:49:09Z","citation":{"ama":"Barton NH. The infinitesimal model with dominance. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>","chicago":"Barton, Nicholas H. “The Infinitesimal Model with Dominance.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">https://doi.org/10.15479/AT:ISTA:12949</a>.","short":"N.H. Barton, (2023).","mla":"Barton, Nicholas H. <i>The Infinitesimal Model with Dominance</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>.","apa":"Barton, N. H. (2023). The infinitesimal model with dominance. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">https://doi.org/10.15479/AT:ISTA:12949</a>","ieee":"N. H. Barton, “The infinitesimal model with dominance.” Institute of Science and Technology Austria, 2023.","ista":"Barton NH. 2023. The infinitesimal model with dominance, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>."},"ddc":["576"],"project":[{"grant_number":"101055327","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes"}],"doi":"10.15479/AT:ISTA:12949","month":"05","title":"The infinitesimal model with dominance","publisher":"Institute of Science and Technology Austria","file_date_updated":"2023-05-16T04:09:08Z","license":"https://creativecommons.org/licenses/by/4.0/","date_published":"2023-05-13T00:00:00Z","author":[{"orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H"}],"date_updated":"2025-05-28T11:57:00Z"},{"isi":1,"file_date_updated":"2023-10-04T11:34:10Z","month":"04","doi":"10.1007/s00526-023-02472-z","date_updated":"2023-10-04T11:34:49Z","date_published":"2023-04-28T00:00:00Z","article_number":"143","department":[{"_id":"JaMa"}],"acknowledgement":"J.M. gratefully acknowledges support by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 716117). J.M and L.P. also acknowledge support from the Austrian Science Fund (FWF), grants No F65 and W1245. E.K. gratefully acknowledges support by the German Research Foundation through the Hausdorff Center for Mathematics and the Collaborative Research Center 1060. P.G. is partially funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation)—350398276. We thank the anonymous reviewer for the careful reading and for useful suggestions. Open access funding provided by Austrian Science Fund (FWF).","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","language":[{"iso":"eng"}],"year":"2023","_id":"12959","publication":"Calculus of Variations and Partial Differential Equations","day":"28","file":[{"file_name":"2023_CalculusEquations_Gladbach.pdf","content_type":"application/pdf","relation":"main_file","access_level":"open_access","creator":"dernst","date_created":"2023-10-04T11:34:10Z","checksum":"359bee38d94b7e0aa73925063cb8884d","success":1,"file_size":1240995,"file_id":"14393","date_updated":"2023-10-04T11:34:10Z"}],"article_processing_charge":"Yes (via OA deal)","abstract":[{"lang":"eng","text":"This paper deals with the large-scale behaviour of dynamical optimal transport on Zd\r\n-periodic graphs with general lower semicontinuous and convex energy densities. Our main contribution is a homogenisation result that describes the effective behaviour of the discrete problems in terms of a continuous optimal transport problem. The effective energy density can be explicitly expressed in terms of a cell formula, which is a finite-dimensional convex programming problem that depends non-trivially on the local geometry of the discrete graph and the discrete energy density. Our homogenisation result is derived from a Γ\r\n-convergence result for action functionals on curves of measures, which we prove under very mild growth conditions on the energy density. We investigate the cell formula in several cases of interest, including finite-volume discretisations of the Wasserstein distance, where non-trivial limiting behaviour occurs."}],"oa":1,"publisher":"Springer Nature","title":"Homogenisation of dynamical optimal transport on periodic graphs","project":[{"name":"Optimal Transport and Stochastic Dynamics","call_identifier":"H2020","_id":"256E75B8-B435-11E9-9278-68D0E5697425","grant_number":"716117"},{"_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","name":"Taming Complexity in Partial Differential Systems","grant_number":"F6504"},{"call_identifier":"FWF","_id":"260788DE-B435-11E9-9278-68D0E5697425","name":"Dissipation and Dispersion in Nonlinear Partial Differential Equations"}],"arxiv":1,"author":[{"first_name":"Peter","last_name":"Gladbach","full_name":"Gladbach, Peter"},{"last_name":"Kopfer","full_name":"Kopfer, Eva","first_name":"Eva"},{"first_name":"Jan","full_name":"Maas, Jan","last_name":"Maas","id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0845-1338"},{"first_name":"Lorenzo","id":"30AD2CBC-F248-11E8-B48F-1D18A9856A87","last_name":"Portinale","full_name":"Portinale, Lorenzo"}],"issue":"5","ddc":["510"],"citation":{"apa":"Gladbach, P., Kopfer, E., Maas, J., &#38; Portinale, L. (2023). Homogenisation of dynamical optimal transport on periodic graphs. <i>Calculus of Variations and Partial Differential Equations</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00526-023-02472-z\">https://doi.org/10.1007/s00526-023-02472-z</a>","mla":"Gladbach, Peter, et al. “Homogenisation of Dynamical Optimal Transport on Periodic Graphs.” <i>Calculus of Variations and Partial Differential Equations</i>, vol. 62, no. 5, 143, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00526-023-02472-z\">10.1007/s00526-023-02472-z</a>.","short":"P. Gladbach, E. Kopfer, J. Maas, L. Portinale, Calculus of Variations and Partial Differential Equations 62 (2023).","chicago":"Gladbach, Peter, Eva Kopfer, Jan Maas, and Lorenzo Portinale. “Homogenisation of Dynamical Optimal Transport on Periodic Graphs.” <i>Calculus of Variations and Partial Differential Equations</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00526-023-02472-z\">https://doi.org/10.1007/s00526-023-02472-z</a>.","ama":"Gladbach P, Kopfer E, Maas J, Portinale L. Homogenisation of dynamical optimal transport on periodic graphs. <i>Calculus of Variations and Partial Differential Equations</i>. 2023;62(5). doi:<a href=\"https://doi.org/10.1007/s00526-023-02472-z\">10.1007/s00526-023-02472-z</a>","ista":"Gladbach P, Kopfer E, Maas J, Portinale L. 2023. Homogenisation of dynamical optimal transport on periodic graphs. Calculus of Variations and Partial Differential Equations. 62(5), 143.","ieee":"P. Gladbach, E. Kopfer, J. Maas, and L. Portinale, “Homogenisation of dynamical optimal transport on periodic graphs,” <i>Calculus of Variations and Partial Differential Equations</i>, vol. 62, no. 5. Springer Nature, 2023."},"volume":62,"date_created":"2023-05-14T22:01:00Z","scopus_import":"1","article_type":"original","quality_controlled":"1","external_id":{"arxiv":["2110.15321"],"isi":["000980588900001"]},"publication_status":"published","has_accepted_license":"1","oa_version":"Published Version","intvolume":"        62","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"publication_identifier":{"issn":["0944-2669"],"eissn":["1432-0835"]},"status":"public"},{"related_material":{"record":[{"id":"9441","status":"public","relation":"earlier_version"}]},"intvolume":"        52","oa_version":"Submitted Version","quality_controlled":"1","external_id":{"isi":["001013183000012"]},"publication_status":"published","publication_identifier":{"eissn":["1095-7111"],"issn":["0097-5397"]},"ec_funded":1,"status":"public","author":[{"first_name":"Jean Daniel","full_name":"Boissonnat, Jean Daniel","last_name":"Boissonnat"},{"first_name":"Siargey","last_name":"Kachanovich","full_name":"Kachanovich, Siargey"},{"last_name":"Wintraecken","full_name":"Wintraecken, Mathijs","orcid":"0000-0002-7472-2220","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","first_name":"Mathijs"}],"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411"},{"grant_number":"M03073","name":"Learning and triangulating manifolds via collapses","_id":"fc390959-9c52-11eb-aca3-afa58bd282b2"}],"publisher":"Society for Industrial and Applied Mathematics","title":"Tracing isomanifolds in Rd in time polynomial in d using Coxeter–Freudenthal–Kuhn triangulations","volume":52,"citation":{"ista":"Boissonnat JD, Kachanovich S, Wintraecken M. 2023. Tracing isomanifolds in Rd in time polynomial in d using Coxeter–Freudenthal–Kuhn triangulations. SIAM Journal on Computing. 52(2), 452–486.","ieee":"J. D. Boissonnat, S. Kachanovich, and M. Wintraecken, “Tracing isomanifolds in Rd in time polynomial in d using Coxeter–Freudenthal–Kuhn triangulations,” <i>SIAM Journal on Computing</i>, vol. 52, no. 2. Society for Industrial and Applied Mathematics, pp. 452–486, 2023.","mla":"Boissonnat, Jean Daniel, et al. “Tracing Isomanifolds in Rd in Time Polynomial in d Using Coxeter–Freudenthal–Kuhn Triangulations.” <i>SIAM Journal on Computing</i>, vol. 52, no. 2, Society for Industrial and Applied Mathematics, 2023, pp. 452–86, doi:<a href=\"https://doi.org/10.1137/21M1412918\">10.1137/21M1412918</a>.","short":"J.D. Boissonnat, S. Kachanovich, M. Wintraecken, SIAM Journal on Computing 52 (2023) 452–486.","apa":"Boissonnat, J. D., Kachanovich, S., &#38; Wintraecken, M. (2023). Tracing isomanifolds in Rd in time polynomial in d using Coxeter–Freudenthal–Kuhn triangulations. <i>SIAM Journal on Computing</i>. Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/21M1412918\">https://doi.org/10.1137/21M1412918</a>","ama":"Boissonnat JD, Kachanovich S, Wintraecken M. Tracing isomanifolds in Rd in time polynomial in d using Coxeter–Freudenthal–Kuhn triangulations. <i>SIAM Journal on Computing</i>. 2023;52(2):452-486. doi:<a href=\"https://doi.org/10.1137/21M1412918\">10.1137/21M1412918</a>","chicago":"Boissonnat, Jean Daniel, Siargey Kachanovich, and Mathijs Wintraecken. “Tracing Isomanifolds in Rd in Time Polynomial in d Using Coxeter–Freudenthal–Kuhn Triangulations.” <i>SIAM Journal on Computing</i>. Society for Industrial and Applied Mathematics, 2023. <a href=\"https://doi.org/10.1137/21M1412918\">https://doi.org/10.1137/21M1412918</a>."},"article_type":"original","scopus_import":"1","date_created":"2023-05-14T22:01:00Z","issue":"2","_id":"12960","publication":"SIAM Journal on Computing","language":[{"iso":"eng"}],"page":"452-486","year":"2023","day":"30","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Isomanifolds are the generalization of isosurfaces to arbitrary dimension and codimension, i.e., submanifolds of Rd defined as the zero set of some multivariate multivalued smooth function f:Rd→Rd−n, where n is the intrinsic dimension of the manifold. A natural way to approximate a smooth isomanifold M=f−1(0) is to consider its piecewise linear (PL) approximation M^\r\n based on a triangulation T of the ambient space Rd. In this paper, we describe a simple algorithm to trace isomanifolds from a given starting point. The algorithm works for arbitrary dimensions n and d, and any precision D. Our main result is that, when f (or M) has bounded complexity, the complexity of the algorithm is polynomial in d and δ=1/D (and unavoidably exponential in n). Since it is known that for δ=Ω(d2.5), M^ is O(D2)-close and isotopic to M\r\n, our algorithm produces a faithful PL-approximation of isomanifolds of bounded complexity in time polynomial in d. Combining this algorithm with dimensionality reduction techniques, the dependency on d in the size of M^ can be completely removed with high probability. We also show that the algorithm can handle isomanifolds with boundary and, more generally, isostratifolds. The algorithm for isomanifolds with boundary has been implemented and experimental results are reported, showing that it is practical and can handle cases that are far ahead of the state-of-the-art. "}],"oa":1,"article_processing_charge":"No","date_published":"2023-04-30T00:00:00Z","date_updated":"2023-10-10T07:34:35Z","doi":"10.1137/21M1412918","month":"04","isi":1,"main_file_link":[{"open_access":"1","url":"https://hal-emse.ccsd.cnrs.fr/3IA-COTEDAZUR/hal-04083489v1"}],"acknowledgement":"The authors have received funding from the European Research Council under the European Union's ERC grant greement 339025 GUDHI (Algorithmic Foundations of Geometric Un-derstanding  in  Higher  Dimensions).   The  first  author  was  supported  by  the  French  government,through the 3IA C\\^ote d'Azur Investments in the Future project managed by the National ResearchAgency (ANR) with the reference ANR-19-P3IA-0002.  