[{"publication_status":"published","day":"20","date_published":"2017-11-20T00:00:00Z","oa":1,"doi":"10.5802/ambp.367","language":[{"iso":"eng"}],"file":[{"success":1,"date_updated":"2021-10-28T15:02:56Z","creator":"cziletti","access_level":"open_access","file_id":"10194","checksum":"18f40d13dc5d1e24438260b1875b886f","relation":"main_file","file_name":"2017_AMBP_AnzaHafsa.pdf","content_type":"application/pdf","file_size":850726,"date_created":"2021-10-28T15:02:56Z"}],"file_date_updated":"2021-10-28T15:02:56Z","publication":"Annales mathématiques Blaise Pascal","date_created":"2021-10-23T10:54:23Z","type":"journal_article","intvolume":"        24","publisher":"Université Clermont Auvergne","citation":{"ama":"Anza Hafsa O, Clozeau N, Mandallena J-P. Homogenization of nonconvex unbounded singular integrals. <i>Annales mathématiques Blaise Pascal</i>. 2017;24(2):135-193. doi:<a href=\"https://doi.org/10.5802/ambp.367\">10.5802/ambp.367</a>","short":"O. Anza Hafsa, N. Clozeau, J.-P. Mandallena, Annales Mathématiques Blaise Pascal 24 (2017) 135–193.","apa":"Anza Hafsa, O., Clozeau, N., &#38; Mandallena, J.-P. (2017). Homogenization of nonconvex unbounded singular integrals. <i>Annales Mathématiques Blaise Pascal</i>. Université Clermont Auvergne. <a href=\"https://doi.org/10.5802/ambp.367\">https://doi.org/10.5802/ambp.367</a>","chicago":"Anza Hafsa, Omar, Nicolas Clozeau, and Jean-Philippe Mandallena. “Homogenization of Nonconvex Unbounded Singular Integrals.” <i>Annales Mathématiques Blaise Pascal</i>. Université Clermont Auvergne, 2017. <a href=\"https://doi.org/10.5802/ambp.367\">https://doi.org/10.5802/ambp.367</a>.","ieee":"O. Anza Hafsa, N. Clozeau, and J.-P. Mandallena, “Homogenization of nonconvex unbounded singular integrals,” <i>Annales mathématiques Blaise Pascal</i>, vol. 24, no. 2. Université Clermont Auvergne, pp. 135–193, 2017.","ista":"Anza Hafsa O, Clozeau N, Mandallena J-P. 2017. Homogenization of nonconvex unbounded singular integrals. Annales mathématiques Blaise Pascal. 24(2), 135–193.","mla":"Anza Hafsa, Omar, et al. “Homogenization of Nonconvex Unbounded Singular Integrals.” <i>Annales Mathématiques Blaise Pascal</i>, vol. 24, no. 2, Université Clermont Auvergne, 2017, pp. 135–93, doi:<a href=\"https://doi.org/10.5802/ambp.367\">10.5802/ambp.367</a>."},"month":"11","ddc":["510"],"quality_controlled":"1","_id":"10175","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","status":"public","volume":24,"title":"Homogenization of nonconvex unbounded singular integrals","publication_identifier":{"eissn":["2118-7436"],"issn":["1259-1734"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nd/3.0/legalcode","name":"Creative Commons Attribution-NoDerivs 3.0 Unported (CC BY-ND 3.0)","image":"/images/cc_by_nd.png","short":"CC BY-ND (3.0)"},"issue":"2","extern":"1","article_processing_charge":"No","year":"2017","author":[{"full_name":"Anza Hafsa, Omar","first_name":"Omar","last_name":"Anza Hafsa"},{"last_name":"Clozeau","first_name":"Nicolas","full_name":"Clozeau, Nicolas","id":"fea1b376-906f-11eb-847d-b2c0cf46455b"},{"last_name":"Mandallena","full_name":"Mandallena, Jean-Philippe","first_name":"Jean-Philippe"}],"date_updated":"2021-10-28T15:16:25Z","abstract":[{"text":"We study periodic homogenization by Γ-convergence of integral functionals with integrands W(x,ξ) having no polynomial growth and which are both not necessarily continuous with respect to the space variable and not necessarily convex with respect to the matrix variable. This allows to deal with homogenization of composite hyperelastic materials consisting of two or more periodic components whose the energy densities tend to infinity as the volume of matter tends to zero, i.e., W(x,ξ)=∑j∈J1Vj(x)Hj(ξ) where {Vj}j∈J is a finite family of open disjoint subsets of RN, with |∂Vj|=0 for all j∈J and ∣∣RN∖⋃j∈JVj|=0, and, for each j∈J, Hj(ξ)→∞ as detξ→0. In fact, our results apply to integrands of type W(x,ξ)=a(x)H(ξ) when H(ξ)→∞ as detξ→0 and a∈L∞(RN;[0,∞[) is 1-periodic and is either continuous almost everywhere or not continuous. When a is not continuous, we obtain a density homogenization formula which is a priori different from the classical one by Braides–Müller. Although applications to hyperelasticity are limited due to the fact that our framework is not consistent with the constraint of noninterpenetration of the matter, our results can be of technical interest to analysis of homogenization of integral functionals.","lang":"eng"}],"has_accepted_license":"1","oa_version":"Published Version","page":"135-193","license":"https://creativecommons.org/licenses/by-nd/3.0/","article_type":"original"},{"page":"387 - 404","oa_version":"None","author":[{"last_name":"Dobisova","full_name":"Dobisova, Tereza","first_name":"Tereza"},{"last_name":"Hrdinova","first_name":"Vendula","full_name":"Hrdinova, Vendula"},{"orcid":"0000-0003-1923-2410","last_name":"Cuesta","id":"33A3C818-F248-11E8-B48F-1D18A9856A87","first_name":"Candela","full_name":"Cuesta, Candela"},{"last_name":"Michlickova","first_name":"Sarka","full_name":"Michlickova, Sarka"},{"first_name":"Ivana","full_name":"Urbankova, Ivana","last_name":"Urbankova"},{"first_name":"Romana","full_name":"Hejatkova, Romana","last_name":"Hejatkova"},{"last_name":"Zadnikova","full_name":"Zadnikova, Petra","first_name":"Petra"},{"last_name":"Pernisová","first_name":"Markéta","full_name":"Pernisová, Markéta"},{"orcid":"0000-0002-8510-9739","last_name":"Benková","full_name":"Benková, Eva","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hejátko, Jan","first_name":"Jan","last_name":"Hejátko"}],"article_processing_charge":"No","year":"2017","abstract":[{"text":"In plants, the multistep phosphorelay (MSP) pathway mediates a range of regulatory processes, including those activated by cytokinins. The crosstalk between cytokinin response and light is known for a long time. However, the molecular mechanism underlying the interactionbetween light and cytokinin signaling remains elusive. In the screen for upstream regulators we identified a LONG PALE HYPOCOTYL (LPH) gene whose activity is indispensable for spatiotemporally correct expression of CYTOKININ INDEPENDENT-1 (CKI1), encoding the constitutively active sensor histidine kinase that activates MSP signaling. lph is a new allele of HEME OXYGENASE 1 (HY1) which encodes the key protein in the biosynthesis of phytochromobilin, a cofactor of photoconvertiblephytochromes. Our analysis confirmed the light-dependent regulation oftheCKI1 expression pattern. We show that CKI1 expression is under the control of phytochrome A (phyA), functioning as a dual (both positive and negative) regulator of CKI1 expression, presumably via the phyA-regulated transcription factors PHYTOCHROME INTERACTING FACTOR 3 (PIF3) and CIRCADIAN CLOCK ASSOCIATED 1 (CCA1). Changes in CKI1 expression observed in lph/hy1-7 and phy mutants correlatewithmisregulation of MSP signaling, changedcytokinin sensitivity and developmental aberrations,previously shown to be associated with cytokinin and/or CKI1 action. Besides that, we demonstrate novel role of phyA-dependent CKI1 expression in the hypocotyl elongation and hook development during skotomorphogenesis. Based on these results, we propose that the light-dependent regulation of CKI1 provides a plausible mechanistic link underlying the well-known interaction between light- and cytokinin-controlled plant development.","lang":"eng"}],"date_updated":"2023-09-22T09:41:48Z","external_id":{"isi":["000402057200028"]},"issue":"1","scopus_import":"1","volume":174,"title":"Light regulated expression of sensor histidine kinase CKI1 controls cytokinin related development","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"1018","month":"05","quality_controlled":"1","publist_id":"6375","citation":{"short":"T. Dobisova, V. Hrdinova, C. Cuesta, S. Michlickova, I. Urbankova, R. Hejatkova, P. Zadnikova, M. Pernisová, E. Benková, J. Hejátko, Plant Physiology 174 (2017) 387–404.","ama":"Dobisova T, Hrdinova V, Cuesta C, et al. Light regulated expression of sensor histidine kinase CKI1 controls cytokinin related development. <i>Plant Physiology</i>. 