The third author was supported by the Eu-ropean Union's Horizon 2020 research and innovation programme under the Marie Sk\\lodowska-Curiegrant agreement 754411 and the FWF (Austrian Science Fund) grant M 3073.","department":[{"_id":"HeEd"}]},{"day":"01","language":[{"iso":"eng"}],"year":"2023","_id":"12961","publication":"Developmental Science","pmid":1,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Two notes separated by a doubling in frequency sound similar to humans. This “octave equivalence” is critical to perception and production of music and speech and occurs early in human development. Because it also occurs cross-culturally, a biological basis of octave equivalence has been hypothesized. Members of our team previousy suggested four human traits are at the root of this phenomenon: (1) vocal learning, (2) clear octave information in vocal harmonics, (3) differing vocal ranges, and (4) vocalizing together. Using cross-species studies, we can test how relevant these respective traits are, while controlling for enculturation effects and addressing questions of phylogeny. Common marmosets possess forms of three of the four traits, lacking differing vocal ranges. We tested 11 common marmosets by adapting an established head-turning paradigm, creating a parallel test to an important infant study. Unlike human infants, marmosets responded similarly to tones shifted by an octave or other intervals. Because previous studies with the same head-turning paradigm produced differential results to discernable acoustic stimuli in common marmosets, our results suggest that marmosets do not perceive octave equivalence. Our work suggests differing vocal ranges between adults and children and men and women and the way they are used in singing together may be critical to the development of octave equivalence.","lang":"eng"}],"article_processing_charge":"No","date_published":"2023-09-01T00:00:00Z","date_updated":"2023-10-04T11:37:33Z","doi":"10.1111/desc.13395","month":"09","acknowledgement":"We thank Prof. Dr. Thomas Bugnyar for supporting the study and financing the marmoset laboratory, and Alexandra Bohmann and the animal keeping team for their care. Vedrana Šlipogor was funded by University of South Bohemia postdoctoral fellowship.","department":[{"_id":"SyCr"}],"article_number":"e13395","oa_version":"None","intvolume":"        26","publication_status":"published","quality_controlled":"1","external_id":{"pmid":["37101383"]},"status":"public","publication_identifier":{"issn":["1363-755X"],"eissn":["1467-7687"]},"author":[{"first_name":"Bernhard","full_name":"Wagner, Bernhard","last_name":"Wagner"},{"first_name":"Vedrana","last_name":"Šlipogor","full_name":"Šlipogor, Vedrana"},{"last_name":"Oh","full_name":"Oh, Jinook","orcid":"0000-0001-7425-2372","id":"403169A4-080F-11EA-9993-BF3F3DDC885E","first_name":"Jinook"},{"first_name":"Marion","last_name":"Varga","full_name":"Varga, Marion"},{"first_name":"Marisa","full_name":"Hoeschele, Marisa","last_name":"Hoeschele"}],"title":"A comparison between common marmosets (Callithrix jacchus) and human infants sheds light on traits proposed to be at the root of human octave equivalence","publisher":"Wiley","scopus_import":"1","date_created":"2023-05-14T22:01:00Z","article_type":"original","citation":{"mla":"Wagner, Bernhard, et al. “A Comparison between Common Marmosets (Callithrix Jacchus) and Human Infants Sheds Light on Traits Proposed to Be at the Root of Human Octave Equivalence.” <i>Developmental Science</i>, vol. 26, no. 5, e13395, Wiley, 2023, doi:<a href=\"https://doi.org/10.1111/desc.13395\">10.1111/desc.13395</a>.","apa":"Wagner, B., Šlipogor, V., Oh, J., Varga, M., &#38; Hoeschele, M. (2023). A comparison between common marmosets (Callithrix jacchus) and human infants sheds light on traits proposed to be at the root of human octave equivalence. <i>Developmental Science</i>. Wiley. <a href=\"https://doi.org/10.1111/desc.13395\">https://doi.org/10.1111/desc.13395</a>","short":"B. Wagner, V. Šlipogor, J. Oh, M. Varga, M. Hoeschele, Developmental Science 26 (2023).","ama":"Wagner B, Šlipogor V, Oh J, Varga M, Hoeschele M. A comparison between common marmosets (Callithrix jacchus) and human infants sheds light on traits proposed to be at the root of human octave equivalence. <i>Developmental Science</i>. 2023;26(5). doi:<a href=\"https://doi.org/10.1111/desc.13395\">10.1111/desc.13395</a>","chicago":"Wagner, Bernhard, Vedrana Šlipogor, Jinook Oh, Marion Varga, and Marisa Hoeschele. “A Comparison between Common Marmosets (Callithrix Jacchus) and Human Infants Sheds Light on Traits Proposed to Be at the Root of Human Octave Equivalence.” <i>Developmental Science</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/desc.13395\">https://doi.org/10.1111/desc.13395</a>.","ista":"Wagner B, Šlipogor V, Oh J, Varga M, Hoeschele M. 2023. A comparison between common marmosets (Callithrix jacchus) and human infants sheds light on traits proposed to be at the root of human octave equivalence. Developmental Science. 26(5), e13395.","ieee":"B. Wagner, V. Šlipogor, J. Oh, M. Varga, and M. Hoeschele, “A comparison between common marmosets (Callithrix jacchus) and human infants sheds light on traits proposed to be at the root of human octave equivalence,” <i>Developmental Science</i>, vol. 26, no. 5. Wiley, 2023."},"volume":26,"issue":"5"},{"month":"05","doi":"10.15479/at:ista:12964","file_date_updated":"2023-05-19T07:04:25Z","date_published":"2023-05-17T00:00:00Z","date_updated":"2023-08-04T11:02:40Z","department":[{"_id":"GradSch"},{"_id":"EdHa"}],"supervisor":[{"first_name":"Edouard B","last_name":"Hannezo","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"}],"type":"dissertation","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","day":"17","degree_awarded":"PhD","_id":"12964","page":"146","language":[{"iso":"eng"}],"year":"2023","article_processing_charge":"No","file":[{"date_updated":"2023-05-19T07:04:25Z","file_id":"12988","file_size":40414730,"embargo":"2024-05-17","checksum":"d51240675fc6dc0e3f5dc0c902695d3a","date_created":"2023-05-17T13:39:54Z","creator":"dboocock","access_level":"closed","embargo_to":"open_access","file_name":"thesis_boocock.pdf","relation":"main_file","content_type":"application/pdf"},{"date_updated":"2023-05-17T14:35:13Z","file_id":"12989","file_size":34338567,"checksum":"581a2313ffeb40fe77e8a122a25a7795","date_created":"2023-05-17T13:39:53Z","creator":"dboocock","access_level":"closed","content_type":"application/zip","relation":"source_file","file_name":"thesis_boocock.zip"}],"abstract":[{"lang":"eng","text":"Pattern formation is of great importance for its contribution across different biological behaviours. During developmental processes for example, patterns of chemical gradients are\r\nestablished to determine cell fate and complex tissue patterns emerge to define structures such\r\nas limbs and vascular networks. Patterns are also seen in collectively migrating groups, for\r\ninstance traveling waves of density emerging in moving animal flocks as well as collectively migrating cells and tissues. To what extent these biological patterns arise spontaneously through\r\nthe local interaction of individual constituents or are dictated by higher level instructions is\r\nstill an open question however there is evidence for the involvement of both types of process.\r\nWhere patterns arise spontaneously there is a long standing interest in how far the interplay\r\nof mechanics, e.g. force generation and deformation, and chemistry, e.g. gene regulation\r\nand signaling, contributes to the behaviour. This is because many systems are able to both\r\nchemically regulate mechanical force production and chemically sense mechanical deformation,\r\nforming mechano-chemical feedback loops which can potentially become unstable towards\r\nspatio and/or temporal patterning.\r\nWe work with experimental collaborators to investigate the possibility that this type of\r\ninteraction drives pattern formation in biological systems at different scales. We focus first on\r\ntissue-level ERK-density waves observed during the wound healing response across different\r\nsystems where many previous studies have proposed that patterns depend on polarized cell\r\nmigration and arise from a mechanical flocking-like mechanism. By combining theory with\r\nmechanical and optogenetic perturbation experiments on in vitro monolayers we instead find\r\nevidence for mechanochemical pattern formation involving only scalar bilateral feedbacks\r\nbetween ERK signaling and cell contraction. We perform further modeling and experiment\r\nto study how this instability couples with polar cell migration in order to produce a robust\r\nand efficient wound healing response. In a following chapter we implement ERK-density\r\ncoupling and cell migration in a 2D active vertex model to investigate the interaction of\r\nERK-density patterning with different tissue rheologies and find that the spatio-temporal\r\ndynamics are able to both locally and globally fluidize a tissue across the solid-fluid glass\r\ntransition. In a last chapter we move towards lower spatial scales in the context of subcellular\r\npatterning of the cell cytoskeleton where we investigate the transition between phases of\r\nspatially homogeneous temporal oscillations and chaotic spatio-temporal patterning in the\r\ndynamics of myosin and ROCK activities (a motor component of the actomyosin cytoskeleton\r\nand its activator). Experimental evidence supports an intrinsic chemical oscillator which we\r\nencode in a reaction model and couple to a contractile active gel description of the cell cortex.\r\nThe model exhibits phases of chemical oscillations and contractile spatial patterning which\r\nreproduce many features of the dynamics seen in Drosophila oocyte epithelia in vivo. However,\r\nadditional pharmacological perturbations to inhibit myosin contractility leaves the role of\r\ncontractile instability unclear. We discuss alternative hypotheses and investigate the possibility\r\nof reaction-diffusion instability."}],"alternative_title":["ISTA Thesis"],"project":[{"grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"title":"Mechanochemical pattern formation across biological scales","publisher":"Institute of Science and Technology Austria","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","author":[{"first_name":"Daniel R","full_name":"Boocock, Daniel R","last_name":"Boocock","id":"453AF628-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1585-2631"}],"date_created":"2023-05-15T14:52:36Z","citation":{"ista":"Boocock DR. 2023. Mechanochemical pattern formation across biological scales. Institute of Science and Technology Austria.","ieee":"D. R. Boocock, “Mechanochemical pattern formation across biological scales,” Institute of Science and Technology Austria, 2023.","mla":"Boocock, Daniel R. <i>Mechanochemical Pattern Formation across Biological Scales</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:12964\">10.15479/at:ista:12964</a>.","apa":"Boocock, D. R. (2023). <i>Mechanochemical pattern formation across biological scales</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:12964\">https://doi.org/10.15479/at:ista:12964</a>","short":"D.R. Boocock, Mechanochemical Pattern Formation across Biological Scales, Institute of Science and Technology Austria, 2023.","chicago":"Boocock, Daniel R. “Mechanochemical Pattern Formation across Biological Scales.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:12964\">https://doi.org/10.15479/at:ista:12964</a>.","ama":"Boocock DR. Mechanochemical pattern formation across biological scales. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:12964\">10.15479/at:ista:12964</a>"},"ddc":["530"],"has_accepted_license":"1","publication_status":"published","related_material":{"record":[{"status":"public","id":"8602","relation":"part_of_dissertation"}]},"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","short":"CC BY-NC-SA (4.0)"},"status":"public","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-032-9"]},"ec_funded":1},{"intvolume":"        42","oa_version":"Published Version","has_accepted_license":"1","publication_status":"published","external_id":{"isi":["001000062600033"]},"quality_controlled":"1","status":"public","publication_identifier":{"issn":["1467-8659"]},"ec_funded":1,"tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"author":[{"first_name":"Zhenyuan","orcid":"0000-0001-9200-5690","id":"70f0d7cf-ae65-11ec-a14f-89dfc5505b19","last_name":"Liu","full_name":"Liu, Zhenyuan"},{"first_name":"Michael","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","full_name":"Piovarci, Michael","last_name":"Piovarci"},{"first_name":"Christian","last_name":"Hafner","full_name":"Hafner, Christian","id":"400429CC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Raphael","full_name":"Charrondiere, Raphael","last_name":"Charrondiere","id":"a3a24133-2cc7-11ec-be88-8ddaf6f464b1"},{"first_name":"Bernd","full_name":"Bickel, Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385"}],"project":[{"name":"Perception-Aware Appearance Fabrication","_id":"eb901961-77a9-11ec-83b8-f5c883a62027","grant_number":"M03319"},{"grant_number":"715767","call_identifier":"H2020","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","_id":"24F9549A-B435-11E9-9278-68D0E5697425"}],"title":"Directionality-aware design of embroidery patterns","publisher":"Wiley","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","article_type":"original","date_created":"2023-05-16T08:47:25Z","citation":{"ieee":"Z. Liu, M. Piovarci, C. Hafner, R. Charrondiere, and B. Bickel, “Directionality-aware design of embroidery patterns,” <i>Computer Graphics Forum</i>, vol. 42, no. 2. Wiley, pp. 397–409, 2023.","ista":"Liu Z, Piovarci M, Hafner C, Charrondiere R, Bickel B. 2023. Directionality-aware design of embroidery patterns. Computer Graphics Forum. 