2017;174(1):387-404. doi:<a href=\"https://doi.org/10.1104/pp.16.01964\">10.1104/pp.16.01964</a>","apa":"Dobisova, T., Hrdinova, V., Cuesta, C., Michlickova, S., Urbankova, I., Hejatkova, R., … Hejátko, J. (2017). Light regulated expression of sensor histidine kinase CKI1 controls cytokinin related development. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1104/pp.16.01964\">https://doi.org/10.1104/pp.16.01964</a>","mla":"Dobisova, Tereza, et al. “Light Regulated Expression of Sensor Histidine Kinase CKI1 Controls Cytokinin Related Development.” <i>Plant Physiology</i>, vol. 174, no. 1, American Society of Plant Biologists, 2017, pp. 387–404, doi:<a href=\"https://doi.org/10.1104/pp.16.01964\">10.1104/pp.16.01964</a>.","ista":"Dobisova T, Hrdinova V, Cuesta C, Michlickova S, Urbankova I, Hejatkova R, Zadnikova P, Pernisová M, Benková E, Hejátko J. 2017. Light regulated expression of sensor histidine kinase CKI1 controls cytokinin related development. Plant Physiology. 174(1), 387–404.","chicago":"Dobisova, Tereza, Vendula Hrdinova, Candela Cuesta, Sarka Michlickova, Ivana Urbankova, Romana Hejatkova, Petra Zadnikova, Markéta Pernisová, Eva Benková, and Jan Hejátko. “Light Regulated Expression of Sensor Histidine Kinase CKI1 Controls Cytokinin Related Development.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2017. <a href=\"https://doi.org/10.1104/pp.16.01964\">https://doi.org/10.1104/pp.16.01964</a>.","ieee":"T. Dobisova <i>et al.</i>, “Light regulated expression of sensor histidine kinase CKI1 controls cytokinin related development,” <i>Plant Physiology</i>, vol. 174, no. 1. American Society of Plant Biologists, pp. 387–404, 2017."},"intvolume":"       174","isi":1,"publisher":"American Society of Plant Biologists","department":[{"_id":"EvBe"}],"type":"journal_article","date_created":"2018-12-11T11:49:43Z","publication":"Plant Physiology","language":[{"iso":"eng"}],"date_published":"2017-05-17T00:00:00Z","doi":"10.1104/pp.16.01964","day":"17","publication_status":"published"},{"_id":"1019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","volume":119,"title":"X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster","publist_id":"6374","month":"07","quality_controlled":"1","article_processing_charge":"No","author":[{"full_name":"Argyridou, Eliza","first_name":"Eliza","last_name":"Argyridou"},{"last_name":"Huylmans","orcid":"0000-0001-8871-4961","id":"4C0A3874-F248-11E8-B48F-1D18A9856A87","full_name":"Huylmans, Ann K","first_name":"Ann K"},{"full_name":"Königer, Annabella","first_name":"Annabella","last_name":"Königer"},{"first_name":"John","full_name":"Parsch, John","last_name":"Parsch"}],"year":"2017","date_updated":"2025-07-10T11:49:45Z","abstract":[{"lang":"eng","text":"As a consequence of its difference in copy number between males and females, the X chromosome is subject to unique evolutionary forces and gene regulatory mechanisms. Previous studies of Drosophila melanogaster have shown that the expression of X-linked, testis-specific reporter genes is suppressed in the male germline. However, it is not known whether this phenomenon is restricted to testis-expressed genes or if it is a more general property of genes with tissue-specific expression, which are also underrepresented on the X chromosome. To test this, we compared the expression of three tissue-specific reporter genes (ovary, accessory gland and Malpighian tubule) inserted at various autosomal and X-chromosomal locations. In contrast to testis-specific reporter genes, we found no reduction of X-linked expression in any of the other tissues. In accessory gland and Malpighian tubule, we detected higher expression of the X-linked reporter genes, which suggests that they are at least partially dosage compensated. We found no difference in the tissue-specificity of X-linked and autosomal reporter genes. These findings indicate that, in general, the X chromosome is not a detrimental environment for tissue-specific gene expression and that the suppression of X-linked expression is limited to the male germline."}],"oa_version":"None","page":"27 - 34","related_material":{"record":[{"id":"9861","relation":"research_data","status":"public"}]},"publication_identifier":{"issn":["0018-067X"]},"scopus_import":"1","issue":"1","external_id":{"isi":["000405397800004"]},"date_published":"2017-07-01T00:00:00Z","doi":"10.1038/hdy.2017.12","language":[{"iso":"eng"}],"publication":"Heredity","publication_status":"published","day":"01","type":"journal_article","department":[{"_id":"BeVi"}],"intvolume":"       119","isi":1,"publisher":"Nature Publishing Group","citation":{"ieee":"E. Argyridou, A. K. Huylmans, A. Königer, and J. Parsch, “X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster,” <i>Heredity</i>, vol. 119, no. 1. Nature Publishing Group, pp. 27–34, 2017.","chicago":"Argyridou, Eliza, Ann K Huylmans, Annabella Königer, and John Parsch. “X-Linkage Is Not a General Inhibitor of Tissue-Specific Gene Expression in Drosophila Melanogaster.” <i>Heredity</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/hdy.2017.12\">https://doi.org/10.1038/hdy.2017.12</a>.","mla":"Argyridou, Eliza, et al. “X-Linkage Is Not a General Inhibitor of Tissue-Specific Gene Expression in Drosophila Melanogaster.” <i>Heredity</i>, vol. 119, no. 1, Nature Publishing Group, 2017, pp. 27–34, doi:<a href=\"https://doi.org/10.1038/hdy.2017.12\">10.1038/hdy.2017.12</a>.","ista":"Argyridou E, Huylmans AK, Königer A, Parsch J. 2017. X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster. Heredity. 119(1), 27–34.","ama":"Argyridou E, Huylmans AK, Königer A, Parsch J. X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster. <i>Heredity</i>. 2017;119(1):27-34. doi:<a href=\"https://doi.org/10.1038/hdy.2017.12\">10.1038/hdy.2017.12</a>","short":"E. Argyridou, A.K. Huylmans, A. Königer, J. Parsch, Heredity 119 (2017) 27–34.","apa":"Argyridou, E., Huylmans, A. K., Königer, A., &#38; Parsch, J. (2017). X-linkage is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster. <i>Heredity</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/hdy.2017.12\">https://doi.org/10.1038/hdy.2017.12</a>"},"date_created":"2018-12-11T11:49:43Z"},{"main_file_link":[{"url":"https://arxiv.org/abs/1702.01415","open_access":"1"}],"page":"7885 - 7890","arxiv":1,"oa_version":"Submitted Version","date_updated":"2025-06-04T08:09:49Z","abstract":[{"text":"Cellulose is the most abundant biopolymer on Earth. Cellulose fibers, such as the one extracted form cotton or woodpulp, have been used by humankind for hundreds of years to make textiles and paper. Here we show how, by engineering light-matter interaction, we can optimize light scattering using exclusively cellulose nanocrystals. The produced material is sustainable, biocompatible, and when compared to ordinary microfiber-based paper, it shows enhanced scattering strength (×4), yielding a transport mean free path as low as 3.5 μm in the visible light range. The experimental results are in a good agreement with the theoretical predictions obtained with a diffusive model for light propagation.","lang":"eng"}],"author":[{"full_name":"Caixeiro, Soraya","first_name":"Soraya","last_name":"Caixeiro"},{"orcid":"0000-0002-3415-4628","last_name":"Peruzzo","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","first_name":"Matilda","full_name":"Peruzzo, Matilda"},{"full_name":"Onelli, Olimpia","first_name":"Olimpia","last_name":"Onelli"},{"first_name":"Silvia","full_name":"Vignolini, Silvia","last_name":"Vignolini"},{"first_name":"Riccardo","full_name":"Sapienza, Riccardo","last_name":"Sapienza"}],"year":"2017","article_processing_charge":"No","external_id":{"arxiv":["1702.01415"],"isi":["000396186000002"]},"scopus_import":"1","issue":"9","publication_identifier":{"issn":["1944-8244"]},"title":"Disordered cellulose based nanostructures for enhanced light scattering","volume":9,"status":"public","acknowledgement":"This research was funded by the EPSRC (EP/M027961/1), the Leverhulme Trust (RPG-2014-238), Royal Society (RG140457), the BBSRC David Phillips fellowship (BB/K014617/1), and the European Research Council (ERC-2014-STG H2020 639088). All data created during this research are provided in full in the results section and Supporting Information. They are openly available from figshare and can be accessed at ref 30.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1020","quality_controlled":"1","month":"03","publist_id":"6372","citation":{"ama":"Caixeiro S, Peruzzo M, Onelli O, Vignolini S, Sapienza R. Disordered cellulose based nanostructures for enhanced light scattering. <i>ACS Applied Materials and Interfaces</i>. 2017;9(9):7885-7890. doi:<a href=\"https://doi.org/10.1021/acsami.6b15986\">10.1021/acsami.6b15986</a>","short":"S. Caixeiro, M. Peruzzo, O. Onelli, S. Vignolini, R. Sapienza, ACS Applied Materials and Interfaces 9 (2017) 7885–7890.","apa":"Caixeiro, S., Peruzzo, M., Onelli, O., Vignolini, S., &#38; Sapienza, R. (2017). Disordered cellulose based nanostructures for enhanced light scattering. <i>ACS Applied Materials and Interfaces</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsami.6b15986\">https://doi.org/10.1021/acsami.6b15986</a>","chicago":"Caixeiro, Soraya, Matilda Peruzzo, Olimpia Onelli, Silvia Vignolini, and Riccardo Sapienza. “Disordered Cellulose Based Nanostructures for Enhanced Light Scattering.” <i>ACS Applied Materials and Interfaces</i>. American Chemical Society, 2017. <a href=\"https://doi.org/10.1021/acsami.6b15986\">https://doi.org/10.1021/acsami.6b15986</a>.","ieee":"S. Caixeiro, M. Peruzzo, O. Onelli, S. Vignolini, and R. Sapienza, “Disordered cellulose based nanostructures for enhanced light scattering,” <i>ACS Applied Materials and Interfaces</i>, vol. 9, no. 9. American Chemical Society, pp. 7885–7890, 2017.","ista":"Caixeiro S, Peruzzo M, Onelli O, Vignolini S, Sapienza R. 2017. Disordered cellulose based nanostructures for enhanced light scattering. ACS Applied Materials and Interfaces. 9(9), 7885–7890.","mla":"Caixeiro, Soraya, et al. “Disordered Cellulose Based Nanostructures for Enhanced Light Scattering.” <i>ACS Applied Materials and Interfaces</i>, vol. 9, no. 9, American Chemical Society, 2017, pp. 7885–90, doi:<a href=\"https://doi.org/10.1021/acsami.6b15986\">10.1021/acsami.6b15986</a>."},"publisher":"American Chemical Society","intvolume":"         9","isi":1,"type":"journal_article","department":[{"_id":"JoFi"}],"date_created":"2018-12-11T11:49:44Z","publication":"ACS Applied Materials and Interfaces","language":[{"iso":"eng"}],"doi":"10.1021/acsami.6b15986","oa":1,"date_published":"2017-03-08T00:00:00Z","day":"08","publication_status":"published"},{"day":"25","publication_status":"published","language":[{"iso":"eng"}],"publication":"Journal of Fluid Mechanics","project":[{"name":"Information processing and computation in fish groups","_id":"255008E4-B435-11E9-9278-68D0E5697425","grant_number":"RGP0065/2012"}],"oa":1,"date_published":"2017-04-25T00:00:00Z","doi":"10.1017/jfm.2017.109","date_created":"2018-12-11T11:49:44Z","citation":{"ieee":"J. M. Lopez Alonso and M. Avila, “Boundary layer turbulence in experiments on quasi Keplerian flows,” <i>Journal of Fluid Mechanics</i>, vol. 817. Cambridge University Press, pp. 21–34, 2017.","chicago":"Lopez Alonso, Jose M, and Marc Avila. “Boundary Layer Turbulence in Experiments on Quasi Keplerian Flows.” <i>Journal of Fluid Mechanics</i>. Cambridge University Press, 2017. <a href=\"https://doi.org/10.1017/jfm.2017.109\">https://doi.org/10.1017/jfm.2017.109</a>.","mla":"Lopez Alonso, Jose M., and Marc Avila. “Boundary Layer Turbulence in Experiments on Quasi Keplerian Flows.” <i>Journal of Fluid Mechanics</i>, vol. 817, Cambridge University Press, 2017, pp. 21–34, doi:<a href=\"https://doi.org/10.1017/jfm.2017.109\">10.1017/jfm.2017.109</a>.","ista":"Lopez Alonso JM, Avila M. 2017. Boundary layer turbulence in experiments on quasi Keplerian flows. Journal of Fluid Mechanics. 817, 21–34.","ama":"Lopez Alonso JM, Avila M. Boundary layer turbulence in experiments on quasi Keplerian flows. <i>Journal of Fluid Mechanics</i>. 2017;817:21-34. doi:<a href=\"https://doi.org/10.1017/jfm.2017.109\">10.1017/jfm.2017.109</a>","short":"J.M. Lopez Alonso, M. Avila, Journal of Fluid Mechanics 817 (2017) 21–34.","apa":"Lopez Alonso, J. M., &#38; Avila, M. (2017). Boundary layer turbulence in experiments on quasi Keplerian flows. <i>Journal of Fluid Mechanics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jfm.2017.109\">https://doi.org/10.1017/jfm.2017.109</a>"},"department":[{"_id":"BjHo"}],"type":"journal_article","isi":1,"intvolume":"       817","publisher":"Cambridge University Press","publist_id":"6371","month":"04","quality_controlled":"1","status":"public","volume":817,"title":"Boundary layer turbulence in experiments on quasi Keplerian flows","_id":"1021","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000398179100006"],"arxiv":["1608.05527"]},"publication_identifier":{"issn":["0022-1120"]},"scopus_import":"1","page":"21 - 34","main_file_link":[{"url":"https://arxiv.org/abs/1608.05527","open_access":"1"}],"author":[{"orcid":"0000-0002-0384-2022","last_name":"Lopez Alonso","id":"40770848-F248-11E8-B48F-1D18A9856A87","first_name":"Jose M","full_name":"Lopez Alonso, Jose M"},{"first_name":"Marc","full_name":"Avila, Marc","last_name":"Avila"}],"year":"2017","article_processing_charge":"No","date_updated":"2025-06-04T08:10:13Z","abstract":[{"lang":"eng","text":"Most flows in nature and engineering are turbulent because of their large velocities and spatial scales. Laboratory experiments on rotating quasi-Keplerian flows, for which the angular velocity decreases radially but the angular momentum increases, are however laminar at Reynolds numbers exceeding one million. This is in apparent contradiction to direct numerical simulations showing that in these experiments turbulence transition is triggered by the axial boundaries. We here show numerically that as the Reynolds number increases, turbulence becomes progressively confined to the boundary layers and the flow in the bulk fully relaminarizes. Our findings support that turbulence is unlikely to occur in isothermal constant-density quasi-Keplerian flows."}],"oa_version":"Submitted Version","arxiv":1},{"quality_controlled":"1","month":"01","publist_id":"6373","title":"The topology of the cosmic web in terms of persistent Betti numbers","volume":465,"status":"public","acknowledgement":"Part of this work has been supported by the 7th Framework Programme for Research of the European Commission, under FETOpen grant number 255827 (CGL Computational Geometry Learning) and ERC advanced grant, URSAT (Understanding Random Systems via Algebraic Topology) number 320422.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1022","external_id":{"arxiv":["1608.04519"],"isi":["000395170200039"]},"issue":"4","scopus_import":"1","publication_identifier":{"issn":["0035-8711"]},"main_file_link":[{"url":"https://arxiv.org/abs/1608.04519","open_access":"1"}],"page":"4281 - 4310","arxiv":1,"oa_version":"Submitted Version","date_updated":"2025-06-04T08:10:31Z","abstract":[{"lang":"eng","text":"We introduce a multiscale topological description of the Megaparsec web-like cosmic matter distribution. Betti numbers and topological persistence offer a powerful means of describing the rich connectivity structure of the cosmic web and of its multiscale arrangement of matter and galaxies. Emanating from algebraic topology and Morse theory, Betti numbers and persistence diagrams represent an extension and deepening of the cosmologically familiar topological genus measure and the related geometric Minkowski functionals. In addition to a description of the mathematical background, this study presents the computational procedure for computing Betti numbers and persistence diagrams for density field filtrations. The field may be computed starting from a discrete spatial distribution of galaxies or simulation particles. The main emphasis of this study concerns an extensive and systematic exploration of the imprint of different web-like morphologies and different levels of multiscale clustering in the corresponding computed Betti numbers and persistence diagrams. To this end, we use Voronoi clustering models as templates for a rich variety of web-like configurations and the fractal-like Soneira-Peebles models exemplify a range of multiscale configurations. We have identified the clear imprint of cluster nodes, filaments, walls, and voids in persistence diagrams, along with that of the nested hierarchy of structures in multiscale point distributions. We conclude by outlining the potential of persistent topology for understanding the connectivity structure of the cosmic web, in large simulations of cosmic structure formation and in the challenging context of the observed galaxy distribution in large galaxy surveys."