42(2), 397–409.","chicago":"Liu, Zhenyuan, Michael Piovarci, Christian Hafner, Raphael Charrondiere, and Bernd Bickel. “Directionality-Aware Design of Embroidery Patterns.” <i>Computer Graphics Forum</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/cgf.14770 \">https://doi.org/10.1111/cgf.14770 </a>.","ama":"Liu Z, Piovarci M, Hafner C, Charrondiere R, Bickel B. Directionality-aware design of embroidery patterns. <i>Computer Graphics Forum</i>. 2023;42(2):397-409. doi:<a href=\"https://doi.org/10.1111/cgf.14770 \">10.1111/cgf.14770 </a>","short":"Z. Liu, M. Piovarci, C. Hafner, R. Charrondiere, B. Bickel, Computer Graphics Forum 42 (2023) 397–409.","apa":"Liu, Z., Piovarci, M., Hafner, C., Charrondiere, R., &#38; Bickel, B. (2023). Directionality-aware design of embroidery patterns. <i>Computer Graphics Forum</i>. Saarbrucken, Germany: Wiley. <a href=\"https://doi.org/10.1111/cgf.14770 \">https://doi.org/10.1111/cgf.14770 </a>","mla":"Liu, Zhenyuan, et al. “Directionality-Aware Design of Embroidery Patterns.” <i>Computer Graphics Forum</i>, vol. 42, no. 2, Wiley, 2023, pp. 397–409, doi:<a href=\"https://doi.org/10.1111/cgf.14770 \">10.1111/cgf.14770 </a>."},"volume":42,"ddc":["004"],"issue":"2","day":"08","publication":"Computer Graphics Forum","_id":"12972","conference":{"name":"EG: Eurographics","start_date":"2023-05-08","end_date":"2023-05-12","location":"Saarbrucken, Germany"},"language":[{"iso":"eng"}],"page":"397-409","year":"2023","keyword":["embroidery","design","directionality","density","image"],"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"abstract":[{"lang":"eng","text":"Embroidery is a long-standing and high-quality approach to making logos and images on textiles. Nowadays, it can also be performed via automated machines that weave threads with high spatial accuracy. A characteristic feature of the appearance of the threads is a high degree of anisotropy. The anisotropic behavior is caused by depositing thin but long strings of thread. As a result, the stitched patterns convey both color and direction. Artists leverage this anisotropic behavior to enhance pure color images with textures, illusions of motion, or depth cues. However, designing colorful embroidery patterns with prescribed directionality is a challenging task, one usually requiring an expert designer. In this work, we propose an interactive algorithm that generates machine-fabricable embroidery patterns from multi-chromatic images equipped with user-specified directionality fields.We cast the problem of finding a stitching pattern into vector theory. To find a suitable stitching pattern, we extract sources and sinks from the divergence field of the vector field extracted from the input and use them to trace streamlines. We further optimize the streamlines to guarantee a smooth and connected stitching pattern. The generated patterns approximate the color distribution constrained by the directionality field. To allow for further artistic control, the trade-off between color match and directionality match can be interactively explored via an intuitive slider. We showcase our approach by fabricating several embroidery paths."}],"article_processing_charge":"No","file":[{"checksum":"4c188c2be4745467a8790bbf5d6491aa","date_created":"2023-05-16T08:28:37Z","creator":"mpiovarc","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_name":"Zhenyuan2023.pdf","date_updated":"2023-05-16T08:28:37Z","file_id":"12974","file_size":24003702,"success":1}],"date_published":"2023-05-08T00:00:00Z","date_updated":"2023-08-01T14:47:05Z","doi":"10.1111/cgf.14770 ","month":"05","file_date_updated":"2023-05-16T08:28:37Z","isi":1,"acknowledgement":"This work was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement No 715767 – MATERIALIZABLE), and FWF Lise Meitner (Grant M 3319). We thank the anonymous reviewers for their insightful feedback; Solal Pirelli, Shardul Chiplunkar, and Paola Mejia for proofreading; everyone in the visual computing group at ISTA for inspiring lunch and coffee breaks; Thibault Tricard for help producing the results of Phasor Noise.","department":[{"_id":"BeBi"}]},{"date_created":"2023-05-16T09:14:09Z","scopus_import":"1","citation":{"mla":"Liao, Kang, et al. “Learning Deposition Policies for Fused Multi-Material 3D Printing.” <i>2023 IEEE International Conference on Robotics and Automation</i>, vol. 2023, IEEE, 2023, pp. 12345–52, doi:<a href=\"https://doi.org/10.1109/ICRA48891.2023.10160465\">10.1109/ICRA48891.2023.10160465</a>.","short":"K. Liao, T. Tricard, M. Piovarci, H.-P. Seidel, V. Babaei, in:, 2023 IEEE International Conference on Robotics and Automation, IEEE, 2023, pp. 12345–12352.","apa":"Liao, K., Tricard, T., Piovarci, M., Seidel, H.-P., &#38; Babaei, V. (2023). Learning deposition policies for fused multi-material 3D printing. In <i>2023 IEEE International Conference on Robotics and Automation</i> (Vol. 2023, pp. 12345–12352). London, United Kingdom: IEEE. <a href=\"https://doi.org/10.1109/ICRA48891.2023.10160465\">https://doi.org/10.1109/ICRA48891.2023.10160465</a>","chicago":"Liao, Kang, Thibault Tricard, Michael Piovarci, Hans-Peter Seidel, and Vahid Babaei. “Learning Deposition Policies for Fused Multi-Material 3D Printing.” In <i>2023 IEEE International Conference on Robotics and Automation</i>, 2023:12345–52. IEEE, 2023. <a href=\"https://doi.org/10.1109/ICRA48891.2023.10160465\">https://doi.org/10.1109/ICRA48891.2023.10160465</a>.","ama":"Liao K, Tricard T, Piovarci M, Seidel H-P, Babaei V. Learning deposition policies for fused multi-material 3D printing. In: <i>2023 IEEE International Conference on Robotics and Automation</i>. Vol 2023. IEEE; 2023:12345-12352. doi:<a href=\"https://doi.org/10.1109/ICRA48891.2023.10160465\">10.1109/ICRA48891.2023.10160465</a>","ista":"Liao K, Tricard T, Piovarci M, Seidel H-P, Babaei V. 2023. Learning deposition policies for fused multi-material 3D printing. 2023 IEEE International Conference on Robotics and Automation. ICRA: International Conference on Robotics and Automation vol. 2023, 12345–12352.","ieee":"K. Liao, T. Tricard, M. Piovarci, H.-P. Seidel, and V. Babaei, “Learning deposition policies for fused multi-material 3D printing,” in <i>2023 IEEE International Conference on Robotics and Automation</i>, London, United Kingdom, 2023, vol. 2023, pp. 12345–12352."},"volume":2023,"ddc":["004"],"project":[{"grant_number":"M03319","_id":"eb901961-77a9-11ec-83b8-f5c883a62027","name":"Perception-Aware Appearance Fabrication"}],"publisher":"IEEE","title":"Learning deposition policies for fused multi-material 3D printing","author":[{"first_name":"Kang","last_name":"Liao","full_name":"Liao, Kang"},{"last_name":"Tricard","full_name":"Tricard, Thibault","first_name":"Thibault"},{"first_name":"Michael","orcid":"0000-0002-5062-4474","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","last_name":"Piovarci","full_name":"Piovarci, Michael"},{"first_name":"Hans-Peter","last_name":"Seidel","full_name":"Seidel, Hans-Peter"},{"last_name":"Babaei","full_name":"Babaei, Vahid","first_name":"Vahid"}],"status":"public","publication_identifier":{"eisbn":["9798350323658"],"issn":["1050-4729"]},"has_accepted_license":"1","publication_status":"published","quality_controlled":"1","external_id":{"isi":["001048371104068"]},"intvolume":"      2023","oa_version":"Submitted Version","department":[{"_id":"BeBi"}],"acknowledgement":"This work is graciously supported by FWF Lise Meitner (Grant M 3319). Kang Liao sincerely thank Emiliano Luci, Chunyu Lin, and Yao Zhao for their huge support.","doi":"10.1109/ICRA48891.2023.10160465","month":"07","file_date_updated":"2023-05-16T09:12:05Z","isi":1,"date_updated":"2023-12-13T11:20:00Z","date_published":"2023-07-04T00:00:00Z","article_processing_charge":"No","file":[{"file_size":5367986,"success":1,"date_updated":"2023-05-16T09:12:05Z","file_id":"12977","access_level":"open_access","file_name":"Liao2023.pdf","relation":"main_file","content_type":"application/pdf","checksum":"daeaa67124777d88487f933ea3f77164","date_created":"2023-05-16T09:12:05Z","creator":"mpiovarc"}],"oa":1,"abstract":[{"text":"3D printing based on continuous deposition of materials, such as filament-based 3D printing, has seen widespread adoption thanks to its versatility in working with a wide range of materials. An important shortcoming of this type of technology is its limited multi-material capabilities. While there are simple hardware designs that enable multi-material printing in principle, the required software is heavily underdeveloped. A typical hardware design fuses together individual materials fed into a single chamber from multiple inlets before they are deposited. This design, however, introduces a time delay between the intended material mixture and its actual deposition. In this work, inspired by diverse path planning research in robotics, we show that this mechanical challenge can be addressed via improved printer control. We propose to formulate the search for optimal multi-material printing policies in a reinforcement\r\nlearning setup. We put forward a simple numerical deposition model that takes into account the non-linear material mixing and delayed material deposition. To validate our system we focus on color fabrication, a problem known for its strict requirements for varying material mixtures at a high spatial frequency. We demonstrate that our learned control policy outperforms state-of-the-art hand-crafted algorithms.","lang":"eng"}],"type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"04","_id":"12976","conference":{"end_date":"2023-06-02","location":"London, United Kingdom","name":"ICRA: International Conference on Robotics and Automation","start_date":"2023-05-29"},"publication":"2023 IEEE International Conference on Robotics and Automation","year":"2023","page":"12345-12352","keyword":["reinforcement learning","deposition","control","color","multi-filament"],"language":[{"iso":"eng"}]},{"day":"23","_id":"12979","conference":{"start_date":"2023-08-06","name":"SIGGRAPH: Computer Graphics and Interactive Techniques Conference","location":"Los Angeles, CA, United States","end_date":"2023-08-10"},"publication":"SIGGRAPH ’23 Conference Proceedings","year":"2023","language":[{"iso":"eng"}],"keyword":["color","gloss","perception","color compensation","color management"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","oa":1,"abstract":[{"lang":"eng","text":"Color and gloss are fundamental aspects of surface appearance. State-of-the-art fabrication techniques can manipulate both properties of the printed 3D objects. However, in the context of appearance reproduction, perceptual aspects of color and gloss are usually handled separately, even though previous perceptual studies suggest their interaction. Our work is motivated by previous studies demonstrating a perceived color shift due to a change in the object's gloss, i.e., two samples with the same color but different surface gloss appear as they have different colors. In this paper, we conduct new experiments which support this observation and provide insights into the magnitude and direction of the perceived color change. We use the observations as guidance to design a new method that estimates and corrects the color shift enabling the fabrication of objects with the same perceived color but different surface gloss. We formulate the problem as an optimization procedure solved using differentiable rendering. We evaluate the effectiveness of our method in perceptual experiments with 3D objects fabricated using a multi-material 3D printer and demonstrate potential