}],"author":[{"full_name":"Pranav, Pratyush","first_name":"Pratyush","last_name":"Pranav"},{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","full_name":"Edelsbrunner, Herbert","last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833"},{"last_name":"Van De Weygaert","first_name":"Rien","full_name":"Van De Weygaert, Rien"},{"last_name":"Vegter","full_name":"Vegter, Gert","first_name":"Gert"},{"last_name":"Kerber","first_name":"Michael","full_name":"Kerber, Michael"},{"full_name":"Jones, Bernard","first_name":"Bernard","last_name":"Jones"},{"id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","full_name":"Wintraecken, Mathijs","first_name":"Mathijs","last_name":"Wintraecken","orcid":"0000-0002-7472-2220"}],"article_processing_charge":"No","year":"2017","day":"01","publication_status":"published","publication":"Monthly Notices of the Royal Astronomical Society","language":[{"iso":"eng"}],"doi":"10.1093/mnras/stw2862","date_published":"2017-01-01T00:00:00Z","oa":1,"date_created":"2018-12-11T11:49:44Z","citation":{"short":"P. Pranav, H. Edelsbrunner, R. Van De Weygaert, G. Vegter, M. Kerber, B. Jones, M. Wintraecken, Monthly Notices of the Royal Astronomical Society 465 (2017) 4281–4310.","ama":"Pranav P, Edelsbrunner H, Van De Weygaert R, et al. The topology of the cosmic web in terms of persistent Betti numbers. <i>Monthly Notices of the Royal Astronomical Society</i>. 2017;465(4):4281-4310. doi:<a href=\"https://doi.org/10.1093/mnras/stw2862\">10.1093/mnras/stw2862</a>","apa":"Pranav, P., Edelsbrunner, H., Van De Weygaert, R., Vegter, G., Kerber, M., Jones, B., &#38; Wintraecken, M. (2017). The topology of the cosmic web in terms of persistent Betti numbers. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/stw2862\">https://doi.org/10.1093/mnras/stw2862</a>","mla":"Pranav, Pratyush, et al. “The Topology of the Cosmic Web in Terms of Persistent Betti Numbers.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 465, no. 4, Oxford University Press, 2017, pp. 4281–310, doi:<a href=\"https://doi.org/10.1093/mnras/stw2862\">10.1093/mnras/stw2862</a>.","ista":"Pranav P, Edelsbrunner H, Van De Weygaert R, Vegter G, Kerber M, Jones B, Wintraecken M. 2017. The topology of the cosmic web in terms of persistent Betti numbers. Monthly Notices of the Royal Astronomical Society. 465(4), 4281–4310.","chicago":"Pranav, Pratyush, Herbert Edelsbrunner, Rien Van De Weygaert, Gert Vegter, Michael Kerber, Bernard Jones, and Mathijs Wintraecken. “The Topology of the Cosmic Web in Terms of Persistent Betti Numbers.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2017. <a href=\"https://doi.org/10.1093/mnras/stw2862\">https://doi.org/10.1093/mnras/stw2862</a>.","ieee":"P. Pranav <i>et al.</i>, “The topology of the cosmic web in terms of persistent Betti numbers,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 465, no. 4. Oxford University Press, pp. 4281–4310, 2017."},"publisher":"Oxford University Press","intvolume":"       465","isi":1,"department":[{"_id":"HeEd"}],"type":"journal_article"},{"has_accepted_license":"1","oa_version":"Published Version","abstract":[{"lang":"eng","text":"We consider products of independent square non-Hermitian random matrices. More precisely, let X1,…, Xn be independent N × N random matrices with independent entries (real or complex with independent real and imaginary parts) with zero mean and variance 1/N. Soshnikov-O’Rourke [19] and Götze-Tikhomirov [15] showed that the empirical spectral distribution of the product of n random matrices with iid entries converges to (equation found). We prove that if the entries of the matrices X1,…, Xn are independent (but not necessarily identically distributed) and satisfy uniform subexponential decay condition, then in the bulk the convergence of the ESD of X1,…, Xn to (0.1) holds up to the scale N–1/2+ε."}],"date_updated":"2025-07-10T11:49:47Z","author":[{"full_name":"Nemish, Yuriy","first_name":"Yuriy","id":"4D902E6A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7327-856X","last_name":"Nemish"}],"year":"2017","article_processing_charge":"No","external_id":{"isi":["000396611900022"]},"scopus_import":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publication_identifier":{"issn":["1083-6489"]},"title":"Local law for the product of independent non-Hermitian random matrices with independent entries","volume":22,"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1023","quality_controlled":"1","month":"02","ddc":["510"],"publist_id":"6370","citation":{"mla":"Nemish, Yuriy. “Local Law for the Product of Independent Non-Hermitian Random Matrices with Independent Entries.” <i>Electronic Journal of Probability</i>, vol. 22, 22, Institute of Mathematical Statistics, 2017, doi:<a href=\"https://doi.org/10.1214/17-EJP38\">10.1214/17-EJP38</a>.","ista":"Nemish Y. 2017. Local law for the product of independent non-Hermitian random matrices with independent entries. Electronic Journal of Probability. 22, 22.","ieee":"Y. Nemish, “Local law for the product of independent non-Hermitian random matrices with independent entries,” <i>Electronic Journal of Probability</i>, vol. 22. Institute of Mathematical Statistics, 2017.","chicago":"Nemish, Yuriy. “Local Law for the Product of Independent Non-Hermitian Random Matrices with Independent Entries.” <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics, 2017. <a href=\"https://doi.org/10.1214/17-EJP38\">https://doi.org/10.1214/17-EJP38</a>.","apa":"Nemish, Y. (2017). Local law for the product of independent non-Hermitian random matrices with independent entries. <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/17-EJP38\">https://doi.org/10.1214/17-EJP38</a>","short":"Y. Nemish, Electronic Journal of Probability 22 (2017).","ama":"Nemish Y. Local law for the product of independent non-Hermitian random matrices with independent entries. <i>Electronic Journal of Probability</i>. 2017;22. doi:<a href=\"https://doi.org/10.1214/17-EJP38\">10.1214/17-EJP38</a>"},"publisher":"Institute of Mathematical Statistics","isi":1,"intvolume":"        22","type":"journal_article","department":[{"_id":"LaEr"}],"pubrep_id":"802","date_created":"2018-12-11T11:49:44Z","file_date_updated":"2018-12-12T10:15:29Z","publication":"Electronic Journal of Probability","file":[{"file_id":"5149","access_level":"open_access","date_updated":"2018-12-12T10:15:29Z","creator":"system","date_created":"2018-12-12T10:15:29Z","file_size":742275,"content_type":"application/pdf","file_name":"IST-2017-802-v1+1_euclid.ejp.1487991681.pdf","relation":"main_file"}],"language":[{"iso":"eng"}],"doi":"10.1214/17-EJP38","oa":1,"date_published":"2017-02-06T00:00:00Z","day":"06","article_number":"22","publication_status":"published"},{"page":"43 - 44","article_processing_charge":"No","year":"2017","author":[{"orcid":"0000-0002-0912-4566","last_name":"Heisenberg","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2025-07-10T11:49:49Z","abstract":[{"lang":"eng","text":"Many organ surfaces are covered by a protective epithelial-cell layer. It emerges that such layers are maintained by cell stretching that triggers cell division mediated by the force-sensitive ion-channel protein Piezo1. See Letter p.118"}],"oa_version":"None","external_id":{"isi":["000395671500025"]},"corr_author":"1","publication_identifier":{"issn":["0028-0836"]},"scopus_import":"1","issue":"7643","status":"public","volume":543,"title":"Cell biology: Stretched divisions","_id":"1025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"6367","month":"03","quality_controlled":"1","citation":{"ama":"Heisenberg C-PJ. Cell biology: Stretched divisions. <i>Nature</i>. 2017;543(7643):43-44. doi:<a href=\"https://doi.org/10.1038/nature21502\">10.1038/nature21502</a>","short":"C.-P.J. Heisenberg, Nature 543 (2017) 43–44.","apa":"Heisenberg, C.-P. J. (2017). Cell biology: Stretched divisions. <i>Nature</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nature21502\">https://doi.org/10.1038/nature21502</a>","ieee":"C.-P. J. Heisenberg, “Cell biology: Stretched divisions,” <i>Nature</i>, vol. 543, no. 7643. Nature Publishing Group, pp. 43–44, 2017.","chicago":"Heisenberg, Carl-Philipp J. “Cell Biology: Stretched Divisions.” <i>Nature</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/nature21502\">https://doi.org/10.1038/nature21502</a>.","ista":"Heisenberg C-PJ. 2017. Cell biology: Stretched divisions. Nature. 543(7643), 43–44.","mla":"Heisenberg, Carl-Philipp J. “Cell Biology: Stretched Divisions.” <i>Nature</i>, vol. 543, no. 7643, Nature Publishing Group, 2017, pp. 43–44, doi:<a href=\"https://doi.org/10.1038/nature21502\">10.1038/nature21502</a>."},"type":"journal_article","department":[{"_id":"CaHe"}],"isi":1,"intvolume":"       543","publisher":"Nature Publishing Group","date_created":"2018-12-11T11:49:45Z","language":[{"iso":"eng"}],"publication":"Nature","date_published":"2017-03-02T00:00:00Z","doi":"10.1038/nature21502","day":"02","publication_status":"published"},{"publication_identifier":{"issn":["09581669"]},"corr_author":"1","scopus_import":"1","external_id":{"isi":["000418313200003"]},"date_updated":"2025-04-15T06:43:11Z","abstract":[{"lang":"eng","text":"The optogenetic revolution enabled spatially-precise and temporally-precise control over protein function, signaling pathway activation, and animal behavior with tremendous success in the dissection of signaling networks and neural circuits. Very recently, optogenetic methods have been paired with optical reporters in novel drug screening platforms. In these all-optical platforms, light remotely activated ion channels and kinases thereby obviating the use of electrophysiology or reagents. Consequences were remarkable operational simplicity, throughput, and cost-effectiveness that culminated in the identification of new drug candidates. These blueprints for all-optical assays also revealed potential pitfalls and inspire all-optical variants of other screens, such as those that aim at better understanding dynamic drug action or orphan protein function."}],"ec_funded":1,"author":[{"last_name":"Agus","full_name":"Agus, Viviana","first_name":"Viviana"},{"id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","full_name":"Janovjak, Harald L","first_name":"Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak"}],"article_processing_charge":"No","year":"2017","oa_version":"None","page":"8 - 14","article_type":"original","publist_id":"6365","quality_controlled":"1","month":"12","_id":"1026","acknowledgement":"This work was supported by grants of the European Union Seventh Framework Programme (CIG-303564), the Human Frontier Science Program (RGY0084_2012), and the Austrian Science Fund FWF (W1232 MolecularDrugTargets).","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"Optogenetic methods in drug screening: Technologies and applications","volume":48,"date_created":"2018-12-11T11:49:45Z","type":"journal_article","department":[{"_id":"HaJa"}],"publisher":"Elsevier","intvolume":"        48","isi":1,"citation":{"apa":"Agus, V., &#38; Janovjak, H. L. (2017). Optogenetic methods in drug screening: Technologies and applications. <i>Current Opinion in Biotechnology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.copbio.2017.02.006\">https://doi.org/10.1016/j.copbio.2017.02.006</a>","short":"V. Agus, H.L. Janovjak, Current Opinion in Biotechnology 48 (2017) 8–14.","ama":"Agus V, Janovjak HL. Optogenetic methods in drug screening: Technologies and applications. <i>Current Opinion in Biotechnology</i>. 2017;48:8-14. doi:<a href=\"https://doi.org/10.1016/j.copbio.2017.02.006\">10.1016/j.copbio.2017.02.006</a>","mla":"Agus, Viviana, and Harald L. Janovjak. “Optogenetic Methods in Drug Screening: Technologies and Applications.” <i>Current Opinion in Biotechnology</i>, vol. 48, Elsevier, 2017, pp. 8–14, doi:<a href=\"https://doi.org/10.1016/j.copbio.2017.02.006\">10.1016/j.copbio.2017.02.006</a>.","ista":"Agus V, Janovjak HL. 2017. Optogenetic methods in drug screening: Technologies and applications. Current Opinion in Biotechnology. 48, 8–14.","chicago":"Agus, Viviana, and Harald L Janovjak. “Optogenetic Methods in Drug Screening: Technologies and Applications.” <i>Current Opinion in Biotechnology</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.copbio.2017.02.006\">https://doi.org/10.1016/j.copbio.2017.02.006</a>.","ieee":"V. Agus and H. L. Janovjak, “Optogenetic methods in drug screening: Technologies and applications,” <i>Current Opinion in Biotechnology</i>, vol. 48. Elsevier, pp. 8–14, 2017."},"publication_status":"published","day":"01","doi":"10.1016/j.copbio.2017.02.006","date_published":"2017-12-01T00:00:00Z","language":[{"iso":"eng"}],"project":[{"_id":"255BFFFA-B435-11E9-9278-68D0E5697425","grant_number":"RGY0084/2012","name":"In situ real-time imaging of neurotransmitter signaling using designer optical sensors"},{"name":"Microbial Ion Channels for Synthetic Neurobiology","_id":"25548C20-B435-11E9-9278-68D0E5697425","grant_number":"303564","call_identifier":"FP7"},{"call_identifier":"FWF","name":"Molecular Drug Targets","_id":"255A6082-B435-11E9-9278-68D0E5697425","grant_number":"W1232-B24"}],"publication":"Current Opinion in Biotechnology"},{"day":"31","publication_status":"published","article_number":"137701","language":[{"iso":"eng"}],"publication":"APS Physics, Physical Review Letters","doi":"10.1103/PhysRevLett.118.137701","date_published":"2017-03-31T00:00:00Z","oa":1,"date_created":"2018-12-11T11:44:39Z","citation":{"mla":"Albrecht, S. M., et al. “Transport Signatures of Quasiparticle Poisoning in a Majorana Island.” <i>APS Physics, Physical Review Letters</i>, vol. 118, no. 13, 137701, American Physical Society, 2017, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.118.137701\">10.1103/PhysRevLett.118.137701</a>.","ista":"Albrecht SM, Hansen E, Higginbotham AP, Kuemmeth F, Jespersen T, Nygård J, Krogstrup P, Danon J, Flensberg K, Marcus C. 2017. Transport signatures of quasiparticle poisoning in a majorana island. APS Physics, Physical Review Letters. 118(13), 137701.","ieee":"S. M. Albrecht <i>et al.</i>, “Transport signatures of quasiparticle poisoning in a majorana island,” <i>APS Physics, Physical Review Letters</i>, vol. 118, no. 13. American Physical Society, 2017.","chicago":"Albrecht, S M, Esben Hansen, Andrew P Higginbotham, Ferdinand Kuemmeth, Thomas Jespersen, Jesper Nygård, Peter Krogstrup, Jeroen Danon, Karsten Flensberg, and Charles Marcus. “Transport Signatures of Quasiparticle Poisoning in a Majorana Island.” <i>APS Physics, Physical Review Letters</i>. American Physical Society, 2017. <a href=\"https://doi.org/10.1103/PhysRevLett.118.137701\">https://doi.org/10.1103/PhysRevLett.118.137701</a>.","apa":"Albrecht, S. M., Hansen, E., Higginbotham, A. P., Kuemmeth, F., Jespersen, T., Nygård, J., … Marcus, C. (2017). Transport signatures of quasiparticle poisoning in a majorana island. <i>APS Physics, Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.118.137701\">https://doi.org/10.1103/PhysRevLett.118.137701</a>","short":"S.M. Albrecht, E. Hansen, A.P. Higginbotham, F. Kuemmeth, T. Jespersen, J. Nygård, P. Krogstrup, J. Danon, K. Flensberg, C. Marcus, APS Physics, Physical Review Letters 118 (2017).","ama":"Albrecht SM, Hansen E, Higginbotham AP, et al. Transport signatures of quasiparticle poisoning in a majorana island. <i>APS Physics, Physical Review Letters</i>. 