applications. "}],"article_processing_charge":"No","file":[{"file_size":42323971,"success":1,"date_updated":"2023-05-16T09:32:50Z","file_id":"12983","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_name":"Condor2023_supplemental.pdf","date_created":"2023-05-16T09:32:50Z","checksum":"84a437739af5d46507928939b20c0c28","creator":"mpiovarc"},{"file_name":"2023_Siggraph_Condor.pdf","relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"0f5c8b242e8e7c153c04888c4d0c6f37","date_created":"2024-01-29T10:14:10Z","success":1,"file_size":26079404,"file_id":"14893","date_updated":"2024-01-29T10:14:10Z"}],"date_published":"2023-07-23T00:00:00Z","date_updated":"2024-02-28T12:52:04Z","month":"07","doi":"10.1145/3588432.3591546","file_date_updated":"2024-01-29T10:14:10Z","isi":1,"acknowledgement":"We thank Matthew S Zurawski for the 3D model of the car speed shape. This research has been supported by the Swiss National Science Foundation (SNSF, Grant 200502) and the FWF Lise Meitner (Grant M 3319).","department":[{"_id":"BeBi"}],"article_number":"21","oa_version":"Published Version","has_accepted_license":"1","publication_status":"published","quality_controlled":"1","external_id":{"isi":["001117690500021"]},"status":"public","publication_identifier":{"isbn":["9798400701597"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"first_name":"Jorge","full_name":"Condor, Jorge","last_name":"Condor"},{"first_name":"Michael","orcid":"0000-0002-5062-4474","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","last_name":"Piovarci","full_name":"Piovarci, Michael"},{"last_name":"Bickel","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","first_name":"Bernd"},{"full_name":"Didyk, Piotr","last_name":"Didyk","first_name":"Piotr"}],"project":[{"grant_number":"M03319","_id":"eb901961-77a9-11ec-83b8-f5c883a62027","name":"Perception-Aware Appearance Fabrication"}],"publisher":"Association for Computing Machinery","title":"Gloss-aware color correction for 3D printing","date_created":"2023-05-16T09:34:13Z","citation":{"chicago":"Condor, Jorge, Michael Piovarci, Bernd Bickel, and Piotr Didyk. “Gloss-Aware Color Correction for 3D Printing.” In <i>SIGGRAPH ’23 Conference Proceedings</i>. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3588432.3591546\">https://doi.org/10.1145/3588432.3591546</a>.","ama":"Condor J, Piovarci M, Bickel B, Didyk P. Gloss-aware color correction for 3D printing. In: <i>SIGGRAPH ’23 Conference Proceedings</i>. Association for Computing Machinery; 2023. doi:<a href=\"https://doi.org/10.1145/3588432.3591546\">10.1145/3588432.3591546</a>","mla":"Condor, Jorge, et al. “Gloss-Aware Color Correction for 3D Printing.” <i>SIGGRAPH ’23 Conference Proceedings</i>, 21, Association for Computing Machinery, 2023, doi:<a href=\"https://doi.org/10.1145/3588432.3591546\">10.1145/3588432.3591546</a>.","short":"J. Condor, M. Piovarci, B. Bickel, P. Didyk, in:, SIGGRAPH ’23 Conference Proceedings, Association for Computing Machinery, 2023.","apa":"Condor, J., Piovarci, M., Bickel, B., &#38; Didyk, P. (2023). Gloss-aware color correction for 3D printing. In <i>SIGGRAPH ’23 Conference Proceedings</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3588432.3591546\">https://doi.org/10.1145/3588432.3591546</a>","ieee":"J. Condor, M. Piovarci, B. Bickel, and P. Didyk, “Gloss-aware color correction for 3D printing,” in <i>SIGGRAPH ’23 Conference Proceedings</i>, Los Angeles, CA, United States, 2023.","ista":"Condor J, Piovarci M, Bickel B, Didyk P. 2023. Gloss-aware color correction for 3D printing. SIGGRAPH ’23 Conference Proceedings. SIGGRAPH: Computer Graphics and Interactive Techniques Conference, 21."},"ddc":["004"]},{"author":[{"first_name":"Michael","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","orcid":"0000-0002-5062-4474","full_name":"Piovarci, Michael","last_name":"Piovarci"},{"full_name":"Chapiro, Alexandre","last_name":"Chapiro","first_name":"Alexandre"},{"last_name":"Bickel","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","first_name":"Bernd"}],"project":[{"grant_number":"M03319","_id":"eb901961-77a9-11ec-83b8-f5c883a62027","name":"Perception-Aware Appearance Fabrication"}],"title":"Skin-Screen: A computational fabrication framework for color tattoos","publisher":"Association for Computing Machinery","article_type":"original","date_created":"2023-05-16T09:39:14Z","citation":{"ieee":"M. Piovarci, A. Chapiro, and B. Bickel, “Skin-Screen: A computational fabrication framework for color tattoos,” <i>Transactions on Graphics</i>, vol. 42, no. 4. Association for Computing Machinery, 2023.","ista":"Piovarci M, Chapiro A, Bickel B. 2023. Skin-Screen: A computational fabrication framework for color tattoos. Transactions on Graphics. 42(4), 67.","chicago":"Piovarci, Michael, Alexandre Chapiro, and Bernd Bickel. “Skin-Screen: A Computational Fabrication Framework for Color Tattoos.” <i>Transactions on Graphics</i>. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3592432\">https://doi.org/10.1145/3592432</a>.","ama":"Piovarci M, Chapiro A, Bickel B. Skin-Screen: A computational fabrication framework for color tattoos. <i>Transactions on Graphics</i>. 2023;42(4). doi:<a href=\"https://doi.org/10.1145/3592432\">10.1145/3592432</a>","apa":"Piovarci, M., Chapiro, A., &#38; Bickel, B. (2023). Skin-Screen: A computational fabrication framework for color tattoos. <i>Transactions on Graphics</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3592432\">https://doi.org/10.1145/3592432</a>","short":"M. Piovarci, A. Chapiro, B. Bickel, Transactions on Graphics 42 (2023).","mla":"Piovarci, Michael, et al. “Skin-Screen: A Computational Fabrication Framework for Color Tattoos.” <i>Transactions on Graphics</i>, vol. 42, no. 4, 67, Association for Computing Machinery, 2023, doi:<a href=\"https://doi.org/10.1145/3592432\">10.1145/3592432</a>."},"volume":42,"ddc":["004"],"issue":"4","intvolume":"        42","oa_version":"Submitted Version","has_accepted_license":"1","publication_status":"published","external_id":{"isi":["001044671300033"]},"quality_controlled":"1","status":"public","publication_identifier":{"eissn":["1557-7368"],"issn":["0730-0301"]},"acknowledged_ssus":[{"_id":"M-Shop"}],"date_updated":"2024-01-29T10:27:23Z","date_published":"2023-07-26T00:00:00Z","month":"07","doi":"10.1145/3592432","file_date_updated":"2023-05-16T09:38:25Z","isi":1,"acknowledgement":"We thank Todor Asenov and the Miba Machine Shop for their help in assembling the tattoo machine and manufacturing the substrates. We thank Geysler Rodrigues for the insightful discussions on tattooing practices from a professional artist's perspective. We thank Maria Fernanda Portugal for sharing a doctor's perspective on medical applications of tattoos. This work is graciously supported by the FWF Lise Meitner (Grant M 3319).","department":[{"_id":"BeBi"}],"article_number":"67","day":"26","_id":"12984","publication":"Transactions on Graphics","conference":{"end_date":"2023-08-10","location":"Los Angeles, CA, United States","name":"SIGGRAPH: Computer Graphics and Interactive Techniques Conference","start_date":"2023-08-06"},"year":"2023","language":[{"iso":"eng"}],"keyword":["appearance","modeling","reproduction","tattoo","skin color","gamut mapping","ink-optimization","prosthetic"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","oa":1,"abstract":[{"text":"Tattoos are a highly popular medium, with both artistic and medical applications. Although the mechanical process of tattoo application has evolved historically, the results are reliant on the artisanal skill of the artist. This can be especially challenging for some skin tones, or in cases where artists lack experience. We provide the first systematic overview of tattooing as a computational fabrication technique. We built an automated tattooing rig and a recipe for the creation of silicone sheets mimicking realistic skin tones, which allowed us to create an accurate model predicting tattoo appearance. This enables several exciting applications including tattoo previewing, color retargeting, novel ink spectra optimization, color-accurate prosthetics, and more.","lang":"eng"}],"article_processing_charge":"No","file":[{"relation":"main_file","content_type":"application/pdf","file_name":"Piovarci2023.pdf","access_level":"open_access","creator":"mpiovarc","date_created":"2023-05-16T09:38:25Z","checksum":"5f0a6867689e025a661bd0b4fd90b821","success":1,"file_size":30817343,"file_id":"12985","date_updated":"2023-05-16T09:38:25Z"}]},{"publication_identifier":{"issn":["2045-2322"]},"status":"public","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","intvolume":"        13","related_material":{"link":[{"url":"https://doi.org/10.1038/s41598-023-37265-z","relation":"erratum"}]},"external_id":{"isi":["000995271600104"]},"quality_controlled":"1","publication_status":"published","has_accepted_license":"1","ddc":["570"],"volume":13,"citation":{"apa":"Zavadakova, A., Vistejnova, L., Belinova, T., Tichanek, F., Bilikova, D., &#38; Mouton, P. R. (2023). Novel stereological method for estimation of cell counts in 3D collagen scaffolds. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-023-35162-z\">https://doi.org/10.1038/s41598-023-35162-z</a>","mla":"Zavadakova, Anna, et al. “Novel Stereological Method for Estimation of Cell Counts in 3D Collagen Scaffolds.” <i>Scientific Reports</i>, vol. 13, no. 1, 7959, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41598-023-35162-z\">10.1038/s41598-023-35162-z</a>.","short":"A. Zavadakova, L. Vistejnova, T. Belinova, F. Tichanek, D. Bilikova, P.R. Mouton, Scientific Reports 13 (2023).","chicago":"Zavadakova, Anna, Lucie Vistejnova, Tereza Belinova, Filip Tichanek, Dagmar Bilikova, and Peter R. Mouton. “Novel Stereological Method for Estimation of Cell Counts in 3D Collagen Scaffolds.” <i>Scientific Reports</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41598-023-35162-z\">https://doi.org/10.1038/s41598-023-35162-z</a>.","ama":"Zavadakova A, Vistejnova L, Belinova T, Tichanek F, Bilikova D, Mouton PR. Novel stereological method for estimation of cell counts in 3D collagen scaffolds. <i>Scientific Reports</i>. 2023;13(1). doi:<a href=\"https://doi.org/10.1038/s41598-023-35162-z\">10.1038/s41598-023-35162-z</a>","ista":"Zavadakova A, Vistejnova L, Belinova T, Tichanek F, Bilikova D, Mouton PR. 2023. Novel stereological method for estimation of cell counts in 3D collagen scaffolds. Scientific Reports. 13(1), 7959.","ieee":"A. Zavadakova, L. Vistejnova, T. Belinova, F. Tichanek, D. Bilikova, and P. R. Mouton, “Novel stereological method for estimation of cell counts in 3D collagen scaffolds,” <i>Scientific Reports</i>, vol. 13, no. 1. Springer Nature, 2023."},"scopus_import":"1","date_created":"2023-05-19T11:12:25Z","article_type":"original","issue":"1","author":[{"first_name":"Anna","last_name":"Zavadakova","full_name":"Zavadakova, Anna"},{"full_name":"Vistejnova, Lucie","last_name":"Vistejnova","first_name":"Lucie"},{"first_name":"Tereza","id":"0bf89b6a-d28b-11eb-8bd6-f43768e4d368","last_name":"Belinova","full_name":"Belinova, Tereza"},{"full_name":"Tichanek, Filip","last_name":"Tichanek","first_name":"Filip"},{"full_name":"Bilikova, Dagmar","last_name":"Bilikova","first_name":"Dagmar"},{"full_name":"Mouton, Peter R.","last_name":"Mouton","first_name":"Peter R."}],"publisher":"Springer Nature","title":"Novel stereological method for estimation of cell counts in 3D collagen scaffolds","abstract":[{"text":"Current methods for assessing cell proliferation in 3D scaffolds rely on changes in metabolic activity or total DNA, however, direct quantification of cell number in 3D scaffolds remains a challenge. To address this issue, we developed an unbiased stereology approach that uses systematic-random sampling and thin focal-plane optical sectioning of the scaffolds followed by estimation of total cell number (StereoCount). This approach was validated against an indirect method for measuring the total DNA (DNA content); and the Bürker counting chamber, the current reference method for quantifying cell number. We assessed the total cell number for cell seeding density (cells per unit volume) across four values and compared the methods in terms of accuracy, ease-of-use and time demands. The accuracy of StereoCount markedly outperformed the DNA content for cases with ~ 10,000 and ~ 125,000 cells/scaffold. For cases with ~ 250,000 and ~ 375,000 cells/scaffold both StereoCount and DNA content showed lower accuracy than the Bürker but did not differ from each other. In terms of ease-of-use, there was a strong advantage for the StereoCount due to output in terms of absolute cell numbers along with the possibility for an overview of cell distribution and future use of automation for high throughput analysis. Taking together, the StereoCount method is an efficient approach for direct cell quantification in 3D collagen scaffolds. Its major benefit is that automated StereoCount could accelerate research using 3D scaffolds focused on drug discovery for a wide variety of human diseases.","lang":"eng"}],"oa":1,"article_processing_charge":"No","file":[{"relation":"main_file","content_type":"application/pdf","file_name":"2023_ScientificReports_Zavadakova.pdf","access_level":"open_access","creator":"dernst","date_created":"2023-05-22T07:57:37Z","checksum":"8c1b769693ff4288df8376e59ad1176d","success":1,"file_size":3055077,"file_id":"13047","date_updated":"2023-05-22T07:57:37Z"}],"year":"2023","language":[{"iso":"eng"}],"keyword":["Multidisciplinary"],"publication":"Scientific Reports","_id":"13033","day":"17","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledgement":"The study was supported by Project No. CZ.02.1.01/0.0/0.0/16_019/0000787 “Fighting INfectious Diseases”, awarded by the MEYS CR, financed from EFRR, by the Cooperatio Program, research area DIAG and research area MED/DIAG, by the profiBONE project (TO01000309) benefitting from a € (1.433.000) grant from Iceland, Liechtenstein and Norway through the EEA Grants and the Technology Agency of the Czech Republic and by a Grant (#1926990) to PRM and SRC Biosciences from the National Science Foundation (U.S. Public Health Service). The authors acknowledge the invaluable assistance provided by Iveta Paurova via her support in terms of the provision of laboratory services.","article_number":"7959","department":[{"_id":"Bio"}],"date_updated":"2023-08-01T14:46:06Z","date_published":"2023-05-17T00:00:00Z","isi":1,"file_date_updated":"2023-05-22T07:57:37Z","month":"05","doi":"10.1038/s41598-023-35162-z"},{"author":[{"last_name":"French","full_name":"French, Martin","first_name":"Martin"},{"first_name":"Mandy","last_name":"Bethkenhagen","full_name":"Bethkenhagen, Mandy","orcid":"0000-0002-1838-2129","id":"201939f4-803f-11ed-ab7e-d8da4bd1517f"},{"first_name":"Alessandra","last_name":"Ravasio","full_name":"Ravasio, Alessandra"},{"last_name":"Hernandez","full_name":"Hernandez, Jean Alexis","first_name":"Jean Alexis"}],"publisher":"American Physical Society","title":"Ab initio calculation of the reflectivity of molecular fluids under shock compression","scopus_import":"1","date_created":"2023-05-21T22:01:04Z","article_type":"original","volume":107,"citation":{"ista":"French M, Bethkenhagen M, Ravasio A, Hernandez JA. 2023. Ab initio calculation of the reflectivity of molecular fluids under shock compression. Physical Review B. 107(13), 134109.","ieee":"M. French, M. Bethkenhagen, A. Ravasio, and J. A. Hernandez, “Ab initio calculation of the reflectivity of molecular fluids under shock compression,” <i>Physical Review B</i>, vol. 107, no. 13. American Physical Society, 2023.","short":"M. French, M. Bethkenhagen, A. Ravasio, J.A. Hernandez, Physical Review B 107 (2023).","apa":"French, M., Bethkenhagen, M., Ravasio, A., &#38; Hernandez, J. A. (2023). Ab initio calculation of the reflectivity of molecular fluids under shock compression. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.107.134109\">https://doi.org/10.1103/PhysRevB.107.134109</a>","mla":"French, Martin, et al. “Ab Initio Calculation of the Reflectivity of Molecular Fluids under Shock Compression.” <i>Physical Review B</i>, vol. 107, no. 13, 134109, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevB.107.134109\">10.1103/PhysRevB.107.134109</a>.","ama":"French M, Bethkenhagen M, Ravasio A, Hernandez JA. Ab initio calculation of the reflectivity of molecular fluids under shock compression. <i>Physical Review B</i>. 2023;107(13). doi:<a href=\"https://doi.org/10.1103/PhysRevB.107.134109\">10.1103/PhysRevB.107.134109</a>","chicago":"French, Martin, Mandy Bethkenhagen, Alessandra Ravasio, and Jean Alexis Hernandez. “Ab Initio Calculation of the Reflectivity of Molecular Fluids under Shock Compression.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevB.107.134109\">https://doi.org/10.1103/PhysRevB.107.134109</a>."},"issue":"13","oa_version":"None","intvolume":"       107","publication_status":"published","external_id":{"isi":["000974672600001"]},"quality_controlled":"1","status":"public","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"date_updated":"2023-08-01T14:45:25Z","date_published":"2023-04-01T00:00:00Z","isi":1,"month":"04","doi":"10.1103/PhysRevB.107.134109","acknowledgement":"We thank R. Redmer for helpful discussions. M.F. acknowledges support by the Deutsche Forschungsgemeinschaft (DFG) within the FOR 2440. M.B. gratefully acknowledges support by the European Horizon 2020 programme within the Marie Skłodowska-Curie actions (xICE Grant No. 894725) and the NOMIS foundation. A.R. and J.-A.H. acknowledge support form the French National Research Agency (ANR) through the projects POMPEI (Grant No. ANR-16-CE31-0008) and SUPER-ICES (Grant No. ANR-15-CE30-008-01). The ab initio calculations were performed at the NorthGerman Supercomputing Alliance (HLRN) facilities. ","department":[{"_id":"BiCh"}],"article_number":"134109","day":"01","year":"2023","language":[{"iso":"eng"}],"_id":"13039","publication":"Physical Review B","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","abstract":[{"text":"We calculate reflectivities of dynamically compressed water, water-ethanol mixtures, and ammonia at infrared and optical wavelengths with density functional theory and molecular dynamics simulations. The influence of the exchange-correlation functional on the results is examined in detail. Our findings indicate that the consistent use of the HSE hybrid functional reproduces experimental results much better than the commonly used PBE functional. The HSE functional offers not only a more accurate description of the electronic band gap but also shifts the onset of molecular dissociation in the molecular dynamics simulations to significantly higher pressures. We also highlight the importance of using accurate reference standards in reflectivity experiments and reanalyze infrared and optical reflectivity data from recent experiments. Thus, our combined theoretical and experimental work explains and resolves lingering discrepancies between calculations and measurements for the investigated molecular substances under shock compression.","lang":"eng"}],"article_processing_charge":"No"},{"author":[{"full_name":"Farag, Nadia L.","last_name":"Farag","first_name":"Nadia L."},{"last_name":"Jethwa","full_name":"Jethwa, Rajesh B","orcid":"0000-0002-0404-4356","id":"4cc538d5-803f-11ed-ab7e-8139573aad8f","first_name":"Rajesh B"},{"first_name":"Alice E.","full_name":"Beardmore, Alice E.","last_name":"Beardmore"},{"first_name":"Teresa","full_name":"Insinna, Teresa","last_name":"Insinna"},{"first_name":"Christopher A.","last_name":"O'Keefe","full_name":"O'Keefe, Christopher A."},{"full_name":"Klusener, Peter A.A.","last_name":"Klusener","first_name":"Peter A.A."},{"full_name":"Grey, Clare P.","last_name":"Grey","first_name":"Clare P."},{"last_name":"Wright","full_name":"Wright, Dominic S.","first_name":"Dominic S."}],"publisher":"Wiley","title":"Triarylamines as catholytes in aqueous organic redox flow batteries","date_created":"2023-05-21T22:01:05Z","scopus_import":"1","article_type":"original","ddc":["540"],"citation":{"ieee":"N. L. Farag <i>et al.</i>, “Triarylamines as catholytes in aqueous organic redox flow batteries,” <i>ChemSusChem</i>, vol. 16, no. 13. Wiley, 2023.","ista":"Farag NL, Jethwa RB, Beardmore AE, Insinna T, O’Keefe CA, Klusener PAA, Grey CP, Wright DS. 2023. Triarylamines as catholytes in aqueous organic redox flow batteries. ChemSusChem. 16(13), e202300128.","ama":"Farag NL, Jethwa RB, Beardmore AE, et al. Triarylamines as catholytes in aqueous organic redox flow batteries. <i>ChemSusChem</i>. 2023;16(13). doi:<a href=\"https://doi.org/10.1002/cssc.202300128\">10.1002/cssc.202300128</a>","chicago":"Farag, Nadia L., Rajesh B Jethwa, Alice E. Beardmore, Teresa Insinna, Christopher A. O’Keefe, Peter A.A. Klusener, Clare P. Grey, and Dominic S. Wright. “Triarylamines as Catholytes in Aqueous Organic Redox Flow Batteries.” <i>ChemSusChem</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/cssc.202300128\">https://doi.org/10.1002/cssc.202300128</a>.","short":"N.L. Farag, R.B. Jethwa, A.E. Beardmore, T. Insinna, C.A. O’Keefe, P.A.A. Klusener, C.P. Grey, D.S. Wright, ChemSusChem 16 (2023).","mla":"Farag, Nadia L., et al. “Triarylamines as Catholytes in Aqueous Organic Redox Flow Batteries.” <i>ChemSusChem</i>, vol. 16, no. 13, e202300128, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/cssc.202300128\">10.1002/cssc.202300128</a>.","apa":"Farag, N. L., Jethwa, R. B., Beardmore, A. E., Insinna, T., O’Keefe, C. A., Klusener, P. A. A., … Wright, D. S. (2023). Triarylamines as catholytes in aqueous organic redox flow batteries. <i>ChemSusChem</i>. Wiley. <a href=\"https://doi.org/10.1002/cssc.202300128\">https://doi.org/10.1002/cssc.202300128</a>"},"volume":16,"issue":"13","oa_version":"Published Version","intvolume":"        16","publication_status":"published","has_accepted_license":"1","external_id":{"isi":["000985051300001"],"pmid":["36970847"]},"quality_controlled":"1","status":"public","publication_identifier":{"issn":["1864-5631"],"eissn":["1864-564X"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2023-07-06T00:00:00Z","date_updated":"2023-11-14T11:28:23Z","file_date_updated":"2023-11-14T11:27:16Z","isi":1,"doi":"10.1002/cssc.202300128","month":"07","acknowledgement":"The authors (N.L.F and R.B.J) would like to acknowledge the funding contributions of Shell and the EPRSC via I–Case studentships (grants no. EP/V519662/1 and EP/R511870/1 respectively). T.I would like to thank the ERC advanced Investigator Grant for CPG (EC H2020 835073). Thank you to Zhen Wang from the University of Cambridge for measuring GPC, the Yusuf Hamied Department of Chemistry's mass spectrometry service for MS measurements and analysis and Dr Andrew Bond from the University of Cambridge for XRD measurement and analysis.","department":[{"_id":"StFr"}],"article_number":"e202300128","day":"06","year":"2023","language":[{"iso":"eng"}],"publication":"ChemSusChem","_id":"13041","pmid":1,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"abstract":[{"text":"A series of triarylamines was synthesised and screened for their suitability as catholytes in redox flow batteries using cyclic voltammetry (CV). Tris(4-aminophenyl)amine was found to be the strongest candidate. Solubility and initial electrochemical performance were promising; however, polymerisation was observed during electrochemical cycling leading to rapid capacity fade prescribed to a loss of accessible active material and the limitation of ion transport processes within the cell. A mixed electrolyte system of H3PO4 and HCl was found to inhibit polymerisation producing oligomers that consumed less active material reducing rates of degradation in the redox flow battery. Under these conditions Coulombic efficiency improved by over 4 %, the maximum number of cycles more than quadrupled and an additional theoretical capacity of 20 % was accessed. This paper is, to our knowledge, the first example of triarylamines as catholytes in all-aqueous redox flow batteries and emphasises the impact supporting electrolytes can have on electrochemical performance.","lang":"eng"}],"file":[{"checksum":"efa0713289995af83a2147b3e8e1d6a6","date_created":"2023-11-14T11:27:16Z","creator":"dernst","access_level":"open_access","file_name":"2023_ChemSusChem_Farag.pdf","content_type":"application/pdf","relation":"main_file","date_updated":"2023-11-14T11:27:16Z","file_id":"14532","file_size":1168683,"success":1}],"article_processing_charge":"Yes (in subscription journal)"},{"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_identifier":{"eissn":["1077-8926"]},"status":"public","quality_controlled":"1","external_id":{"arxiv":["2105.13828"],"isi":["000988285500001"]},"has_accepted_license":"1","publication_status":"published","intvolume":"        30","oa_version":"Published Version","issue":"2","citation":{"ama":"Anastos M. A note on long cycles in sparse random graphs. <i>Electronic Journal of Combinatorics</i>. 2023;30(2). doi:<a href=\"https://doi.org/10.37236/11471\">10.37236/11471</a>","chicago":"Anastos, Michael. “A Note on Long Cycles in Sparse Random Graphs.” <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics, 2023. <a href=\"https://doi.org/10.37236/11471\">https://doi.org/10.37236/11471</a>.","short":"M. Anastos, Electronic Journal of Combinatorics 30 (2023).","mla":"Anastos, Michael. “A Note on Long Cycles in Sparse Random Graphs.” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 2, P2.21, Electronic Journal of Combinatorics, 2023, doi:<a href=\"https://doi.org/10.37236/11471\">10.37236/11471</a>.","apa":"Anastos, M. (2023). A note on long cycles in sparse random graphs. <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics. <a href=\"https://doi.org/10.37236/11471\">https://doi.org/10.37236/11471</a>","ieee":"M. Anastos, “A note on long cycles in sparse random graphs,” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 2. Electronic Journal of Combinatorics, 2023.","ista":"Anastos M. 2023. A note on long cycles in sparse random graphs. Electronic Journal of Combinatorics. 30(2), P2.21."},"volume":30,"ddc":["510"],"article_type":"original","date_created":"2023-05-21T22:01:05Z","scopus_import":"1","title":"A note on long cycles in sparse random graphs","publisher":"Electronic Journal of Combinatorics","arxiv":1,"author":[{"first_name":"Michael","full_name":"Anastos, Michael","last_name":"Anastos","id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb"}],"article_processing_charge":"No","file":[{"creator":"dernst","checksum":"6269ed3b3eded6536d3d9d6baad2d5b9","date_created":"2023-05-22T07:43:19Z","file_name":"2023_JourCombinatorics_Anastos.pdf","relation":"main_file","content_type":"application/pdf","access_level":"open_access","file_id":"13046","date_updated":"2023-05-22T07:43:19Z","success":1,"file_size":448736}],"abstract":[{"lang":"eng","text":"Let Lc,n denote the size of the longest cycle in G(n, c/n),c >1 constant.  We show that there exists a continuous function f(c) such that Lc,n/n→f(c) a.s.  for c>20,  thus  extending  a  result  of  Frieze  and  the  author  to  smaller  values  of c. Thereafter,  for c>20,  we  determine  the  limit  of  the  probability  that G(n, c/n)contains  cycles  of  every  length  between  the  length  of  its  shortest  and  its  longest cycles as n→∞."}],"oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","_id":"13042","publication":"Electronic Journal of Combinatorics","year":"2023","language":[{"iso":"eng"}],"day":"05","article_number":"P2.21","department":[{"_id":"MaKw"}],"acknowledgement":"We would like to thank the reviewers for their helpful comments and remarks.","doi":"10.37236/11471","month":"05","file_date_updated":"2023-05-22T07:43:19Z","isi":1,"date_published":"2023-05-05T00:00:00Z","date_updated":"2023-08-01T14:44:52Z"},{"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"status":"public","publication_identifier":{"eissn":["1463-9971"],"issn":["1463-9963"]},"ec_funded":1,"has_accepted_license":"1","publication_status":"published","quality_controlled":"1","external_id":{"arxiv":["2108.01733"],"isi":["000975817300002"]},"related_material":{"record":[{"relation":"earlier_version","id":"10013","status":"public"}]},"intvolume":"        25","oa_version":"Published Version","issue":"1","article_type":"original","scopus_import":"1","date_created":"2023-05-21T22:01:06Z","citation":{"ista":"Hensel S, Laux T. 2023. Weak-strong uniqueness for the mean curvature flow of double bubbles. Interfaces and Free Boundaries. 25(1), 37–107.","ieee":"S. Hensel and T. Laux, “Weak-strong uniqueness for the mean curvature flow of double bubbles,” <i>Interfaces and Free Boundaries</i>, vol. 25, no. 1. EMS Press, pp. 37–107, 2023.","short":"S. Hensel, T. Laux, Interfaces and Free Boundaries 25 (2023) 37–107.","mla":"Hensel, Sebastian, and Tim Laux. “Weak-Strong Uniqueness for the Mean Curvature Flow of Double Bubbles.” <i>Interfaces and Free Boundaries</i>, vol. 25, no. 1, EMS Press, 2023, pp. 37–107, doi:<a href=\"https://doi.org/10.4171/IFB/484\">10.4171/IFB/484</a>.","apa":"Hensel, S., &#38; Laux, T. (2023). Weak-strong uniqueness for the mean curvature flow of double bubbles. <i>Interfaces and Free Boundaries</i>. EMS Press. <a href=\"https://doi.org/10.4171/IFB/484\">https://doi.org/10.4171/IFB/484</a>","ama":"Hensel S, Laux T. Weak-strong uniqueness for the mean curvature flow of double bubbles. <i>Interfaces and Free Boundaries</i>. 2023;25(1):37-107. doi:<a href=\"https://doi.org/10.4171/IFB/484\">10.4171/IFB/484</a>","chicago":"Hensel, Sebastian, and Tim Laux. “Weak-Strong Uniqueness for the Mean Curvature Flow of Double Bubbles.” <i>Interfaces and Free Boundaries</i>. EMS Press, 2023. <a href=\"https://doi.org/10.4171/IFB/484\">https://doi.org/10.4171/IFB/484</a>."},"volume":25,"ddc":["510"],"project":[{"_id":"0aa76401-070f-11eb-9043-b5bb049fa26d","call_identifier":"H2020","name":"Bridging Scales in Random Materials","grant_number":"948819"}],"title":"Weak-strong uniqueness for the mean curvature flow of double bubbles","publisher":"EMS Press","author":[{"first_name":"Sebastian","last_name":"Hensel","full_name":"Hensel, Sebastian","orcid":"0000-0001-7252-8072","id":"4D23B7DA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Tim","last_name":"Laux","full_name":"Laux, Tim"}],"arxiv":1,"file":[{"creator":"dernst","checksum":"622422484810441e48f613e968c7e7a4","date_created":"2023-05-22T07:24:13Z","file_name":"2023_Interfaces_Hensel.pdf","content_type":"application/pdf","relation":"main_file","access_level":"open_access","file_id":"13045","date_updated":"2023-05-22T07:24:13Z","success":1,"file_size":867876}],"article_processing_charge":"No","oa":1,"abstract":[{"text":"We derive a weak-strong uniqueness principle for BV solutions to multiphase mean curvature flow of triple line clusters in three dimensions. Our proof is based on the explicit construction\r\nof a gradient flow calibration in the sense of the recent work of Fischer et al. (2020) for any such\r\ncluster. This extends the two-dimensional construction to the three-dimensional case of surfaces\r\nmeeting along triple junctions.","lang":"eng"}],"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","day":"20","publication":"Interfaces and Free Boundaries","_id":"13043","year":"2023","page":"37-107","language":[{"iso":"eng"}],"department":[{"_id":"JuFi"}],"acknowledgement":"This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 948819), and from the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC-2047/1 – 390685813.","doi":"10.4171/IFB/484","month":"04","file_date_updated":"2023-05-22T07:24:13Z","isi":1,"date_published":"2023-04-20T00:00:00Z","date_updated":"2023-08-01T14:43:29Z"},{"month":"05","doi":"10.1039/d3fd00088e","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1039/d3fd00088e"}],"isi":1,"date_published":"2023-05-17T00:00:00Z","date_updated":"2023-12-13T11:19:07Z","department":[{"_id":"StFr"},{"_id":"Bio"}],"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"17","_id":"13044","publication":"Faraday Discussions","language":[{"iso":"eng"}],"year":"2023","keyword":["Physical and Theoretical Chemistry"],"article_processing_charge":"No","oa":1,"abstract":[{"text":"Singlet oxygen (1O2) formation is now recognised as a key aspect of non-aqueous oxygen redox chemistry. For identifying 1O2, chemical trapping via 9,10-dimethylanthracene (DMA) to form the endoperoxide (DMA-O2) has become the mainstay method due to its sensitivity, selectivity, and ease of use. While DMA has been shown to be selective for 1O2, rather than forming DMA-O2 with a wide variety of potentially reactive O-containing species, false positives might hypothetically be obtained in the presence of previously overlooked species. Here, we first give unequivocal direct spectroscopic proof by the 1O2-specific near infrared (NIR) emission at 1270 nm for the previously proposed 1O2 formation pathways, which centre around superoxide disproportionation. We then show that peroxocarbonates, common intermediates in metal-O2 and metal carbonate electrochemistry, do not produce false-positive DMA-O2. Moreover, we identify a previously unreported 1O2-forming pathway through the reaction of CO2 with superoxide. Overall, we give unequivocal proof for 1O2 formation in non-aqueous oxygen redox and show that chemical trapping with DMA is a reliable method to assess 1O2 formation.","lang":"eng"}],"title":"Singlet oxygen in non-aqueous oxygen redox: Direct spectroscopic evidence for formation pathways and reliability of chemical probes","publisher":"Royal Society of Chemistry","license":"https://creativecommons.org/licenses/by-nc/4.0/","author":[{"full_name":"Mondal, Soumyadip","last_name":"Mondal","id":"d25d21ef-dc8d-11ea-abe3-ec4576307f48","first_name":"Soumyadip"},{"last_name":"Jethwa","full_name":"Jethwa, Rajesh B","orcid":"0000-0002-0404-4356","id":"4cc538d5-803f-11ed-ab7e-8139573aad8f","first_name":"Rajesh B"},{"first_name":"Bhargavi","last_name":"Pant","full_name":"Pant, Bhargavi","id":"50c64d4d-eb97-11eb-a6c2-d33e5e14f112"},{"full_name":"Hauschild, Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522","first_name":"Robert"},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","orcid":"0000-0003-2902-5319","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger","first_name":"Stefan Alexander"}],"article_type":"original","date_created":"2023-05-22T06:53:34Z","citation":{"ama":"Mondal S, Jethwa RB, Pant B, Hauschild R, Freunberger SA. Singlet oxygen in non-aqueous oxygen redox: Direct spectroscopic evidence for formation pathways and reliability of chemical probes. <i>Faraday Discussions</i>. 2023. doi:<a href=\"https://doi.org/10.1039/d3fd00088e\">10.1039/d3fd00088e</a>","chicago":"Mondal, Soumyadip, Rajesh B Jethwa, Bhargavi Pant, Robert Hauschild, and Stefan Alexander Freunberger. “Singlet Oxygen in Non-Aqueous Oxygen Redox: Direct Spectroscopic Evidence for Formation Pathways and Reliability of Chemical Probes.” <i>Faraday Discussions</i>. Royal Society of Chemistry, 2023. <a href=\"https://doi.org/10.1039/d3fd00088e\">https://doi.org/10.1039/d3fd00088e</a>.","apa":"Mondal, S., Jethwa, R. B., Pant, B., Hauschild, R., &#38; Freunberger, S. A. (2023). Singlet oxygen in non-aqueous oxygen redox: Direct spectroscopic evidence for formation pathways and reliability of chemical probes. <i>Faraday Discussions</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/d3fd00088e\">https://doi.org/10.1039/d3fd00088e</a>","short":"S. Mondal, R.B. Jethwa, B. Pant, R. Hauschild, S.A. Freunberger, Faraday Discussions (2023).","mla":"Mondal, Soumyadip, et al. “Singlet Oxygen in Non-Aqueous Oxygen Redox: Direct Spectroscopic Evidence for Formation Pathways and Reliability of Chemical Probes.” <i>Faraday Discussions</i>, Royal Society of Chemistry, 2023, doi:<a href=\"https://doi.org/10.1039/d3fd00088e\">10.1039/d3fd00088e</a>.","ieee":"S. Mondal, R. B. Jethwa, B. Pant, R. Hauschild, and S. A. Freunberger, “Singlet oxygen in non-aqueous oxygen redox: Direct spectroscopic evidence for formation pathways and reliability of chemical probes,” <i>Faraday Discussions</i>. Royal Society of Chemistry, 2023.","ista":"Mondal S, Jethwa RB, Pant B, Hauschild R, Freunberger SA. 2023. Singlet oxygen in non-aqueous oxygen redox: Direct spectroscopic evidence for formation pathways and reliability of chemical probes. Faraday Discussions."},"publication_status":"epub_ahead","quality_controlled":"1","external_id":{"isi":["001070423500001"]},"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"status":"public","publication_identifier":{"eissn":["1364-5498"],"issn":["1359-6640"]}},{"status":"public","ec_funded":1,"publication_identifier":{"isbn":["9781450399135"]},"oa_version":"Preprint","publication_status":"published","external_id":{"arxiv":["2303.04014"]},"quality_controlled":"1","date_created":"2023-05-22T08:02:02Z","citation":{"apa":"Lieutier, A., &#38; Wintraecken, M. (2023). Hausdorff and Gromov-Hausdorff stable subsets of the medial axis. In <i>Proceedings of the 55th Annual ACM Symposium on Theory of Computing</i> (pp. 1768–1776). Orlando, FL, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3564246.3585113\">https://doi.org/10.1145/3564246.3585113</a>","short":"A. Lieutier, M. Wintraecken, in:, Proceedings of the 55th Annual ACM Symposium on Theory of Computing, Association for Computing Machinery, 2023, pp. 1768–1776.","mla":"Lieutier, André, and Mathijs Wintraecken. “Hausdorff and Gromov-Hausdorff Stable Subsets of the Medial Axis.” <i>Proceedings of the 55th Annual ACM Symposium on Theory of Computing</i>, Association for Computing Machinery, 2023, pp. 1768–76, doi:<a href=\"https://doi.org/10.1145/3564246.3585113\">10.1145/3564246.3585113</a>.","ama":"Lieutier A, Wintraecken M. Hausdorff and Gromov-Hausdorff stable subsets of the medial axis. In: <i>Proceedings of the 55th Annual ACM Symposium on Theory of Computing</i>. Association for Computing Machinery; 2023:1768-1776. doi:<a href=\"https://doi.org/10.1145/3564246.3585113\">10.1145/3564246.3585113</a>","chicago":"Lieutier, André, and Mathijs Wintraecken. “Hausdorff and Gromov-Hausdorff Stable Subsets of the Medial Axis.” In <i>Proceedings of the 55th Annual ACM Symposium on Theory of Computing</i>, 1768–76. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3564246.3585113\">https://doi.org/10.1145/3564246.3585113</a>.","ista":"Lieutier A, Wintraecken M. 2023. Hausdorff and Gromov-Hausdorff stable subsets of the medial axis. Proceedings of the 55th Annual ACM Symposium on Theory of Computing. STOC: Symposium on Theory of Computing, 1768–1776.","ieee":"A. Lieutier and M. Wintraecken, “Hausdorff and Gromov-Hausdorff stable subsets of the medial axis,” in <i>Proceedings of the 55th Annual ACM Symposium on Theory of Computing</i>, Orlando, FL, United States, 2023, pp. 1768–1776."},"author":[{"full_name":"Lieutier, André","last_name":"Lieutier","first_name":"André"},{"first_name":"Mathijs","last_name":"Wintraecken","full_name":"Wintraecken, Mathijs","orcid":"0000-0002-7472-2220","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87"}],"arxiv":1,"project":[{"grant_number":"754411","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"},{"grant_number":"M03073","_id":"fc390959-9c52-11eb-aca3-afa58bd282b2","name":"Learning and triangulating manifolds via collapses"}],"title":"Hausdorff and Gromov-Hausdorff stable subsets of the medial axis","publisher":"Association for Computing Machinery","oa":1,"abstract":[{"text":"In this paper we introduce a pruning of the medial axis called the (λ,α)-medial axis (axλα). We prove that the (λ,α)-medial axis of a set K is stable in a Gromov-Hausdorff sense under weak assumptions. More formally we prove that if K and K′ are close in the Hausdorff (dH) sense then the (λ,α)-medial axes of K and K′ are close as metric spaces, that is the Gromov-Hausdorff distance (dGH) between the two is 1/4-Hölder in the sense that dGH (axλα(K),axλα(K′)) ≲ dH(K,K′)1/4. The Hausdorff distance between the two medial axes is also bounded, by dH (axλα(K),λα(K′)) ≲ dH(K,K′)1/2. These quantified stability results provide guarantees for practical computations of medial axes from approximations. Moreover, they provide key ingredients for studying the computability of the medial axis in the context of computable analysis.","lang":"eng"}],"article_processing_charge":"No","day":"02","_id":"13048","publication":"Proceedings of the 55th Annual ACM Symposium on Theory of Computing","conference":{"start_date":"2023-06-20","name":"STOC: Symposium on Theory of Computing","end_date":"2023-06-23","location":"Orlando, FL, United States"},"year":"2023","language":[{"iso":"eng"}],"page":"1768-1776","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","acknowledgement":"We are greatly indebted to Erin Chambers for posing a number of questions that eventually led to this paper. We would also like to thank the other organizers of the workshop on ‘Algorithms\r\nfor the medial axis’. We are also indebted to Tatiana Ezubova for helping with the search for and translation of Russian literature. The second author thanks all members of the Edelsbrunner and Datashape groups for the atmosphere in which the research was conducted.\r\nThe research leading to these results has received funding from the European Research Council (ERC) under the European Union’s Seventh Framework Programme (FP/2007-2013) / ERC Grant Agreement No. 339025 GUDHI (Algorithmic Foundations of Geometry Understanding in Higher Dimensions). Supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411. The Austrian science fund (FWF) M-3073.","department":[{"_id":"HeEd"}],"date_published":"2023-06-02T00:00:00Z","date_updated":"2023-05-22T08:15:19Z","month":"06","doi":"10.1145/3564246.3585113","main_file_link":[{"url":"https://arxiv.org/abs/2303.04014","open_access":"1"}]},{"date_published":"2023-07-26T00:00:00Z","date_updated":"2024-01-29T10:30:49Z","doi":"10.1145/3592411","month":"07","file_date_updated":"2023-06-20T12:20:51Z","isi":1,"acknowledgement":"We thank the reviewers for the valuable feedback. We also thank the Miba Machine Shop at ISTA, PCBWay, and PragoBoard for helping us with fabrication and assembly. This project was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 715767 – MATERIALIZABLE).","department":[{"_id":"GradSch"},{"_id":"BeBi"}],"article_number":"142","day":"26","publication":"Transactions on Graphics","_id":"13049","conference":{"start_date":"2023-08-06","name":"SIGGRAPH: Computer Graphics and Interactive Techniques Conference","end_date":"2023-08-10","location":"Los Angeles, CA, United States"},"language":[{"iso":"eng"}],"year":"2023","keyword":["PCB design and layout","Mesh geometry models"],"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"abstract":[{"text":"We propose a computational design approach for covering a surface with individually addressable RGB LEDs, effectively forming a low-resolution surface screen. To achieve a low-cost and scalable approach, we propose creating designs from flat PCB panels bent in-place along the surface of a 3D printed core. Working with standard rigid PCBs enables the use of\r\nestablished PCB manufacturing services, allowing the fabrication of designs with several hundred LEDs. \r\nOur approach optimizes the PCB geometry for folding, and then jointly optimizes the LED packing, circuit and routing, solving a challenging layout problem under strict manufacturing requirements. Unlike paper, PCBs cannot bend beyond a certain point without breaking. Therefore, we introduce parametric cut patterns acting as hinges, designed to allow bending while remaining compact. To tackle the joint optimization of placement, circuit and routing, we propose a specialized algorithm that splits the global problem into one sub-problem per triangle, which is then individually solved.\r\nOur technique generates PCB blueprints in a completely automated way. After being fabricated by a PCB manufacturing service, the boards are bent and glued by the user onto the 3D printed support. We demonstrate our technique on a range of physical models and virtual examples, creating intricate surface light patterns from hundreds of LEDs.","lang":"eng"}],"file":[{"file_name":"2023_ACMToG_Freire.pdf","relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_created":"2023-06-19T11:02:23Z","checksum":"a0b0ba3b36f43a94388e8824613d812a","success":1,"file_size":78940724,"file_id":"13156","date_updated":"2023-06-19T11:02:23Z"},{"file_id":"13157","date_updated":"2023-06-20T12:20:51Z","success":1,"file_size":34345905,"creator":"dernst","checksum":"b9206bbb67af82df49b7e7cdbde3410c","date_created":"2023-06-20T12:20:51Z","relation":"main_file","content_type":"application/pdf","file_name":"2023_ACMToG_SuppMaterial_Freire.pdf","access_level":"open_access"}],"article_processing_charge":"No","author":[{"first_name":"Marco","full_name":"Freire, Marco","last_name":"Freire"},{"full_name":"Bhargava, Manas","last_name":"Bhargava","id":"FF8FA64C-AA6A-11E9-99AD-50D4E5697425","orcid":"0009-0007-6138-6890","first_name":"Manas"},{"first_name":"Camille","full_name":"Schreck, Camille","last_name":"Schreck","id":"2B14B676-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hugron","full_name":"Hugron, Pierre-Alexandre","first_name":"Pierre-Alexandre"},{"orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","full_name":"Bickel, Bernd","first_name":"Bernd"},{"last_name":"Lefebvre","full_name":"Lefebvre, Sylvain","first_name":"Sylvain"}],"project":[{"grant_number":"715767","call_identifier":"H2020","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","_id":"24F9549A-B435-11E9-9278-68D0E5697425"}],"title":"PCBend: Light up your 3D shapes with foldable circuit boards","publisher":"Association for Computing Machinery","article_type":"original","date_created":"2023-05-22T08:37:04Z","citation":{"short":"M. Freire, M. Bhargava, C. Schreck, P.-A. Hugron, B. Bickel, S. Lefebvre, Transactions on Graphics 42 (2023).","mla":"Freire, Marco, et al. “PCBend: Light up Your 3D Shapes with Foldable Circuit Boards.” <i>Transactions on Graphics</i>, vol. 42, no. 4, 142, Association for Computing Machinery, 2023, doi:<a href=\"https://doi.org/10.1145/3592411\">10.1145/3592411</a>.","apa":"Freire, M., Bhargava, M., Schreck, C., Hugron, P.-A., Bickel, B., &#38; Lefebvre, S. (2023). PCBend: Light up your 3D shapes with foldable circuit boards. <i>Transactions on Graphics</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3592411\">https://doi.org/10.1145/3592411</a>","ama":"Freire M, Bhargava M, Schreck C, Hugron P-A, Bickel B, Lefebvre S. PCBend: Light up your 3D shapes with foldable circuit boards. <i>Transactions on Graphics</i>. 2023;42(4). doi:<a href=\"https://doi.org/10.1145/3592411\">10.1145/3592411</a>","chicago":"Freire, Marco, Manas Bhargava, Camille Schreck, Pierre-Alexandre Hugron, Bernd Bickel, and Sylvain Lefebvre. “PCBend: Light up Your 3D Shapes with Foldable Circuit Boards.” <i>Transactions on Graphics</i>. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3592411\">https://doi.org/10.1145/3592411</a>.","ista":"Freire M, Bhargava M, Schreck C, Hugron P-A, Bickel B, Lefebvre S. 2023. PCBend: Light up your 3D shapes with foldable circuit boards. Transactions on Graphics. 42(4), 142.","ieee":"M. Freire, M. Bhargava, C. Schreck, P.-A. Hugron, B. Bickel, and S. Lefebvre, “PCBend: Light up your 3D shapes with foldable circuit boards,” <i>Transactions on Graphics</i>, vol. 42, no. 4. Association for Computing Machinery, 2023."},"volume":42,"ddc":["006"],"issue":"4","intvolume":"        42","oa_version":"Submitted Version","has_accepted_license":"1","publication_status":"published","quality_controlled":"1","external_id":{"isi":["001044671300108"]},"status":"public","ec_funded":1,"publication_identifier":{"issn":["0730-0301"],"eissn":["1557-7368"]},"acknowledged_ssus":[{"_id":"M-Shop"}]},{"article_processing_charge":"No","editor":[{"first_name":"Cosima","last_name":"Baldari","full_name":"Baldari, Cosima"},{"full_name":"Dustin, Michael","last_name":"Dustin","first_name":"Michael"}],"abstract":[{"lang":"eng","text":"Imaging of the immunological synapse (IS) between dendritic cells (DCs) and T cells in suspension is hampered by suboptimal alignment of cell-cell contacts along the vertical imaging plane. This requires optical sectioning that often results in unsatisfactory resolution in time and space. Here, we present a workflow where DCs and T cells are confined between a layer of glass and polydimethylsiloxane (PDMS) that orients the cells along one, horizontal imaging plane, allowing for fast en-face-imaging of the DC-T cell IS."}],"alternative_title":["Methods in Molecular Biology"],"pmid":1,"type":"book_chapter","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"28","_id":"13052","publication":"The Immune Synapse","page":"137-147","year":"2023","language":[{"iso":"eng"}],"department":[{"_id":"MiSi"},{"_id":"NanoFab"}],"acknowledgement":"A.L. was funded by an Erwin Schrödinger postdoctoral fellowship of the Austrian Science Fund (FWF, project number: J4542-B) and is an EMBO non-stipendiary postdoctoral fellow. This work was supported by a European Research Council grant ERC-CoG-72437 to M.S. We thank the Imaging & Optics facility, the Nanofabrication facility, and the Miba Machine Shop of ISTA for their excellent support.","doi":"10.1007/978-1-0716-3135-5_9","month":"04","date_updated":"2023-10-17T08:44:53Z","date_published":"2023-04-28T00:00:00Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"NanoFab"},{"_id":"M-Shop"}],"place":"New York, NY","status":"public","publication_identifier":{"eissn":["1940-6029"],"issn":["1064-3745"],"isbn":["9781071631348"],"eisbn":["9781071631355"]},"ec_funded":1,"publication_status":"published","external_id":{"pmid":["37106180"]},"quality_controlled":"1","intvolume":"      2654","oa_version":"None","scopus_import":"1","date_created":"2023-05-22T08:41:48Z","volume":2654,"citation":{"short":"A.F. Leithner, J. Merrin, M.K. Sixt, in:, C. Baldari, M. Dustin (Eds.), The Immune Synapse, Springer Nature, New York, NY, 2023, pp. 137–147.","apa":"Leithner, A. F., Merrin, J., &#38; Sixt, M. K. (2023). En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses. In C. Baldari &#38; M. Dustin (Eds.), <i>The Immune Synapse</i> (Vol. 2654, pp. 137–147). New York, NY: Springer Nature. <a href=\"https://doi.org/10.1007/978-1-0716-3135-5_9\">https://doi.org/10.1007/978-1-0716-3135-5_9</a>","mla":"Leithner, Alexander F., et al. “En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses.” <i>The Immune Synapse</i>, edited by Cosima Baldari and Michael Dustin, vol. 2654, Springer Nature, 2023, pp. 137–47, doi:<a href=\"https://doi.org/10.1007/978-1-0716-3135-5_9\">10.1007/978-1-0716-3135-5_9</a>.","ama":"Leithner AF, Merrin J, Sixt MK. En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses. In: Baldari C, Dustin M, eds. <i>The Immune Synapse</i>. Vol 2654. MIMB. New York, NY: Springer Nature; 2023:137-147. doi:<a href=\"https://doi.org/10.1007/978-1-0716-3135-5_9\">10.1007/978-1-0716-3135-5_9</a>","chicago":"Leithner, Alexander F, Jack Merrin, and Michael K Sixt. “En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses.” In <i>The Immune Synapse</i>, edited by Cosima Baldari and Michael Dustin, 2654:137–47. MIMB. New York, NY: Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-1-0716-3135-5_9\">https://doi.org/10.1007/978-1-0716-3135-5_9</a>.","ista":"Leithner AF, Merrin J, Sixt MK. 2023.En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses. In: The Immune Synapse. Methods in Molecular Biology, vol. 2654, 137–147.","ieee":"A. F. Leithner, J. Merrin, and M. K. Sixt, “En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses,” in <i>The Immune Synapse</i>, vol. 2654, C. Baldari and M. Dustin, Eds. New York, NY: Springer Nature, 2023, pp. 137–147."