2017;118(13). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.118.137701\">10.1103/PhysRevLett.118.137701</a>"},"type":"journal_article","publisher":"American Physical Society","intvolume":"       118","publist_id":"7951","quality_controlled":"1","month":"03","status":"public","title":"Transport signatures of quasiparticle poisoning in a majorana island","volume":118,"_id":"103","acknowledgement":"Research supported by Microsoft, the Danish National Research Foundation, the Lundbeck Foundation, Carlsberg Foundation, Villum Foundation, and the European Commission.","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","extern":"1","external_id":{"arxiv":["1612.05748"]},"issue":"13","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1612.05748"}],"abstract":[{"lang":"eng","text":"We investigate effects of quasiparticle poisoning in a Majorana island with strong tunnel coupling to normal-metal leads. In addition to the main Coulomb blockade diamonds, &quot;shadow&quot; diamonds appear, shifted by 1e in gate voltage, consistent with transport through an excited (poisoned) state of the island. Comparison to a simple model yields an estimate of parity lifetime for the strongly coupled island (∼1 μs) and sets a bound for a weakly coupled island (&gt;10 μs). Fluctuations in the gate-voltage spacing of Coulomb peaks at high field, reflecting Majorana hybridization, are enhanced by the reduced lever arm at strong coupling. When converted from gate voltage to energy units, fluctuations are consistent with previous measurements."}],"date_updated":"2021-01-12T06:47:47Z","author":[{"first_name":"S M","full_name":"Albrecht, S M","last_name":"Albrecht"},{"last_name":"Hansen","first_name":"Esben","full_name":"Hansen, Esben"},{"first_name":"Andrew P","full_name":"Higginbotham, Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2607-2363","last_name":"Higginbotham"},{"first_name":"Ferdinand","full_name":"Kuemmeth, Ferdinand","last_name":"Kuemmeth"},{"full_name":"Jespersen, Thomas","first_name":"Thomas","last_name":"Jespersen"},{"full_name":"Nygård, Jesper","first_name":"Jesper","last_name":"Nygård"},{"last_name":"Krogstrup","first_name":"Peter","full_name":"Krogstrup, Peter"},{"full_name":"Danon, Jeroen","first_name":"Jeroen","last_name":"Danon"},{"full_name":"Flensberg, Karsten","first_name":"Karsten","last_name":"Flensberg"},{"last_name":"Marcus","full_name":"Marcus, Charles","first_name":"Charles"}],"year":"2017","arxiv":1,"oa_version":"Preprint"},{"publist_id":"6360","ddc":["020"],"month":"01","_id":"1030","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","volume":3,"title":"Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library","corr_author":"1","publication_identifier":{"issn":["2297-3249"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"issue":"1","article_processing_charge":"No","year":"2017","author":[{"orcid":"0000-0001-8126-0426","last_name":"Villányi","id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","full_name":"Villányi, Márton","first_name":"Márton"}],"abstract":[{"text":"Auf der Suche nach einem Bibliothekssystem entschied sich die Forschungseinrichtung IST Austria im Jahr 2014 für das Open-Source-Produkt Koha. In einem ersten Schritt wurden zunächst Grundfunktionen aktiviert um im Anschluss diverse zusätzliche Tools zum Einsatz zu bringen. Die große Flexibilität des Systems erlaubt maßgeschneiderte Lösungen für unterschiedlichste Institutionen. Trotz Herausforderungen kann die Bibliothek auf eine erfolgreiche Implementierung zurückblicken.","lang":"ger"},{"text":"IST Austria was looking for a new library system until 2014 when the research institute decided\r\nto implement Koha. The library first activated basic functions of the open-source product and\r\nthen brought additional tools into operation. The high flexibility of the system allows customized\r\nsolutions for different institutions. Although the library faced some challenges, it can now look\r\nback on a successful implementation.","lang":"eng"}],"date_updated":"2024-10-09T20:57:18Z","oa_version":"Published Version","has_accepted_license":"1","article_type":"original","publication_status":"published","day":"01","date_published":"2017-01-01T00:00:00Z","oa":1,"doi":"10.11588/ip.2017.1.35227","language":[{"iso":"eng"}],"file":[{"creator":"system","date_updated":"2018-12-12T10:08:20Z","access_level":"open_access","file_id":"4680","relation":"main_file","file_name":"IST-2017-799-v1+1_35227-112025-1-PB.pdf","content_type":"application/pdf","date_created":"2018-12-12T10:08:20Z","file_size":201163}],"file_date_updated":"2018-12-12T10:08:20Z","publication":"Informationspraxis","date_created":"2018-12-11T11:49:46Z","pubrep_id":"799","type":"journal_article","department":[{"_id":"E-Lib"}],"intvolume":"         3","publisher":"Verein Informationspraxis ","citation":{"chicago":"Villányi, Márton. “Ein Freies Bibliothekssystem Für Wissenschaftliche Bibliotheken – Werkstattbericht Der IST Austria Library.” <i>Informationspraxis</i>. Verein Informationspraxis , 2017. <a href=\"https://doi.org/10.11588/ip.2017.1.35227\">https://doi.org/10.11588/ip.2017.1.35227</a>.","ieee":"M. Villányi, “Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library,” <i>Informationspraxis</i>, vol. 3, no. 1. Verein Informationspraxis , 2017.","ista":"Villányi M. 2017. Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. Informationspraxis. 3(1).","mla":"Villányi, Márton. “Ein Freies Bibliothekssystem Für Wissenschaftliche Bibliotheken – Werkstattbericht Der IST Austria Library.” <i>Informationspraxis</i>, vol. 3, no. 1, Verein Informationspraxis , 2017, doi:<a href=\"https://doi.org/10.11588/ip.2017.1.35227\">10.11588/ip.2017.1.35227</a>.","ama":"Villányi M. Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. <i>Informationspraxis</i>. 2017;3(1). doi:<a href=\"https://doi.org/10.11588/ip.2017.1.35227\">10.11588/ip.2017.1.35227</a>","short":"M. Villányi, Informationspraxis 3 (2017).","apa":"Villányi, M. (2017). Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. <i>Informationspraxis</i>. Verein Informationspraxis . <a href=\"https://doi.org/10.11588/ip.2017.1.35227\">https://doi.org/10.11588/ip.2017.1.35227</a>"},"popular_science":"1"},{"quality_controlled":"1","month":"11","ddc":["540"],"_id":"10369","acknowledgement":"M.S. and G.A.V. acknowledge their research reported in this publication as being supported by the National Institute of General Medical Sciences of the National Institutes of Health under Award Number R01-GM063796. Computational resources were provided to M.S. and G.A.V. by the National Science Foundation through XSEDE (Grant TG-MCA94P017, supercomputers Stampede and Gordon), and also by the Blue Waters computing project at the National Center for Supercomputing Applications (University of Illinois at Urbana–Champaign, NSF Awards OCI-0725070 and ACI-1238993). A.