},"project":[{"grant_number":"724373","call_identifier":"H2020","name":"Cellular navigation along spatial gradients","_id":"25FE9508-B435-11E9-9278-68D0E5697425"}],"title":"En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses","publisher":"Springer Nature","author":[{"first_name":"Alexander F","last_name":"Leithner","full_name":"Leithner, Alexander F","orcid":"0000-0002-1073-744X","id":"3B1B77E4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Merrin, Jack","last_name":"Merrin","id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609","first_name":"Jack"},{"first_name":"Michael K","full_name":"Sixt, Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179"}],"series_title":"MIMB"},{"project":[{"_id":"268A44D6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Elastic Coordination for Scalable Machine Learning","grant_number":"805223"}],"month":"05","main_file_link":[{"open_access":"1","url":"https://openreview.net/pdf?id=_eTZBs-yedr"}],"title":"CrAM: A Compression-Aware Minimizer","arxiv":1,"date_updated":"2023-06-01T12:54:45Z","date_published":"2023-05-01T00:00:00Z","author":[{"id":"32D78294-F248-11E8-B48F-1D18A9856A87","full_name":"Peste, Elena-Alexandra","last_name":"Peste","first_name":"Elena-Alexandra"},{"full_name":"Vladu, Adrian","last_name":"Vladu","first_name":"Adrian"},{"id":"47beb3a5-07b5-11eb-9b87-b108ec578218","last_name":"Kurtic","full_name":"Kurtic, Eldar","first_name":"Eldar"},{"last_name":"Lampert","full_name":"Lampert, Christoph","orcid":"0000-0001-8622-7887","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph"},{"first_name":"Dan-Adrian","last_name":"Alistarh","full_name":"Alistarh, Dan-Adrian","orcid":"0000-0003-3650-940X","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"GradSch"},{"_id":"DaAl"},{"_id":"ChLa"}],"citation":{"ista":"Peste E-A, Vladu A, Kurtic E, Lampert C, Alistarh D-A. CrAM: A Compression-Aware Minimizer. 11th International Conference on Learning Representations . ICLR: International Conference on Learning Representations.","ieee":"E.-A. Peste, A. Vladu, E. Kurtic, C. Lampert, and D.-A. Alistarh, “CrAM: A Compression-Aware Minimizer,” in <i>11th International Conference on Learning Representations </i>, Kigali, Rwanda .","apa":"Peste, E.-A., Vladu, A., Kurtic, E., Lampert, C., &#38; Alistarh, D.-A. (n.d.). CrAM: A Compression-Aware Minimizer. In <i>11th International Conference on Learning Representations </i>. Kigali, Rwanda .","short":"E.-A. Peste, A. Vladu, E. Kurtic, C. Lampert, D.-A. Alistarh, in:, 11th International Conference on Learning Representations , n.d.","mla":"Peste, Elena-Alexandra, et al. “CrAM: A Compression-Aware Minimizer.” <i>11th International Conference on Learning Representations </i>.","ama":"Peste E-A, Vladu A, Kurtic E, Lampert C, Alistarh D-A. CrAM: A Compression-Aware Minimizer. In: <i>11th International Conference on Learning Representations </i>.","chicago":"Peste, Elena-Alexandra, Adrian Vladu, Eldar Kurtic, Christoph Lampert, and Dan-Adrian Alistarh. “CrAM: A Compression-Aware Minimizer.” In <i>11th International Conference on Learning Representations </i>, n.d."},"acknowledgement":"AP, EK, DA received funding from the European Research Council (ERC) under the European\r\nUnion’s Horizon 2020 research and innovation programme (grant agreement No 805223 ScaleML). AV acknowledges the support of the French Agence Nationale de la Recherche (ANR), under grant ANR-21-CE48-0016 (project COMCOPT). We further acknowledge the support from the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp)-","date_created":"2023-05-23T11:36:18Z","external_id":{"arxiv":["2207.14200"]},"quality_controlled":"1","type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"accepted","conference":{"start_date":"2023-05-01","name":"ICLR: International Conference on Learning Representations","end_date":"2023-05-05","location":"Kigali, Rwanda "},"_id":"13053","publication":"11th International Conference on Learning Representations ","language":[{"iso":"eng"}],"year":"2023","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"13074"}]},"oa_version":"Preprint","article_processing_charge":"No","acknowledged_ssus":[{"_id":"ScienComp"}],"abstract":[{"lang":"eng","text":"Deep neural networks (DNNs) often have to be compressed, via pruning and/or quantization, before they can be deployed in practical settings. In this work we propose a new compression-aware minimizer dubbed CrAM that modifies the optimization step in a principled way, in order to produce models whose local loss behavior is stable under compression operations such as pruning. Thus, dense models trained via CrAM should be compressible post-training, in a single step, without significant accuracy loss. Experimental results on standard benchmarks, such as residual networks for ImageNet classification and BERT models for language modelling, show that CrAM produces dense models that can be more accurate than the standard SGD/Adam-based baselines, but which are stable under weight pruning: specifically, we can prune models in one-shot to 70-80% sparsity with almost no accuracy loss, and to 90% with reasonable (∼1%) accuracy loss, which is competitive with gradual compression methods. Additionally, CrAM can produce sparse models which perform well for transfer learning, and it also works for semi-structured 2:4 pruning patterns supported by GPU hardware. The code for reproducing the results is available at this https URL ."}],"ec_funded":1,"status":"public","oa":1},{"date_updated":"2023-08-04T10:33:27Z","date_published":"2023-05-23T00:00:00Z","file_date_updated":"2023-05-24T16:12:59Z","doi":"10.15479/at:ista:13074","month":"05","supervisor":[{"first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph","last_name":"Lampert"},{"first_name":"Dan-Adrian","full_name":"Alistarh, Dan-Adrian","last_name":"Alistarh","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X"}],"department":[{"_id":"GradSch"},{"_id":"DaAl"},{"_id":"ChLa"}],"year":"2023","language":[{"iso":"eng"}],"page":"147","_id":"13074","degree_awarded":"PhD","day":"23","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","type":"dissertation","alternative_title":["ISTA Thesis"],"abstract":[{"text":"Deep learning has become an integral part of a large number of important applications, and many of the recent breakthroughs have been enabled by the ability to train very large models, capable to capture complex patterns and relationships from the data. At the same time, the massive sizes of modern deep learning models have made their deployment to smaller devices more challenging; this is particularly important, as in many applications the users rely on accurate deep learning predictions, but they only have access to devices with limited memory and compute power. One solution to this problem is to prune neural networks, by setting as many of their parameters as possible to zero, to obtain accurate sparse models with lower memory footprint. Despite the great research progress in obtaining sparse models that preserve accuracy, while satisfying memory and computational constraints, there are still many challenges associated with efficiently training sparse models, as well as understanding their generalization properties.\r\n\r\nThe focus of this thesis is to investigate how the training process of sparse models can be made more efficient, and to understand the differences between sparse and dense models in terms of how well they can generalize to changes in the data distribution. We first study a method for co-training sparse and dense models, at a lower cost compared to regular training. With our method we can obtain very accurate sparse networks, and dense models that can recover the baseline accuracy. Furthermore, we are able to more easily analyze the differences, at prediction level, between the sparse-dense model pairs. Next, we investigate the generalization properties of sparse neural networks in more detail, by studying how well different sparse models trained on a larger task can adapt to smaller, more specialized tasks, in a transfer learning scenario. Our analysis across multiple pruning methods and sparsity levels reveals that sparse models provide features that can transfer similarly to or better than the dense baseline. However, the choice of the pruning method plays an important role, and can influence the results when the features are fixed (linear finetuning), or when they are allowed to adapt to the new task (full finetuning). Using sparse models with fixed masks for finetuning on new tasks has an important practical advantage, as it enables training neural networks on smaller devices. However, one drawback of current pruning methods is that the entire training cycle has to be repeated to obtain the initial sparse model, for every sparsity target; in consequence, the entire training process is costly and also multiple models need to be stored. In the last part of the thesis we propose a method that can train accurate dense models that are compressible in a single step, to multiple sparsity levels, without additional finetuning. Our method results in sparse models that can be competitive with existing pruning methods, and which can also successfully generalize to new tasks.","lang":"eng"}],"oa":1,"file":[{"access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_name":"PhD_Thesis_Alexandra_Peste_final.pdf","checksum":"6b3354968403cb9d48cc5a83611fb571","date_created":"2023-05-24T16:11:16Z","creator":"epeste","file_size":2152072,"success":1,"date_updated":"2023-05-24T16:11:16Z","file_id":"13087"},{"access_level":"closed","content_type":"application/zip","relation":"source_file","file_name":"PhD_Thesis_APeste.zip","date_created":"2023-05-24T16:12:59Z","checksum":"8d0df94bbcf4db72c991f22503b3fd60","creator":"epeste","file_size":1658293,"date_updated":"2023-05-24T16:12:59Z","file_id":"13088"}],"article_processing_charge":"No","author":[{"id":"32D78294-F248-11E8-B48F-1D18A9856A87","last_name":"Peste","full_name":"Peste, Elena-Alexandra","first_name":"Elena-Alexandra"}],"publisher":"Institute of Science and Technology Austria","title":"Efficiency and generalization of sparse neural networks","project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program","grant_number":"665385"},{"grant_number":"805223","_id":"268A44D6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Elastic Coordination for Scalable Machine Learning"}],"ddc":["000"],"citation":{"ista":"Peste E-A. 2023. Efficiency and generalization of sparse neural networks. Institute of Science and Technology Austria.","ieee":"E.-A. Peste, “Efficiency and generalization of sparse neural networks,” Institute of Science and Technology Austria, 2023.","apa":"Peste, E.-A. (2023). <i>Efficiency and generalization of sparse neural networks</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13074\">https://doi.org/10.15479/at:ista:13074</a>","mla":"Peste, Elena-Alexandra. <i>Efficiency and Generalization of Sparse Neural Networks</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13074\">10.15479/at:ista:13074</a>.","short":"E.-A. Peste, Efficiency and Generalization of Sparse Neural Networks, Institute of Science and Technology Austria, 2023.","ama":"Peste E-A. Efficiency and generalization of sparse neural networks. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13074\">10.15479/at:ista:13074</a>","chicago":"Peste, Elena-Alexandra. “Efficiency and Generalization of Sparse Neural Networks.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13074\">https://doi.org/10.15479/at:ista:13074</a>."},"date_created":"2023-05-23T17:07:53Z","oa_version":"Published Version","related_material":{"record":[{"status":"public","id":"11458","relation":"part_of_dissertation"},{"id":"13053","status":"public","relation":"part_of_dissertation"},{"status":"public","id":"12299","relation":"part_of_dissertation"}]},"publication_status":"published","has_accepted_license":"1","publication_identifier":{"issn":["2663-337X"]},"ec_funded":1,"status":"public","acknowledged_ssus":[{"_id":"ScienComp"}]}]