Š. acknowledges support from the Human Frontier Science Program and Royal Society. J.M.H. and K.Y.C.L. acknowledge the support from the National Science Foundation (Grant MCB-1413613) and the NSF-supported MRSEC program at the University of Chicago (Grant DMR-1420709). We are grateful to Carsten Mim and Vinzenz Unger of Northwestern University for generously providing us with the protein. We thank all the members of the Voth group for fruitful discussions, especially John M. A. Grime.","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","status":"public","title":"Long-range organization of membrane-curving proteins","volume":3,"keyword":["general chemical engineering","general chemistry"],"publication_identifier":{"issn":["2374-7943"],"eissn":["2374-7951"]},"issue":"12","scopus_import":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"extern":"1","external_id":{"pmid":["29296664"]},"abstract":[{"lang":"eng","text":"Biological membranes have a central role in mediating the organization of membrane-curving proteins, a dynamic process that has proven to be challenging to probe experimentally. Using atomic force microscopy, we capture the hierarchically organized assemblies of Bin/amphiphysin/Rvs (BAR) proteins on supported lipid membranes. Their structure reveals distinct long linear aggregates of proteins, regularly spaced by up to 300 nm. Employing accurate free-energy calculations from large-scale coarse-grained computer simulations, we found that the membrane mediates the interaction among protein filaments as a combination of short- and long-ranged interactions. The long-ranged component acts at strikingly long distances, giving rise to a variety of micron-sized ordered patterns. This mechanism may contribute to the long-ranged spatiotemporal control of membrane remodeling by proteins in the cell."}],"date_updated":"2021-11-29T09:28:06Z","year":"2017","author":[{"last_name":"Simunovic","first_name":"Mijo","full_name":"Simunovic, Mijo"},{"orcid":"0000-0002-7854-2139","last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela"},{"full_name":"Henderson, J. Michael","first_name":"J. Michael","last_name":"Henderson"},{"last_name":"Lee","full_name":"Lee, Ka Yee C.","first_name":"Ka Yee C."},{"full_name":"Voth, Gregory A.","first_name":"Gregory A.","last_name":"Voth"}],"article_processing_charge":"No","pmid":1,"has_accepted_license":"1","oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://pubs.acs.org/doi/10.1021/acscentsci.7b00392"}],"page":"1246-1253","article_type":"original","publication_status":"published","day":"21","doi":"10.1021/acscentsci.7b00392","date_published":"2017-11-21T00:00:00Z","oa":1,"file":[{"checksum":"1cf3e5e5342f2d728f47560acc3ec560","relation":"main_file","file_name":"2017_ACSCentSci_Simunovic.pdf","content_type":"application/pdf","file_size":2635263,"date_created":"2021-11-29T09:00:40Z","success":1,"date_updated":"2021-11-29T09:00:40Z","creator":"cchlebak","access_level":"open_access","file_id":"10371"}],"language":[{"iso":"eng"}],"file_date_updated":"2021-11-29T09:00:40Z","publication":"ACS Central Science","date_created":"2021-11-29T08:49:50Z","type":"journal_article","publisher":"American Chemical Society","intvolume":"         3","citation":{"ieee":"M. Simunovic, A. Šarić, J. M. Henderson, K. Y. C. Lee, and G. A. Voth, “Long-range organization of membrane-curving proteins,” <i>ACS Central Science</i>, vol. 3, no. 12. American Chemical Society, pp. 1246–1253, 2017.","chicago":"Simunovic, Mijo, Anđela Šarić, J. Michael Henderson, Ka Yee C. Lee, and Gregory A. Voth. “Long-Range Organization of Membrane-Curving Proteins.” <i>ACS Central Science</i>. American Chemical Society, 2017. <a href=\"https://doi.org/10.1021/acscentsci.7b00392\">https://doi.org/10.1021/acscentsci.7b00392</a>.","ista":"Simunovic M, Šarić A, Henderson JM, Lee KYC, Voth GA. 2017. Long-range organization of membrane-curving proteins. ACS Central Science. 3(12), 1246–1253.","mla":"Simunovic, Mijo, et al. “Long-Range Organization of Membrane-Curving Proteins.” <i>ACS Central Science</i>, vol. 3, no. 12, American Chemical Society, 2017, pp. 1246–53, doi:<a href=\"https://doi.org/10.1021/acscentsci.7b00392\">10.1021/acscentsci.7b00392</a>.","ama":"Simunovic M, Šarić A, Henderson JM, Lee KYC, Voth GA. Long-range organization of membrane-curving proteins. <i>ACS Central Science</i>. 2017;3(12):1246-1253. doi:<a href=\"https://doi.org/10.1021/acscentsci.7b00392\">10.1021/acscentsci.7b00392</a>","short":"M. Simunovic, A. Šarić, J.M. Henderson, K.Y.C. Lee, G.A. Voth, ACS Central Science 3 (2017) 1246–1253.","apa":"Simunovic, M., Šarić, A., Henderson, J. M., Lee, K. Y. C., &#38; Voth, G. A. (2017). Long-range organization of membrane-curving proteins. <i>ACS Central Science</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acscentsci.7b00392\">https://doi.org/10.1021/acscentsci.7b00392</a>"}},{"quality_controlled":"1","month":"11","ddc":["572"],"title":"Mechanical force induces mitochondrial fission","volume":6,"status":"public","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"10370","external_id":{"pmid":["29119945"]},"extern":"1","scopus_import":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publication_identifier":{"issn":["2050-084X"]},"keyword":["general immunology and microbiology","general biochemistry","genetics and molecular biology","general medicine","general neuroscience"],"article_type":"original","main_file_link":[{"url":"https://elifesciences.org/articles/30292","open_access":"1"}],"pmid":1,"oa_version":"Published Version","has_accepted_license":"1","date_updated":"2021-11-29T09:28:14Z","abstract":[{"text":"Eukaryotic cells are densely packed with macromolecular complexes and intertwining organelles, continually transported and reshaped. Intriguingly, organelles avoid clashing and entangling with each other in such limited space. Mitochondria form extensive networks constantly remodeled by fission and fusion. Here, we show that mitochondrial fission is triggered by mechanical forces. Mechano-stimulation of mitochondria – via encounter with motile intracellular pathogens, via external pressure applied by an atomic force microscope, or via cell migration across uneven microsurfaces – results in the recruitment of the mitochondrial fission machinery, and subsequent division. We propose that MFF, owing to affinity for narrow mitochondria, acts as a membrane-bound force sensor to recruit the fission machinery to mechanically strained sites. Thus, mitochondria adapt to the environment by sensing and responding to biomechanical cues. Our findings that mechanical triggers can be coupled to biochemical responses in membrane dynamics may explain how organelles orderly cohabit in the crowded cytoplasm.","lang":"eng"}],"year":"2017","author":[{"last_name":"Helle","first_name":"Sebastian Carsten Johannes","full_name":"Helle, Sebastian Carsten Johannes"},{"first_name":"Qian","full_name":"Feng, Qian","last_name":"Feng"},{"last_name":"Aebersold","full_name":"Aebersold, Mathias J","first_name":"Mathias J"},{"last_name":"Hirt","full_name":"Hirt, Luca","first_name":"Luca"},{"last_name":"Grüter","full_name":"Grüter, Raphael R","first_name":"Raphael R"},{"full_name":"Vahid, Afshin","first_name":"Afshin","last_name":"Vahid"},{"last_name":"Sirianni","full_name":"Sirianni, Andrea","first_name":"Andrea"},{"full_name":"Mostowy, Serge","first_name":"Serge","last_name":"Mostowy"},{"last_name":"Snedeker","full_name":"Snedeker, Jess G","first_name":"Jess G"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","full_name":"Šarić, Anđela","last_name":"Šarić","orcid":"0000-0002-7854-2139"},{"full_name":"Idema, Timon","first_name":"Timon","last_name":"Idema"},{"full_name":"Zambelli, Tomaso","first_name":"Tomaso","last_name":"Zambelli"},{"full_name":"Kornmann, Benoît","first_name":"Benoît","last_name":"Kornmann"}],"article_processing_charge":"No","day":"09","article_number":"e30292","publication_status":"published","file_date_updated":"2021-11-29T09:07:41Z","publication":"eLife","file":[{"date_updated":"2021-11-29T09:07:41Z","creator":"cchlebak","success":1,"access_level":"open_access","file_id":"10372","checksum":"c35f42dcfb007f6d6c761a27e24c26d3","relation":"main_file","file_name":"2017_eLife_Helle.pdf","file_size":6120157,"date_created":"2021-11-29T09:07:41Z","content_type":"application/pdf"}],"language":[{"iso":"eng"}],"doi":"10.7554/elife.30292","oa":1,"date_published":"2017-11-09T00:00:00Z","date_created":"2021-11-29T08:51:38Z","citation":{"chicago":"Helle, Sebastian Carsten Johannes, Qian Feng, Mathias J Aebersold, Luca Hirt, Raphael R Grüter, Afshin Vahid, Andrea Sirianni, et al. “Mechanical Force Induces Mitochondrial Fission.” <i>ELife</i>. eLife Sciences Publications, 2017. <a href=\"https://doi.org/10.7554/elife.30292\">https://doi.org/10.7554/elife.30292</a>.","ieee":"S. C. J. Helle <i>et al.</i>, “Mechanical force induces mitochondrial fission,” <i>eLife</i>, vol. 6. eLife Sciences Publications, 2017.","mla":"Helle, Sebastian Carsten Johannes, et al. “Mechanical Force Induces Mitochondrial Fission.” <i>ELife</i>, vol. 6, e30292, eLife Sciences Publications, 2017, doi:<a href=\"https://doi.org/10.7554/elife.30292\">10.7554/elife.30292</a>.","ista":"Helle SCJ, Feng Q, Aebersold MJ, Hirt L, Grüter RR, Vahid A, Sirianni A, Mostowy S, Snedeker JG, Šarić A, Idema T, Zambelli T, Kornmann B. 2017. Mechanical force induces mitochondrial fission. eLife. 6, e30292.","apa":"Helle, S. C. J., Feng, Q., Aebersold, M. J., Hirt, L., Grüter, R. R., Vahid, A., … Kornmann, B. (2017). Mechanical force induces mitochondrial fission. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/elife.30292\">https://doi.org/10.7554/elife.30292</a>","ama":"Helle SCJ, Feng Q, Aebersold MJ, et al. Mechanical force induces mitochondrial fission. <i>eLife</i>. 2017;6. doi:<a href=\"https://doi.org/10.7554/elife.30292\">10.7554/elife.30292</a>","short":"S.C.J. Helle, Q. Feng, M.J. Aebersold, L. Hirt, R.R. Grüter, A. Vahid, A. Sirianni, S. Mostowy, J.G. Snedeker, A. Šarić, T. Idema, T. Zambelli, B. Kornmann, ELife 6 (2017)."},"publisher":"eLife Sciences Publications","intvolume":"         6","type":"journal_article"},{"date_created":"2021-11-29T09:28:24Z","type":"journal_article","intvolume":"       114","publisher":"National Academy of Sciences","citation":{"ieee":"P. Wirnsberger, D. Fijan, R. A. Lightwood, A. Šarić, C. Dellago, and D. Frenkel, “Numerical evidence for thermally induced monopoles,” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 19. National Academy of Sciences, pp. 4911–4914, 2017.","chicago":"Wirnsberger, Peter, Domagoj Fijan, Roger A. Lightwood, Anđela Šarić, Christoph Dellago, and Daan Frenkel. “Numerical Evidence for Thermally Induced Monopoles.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1621494114\">https://doi.org/10.1073/pnas.1621494114</a>.","ista":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. 2017. Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences. 114(19), 4911–4914.","mla":"Wirnsberger, Peter, et al. “Numerical Evidence for Thermally Induced Monopoles.” <i>Proceedings of the National Academy of Sciences</i>, vol. 114, no. 19, National Academy of Sciences, 2017, pp. 4911–14, doi:<a href=\"https://doi.org/10.1073/pnas.1621494114\">10.1073/pnas.1621494114</a>.","ama":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. Numerical evidence for thermally induced monopoles. <i>Proceedings of the National Academy of Sciences</i>. 2017;114(19):4911-4914. doi:<a href=\"https://doi.org/10.1073/pnas.1621494114\">10.1073/pnas.1621494114</a>","short":"P. Wirnsberger, D. Fijan, R.A. Lightwood, A. Šarić, C. Dellago, D. Frenkel, Proceedings of the National Academy of Sciences 114 (2017) 4911–4914.","apa":"Wirnsberger, P., Fijan, D., Lightwood, R. A., Šarić, A., Dellago, C., &#38; Frenkel, D. (2017). Numerical evidence for thermally induced monopoles. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1621494114\">https://doi.org/10.1073/pnas.1621494114</a>"},"publication_status":"published","day":"24","date_published":"2017-04-24T00:00:00Z","oa":1,"doi":"10.1073/pnas.1621494114","language":[{"iso":"eng"}],"publication":"Proceedings of the National Academy of Sciences","keyword":["multidisciplinary"],"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"scopus_import":"1","issue":"19","extern":"1","external_id":{"arxiv":["1610.06840"],"pmid":["28439003"]},"author":[{"first_name":"Peter","full_name":"Wirnsberger, Peter","last_name":"Wirnsberger"},{"last_name":"Fijan","first_name":"Domagoj","full_name":"Fijan, Domagoj"},{"full_name":"Lightwood, Roger A.","first_name":"Roger A.","last_name":"Lightwood"},{"last_name":"Šarić","orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b"},{"first_name":"Christoph","full_name":"Dellago, Christoph","last_name":"Dellago"},{"last_name":"Frenkel","full_name":"Frenkel, Daan","first_name":"Daan"}],"article_processing_charge":"No","year":"2017","abstract":[{"lang":"eng","text":"Electric charges are conserved. The same would be expected to hold for magnetic charges, yet magnetic monopoles have never been observed. It is therefore surprising that the laws of nonequilibrium thermodynamics, combined with Maxwell’s equations, suggest that colloidal particles heated or cooled in certain polar or paramagnetic solvents may behave as if they carry an electric/magnetic charge. Here, we present numerical simulations that show that the field distribution around a pair of such heated/cooled colloidal particles agrees quantitatively with the theoretical predictions for a pair of oppositely charged electric or magnetic monopoles. However, in other respects, the nonequilibrium colloidal particles do not behave as monopoles: They cannot be moved by a homogeneous applied field. The numerical evidence for the monopole-like fields around heated/cooled colloidal particles is crucial because the experimental and numerical determination of forces between such colloidal particles would be complicated by the presence of other effects, such as thermophoresis."}],"date_updated":"2021-11-29T09:59:12Z","oa_version":"Published Version","arxiv":1,"pmid":1,"page":"4911-4914","main_file_link":[{"url":"https://www.pnas.org/content/114/19/4911","open_access":"1"}],"article_type":"original","month":"04","quality_controlled":"1","_id":"10373","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"P.W. acknowledges many invaluable discussions with Martin Neumann, Chao Zhang, Michiel Sprik, Aleks Reinhardt, Carl Pölking, and Tine Curk. We acknowledge financial support from the Austrian Academy of Sciences through a doctoral (DOC) fellowship (to P.W.), the Austrian Science Fund (FWF) within the Spezialforschungsbereich Vienna Computational Materials Laboratory (Project F41) (C.D.), and the European Union Early Training Network NANOTRANS (Grant 674979 to D. Frenkel). The results presented here have been achieved in part using the Vienna Scientific Cluster.","status":"public","volume":114,"title":"Numerical evidence for thermally induced monopoles"},{"keyword":["general chemistry"],"publication_identifier":{"eissn":["2041-6539"],"issn":["2041-6520"]},"scopus_import":"1","issue":"10","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/3.0/legalcode","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)","short":"CC BY-NC (3.0)"},"external_id":{"pmid":["29147538"]},"extern":"1","abstract":[{"lang":"eng","text":"The formation of filaments from naturally occurring protein molecules is a process at the core of a range of functional and aberrant biological phenomena, such as the assembly of the cytoskeleton or the appearance of aggregates in Alzheimer's disease. The macroscopic behaviour associated with such processes is remarkably diverse, ranging from simple nucleated growth to highly cooperative processes with a well-defined lagtime. Thus, conventionally, different molecular mechanisms have been used to explain the self-assembly of different proteins. Here we show that this range of behaviour can be quantitatively captured by a single unifying Petri net that describes filamentous growth in terms of aggregate number and aggregate mass concentrations. By considering general features associated with a particular network connectivity, we are able to establish directly the rate-determining steps of the overall aggregation reaction from the system's scaling behaviour. We illustrate the power of this framework on a range of different experimental and simulated aggregating systems. The approach is general and will be applicable to any future extensions of the reaction network of filamentous self-assembly."}],"date_updated":"2021-11-29T10:00:00Z","author":[{"last_name":"Meisl","full_name":"Meisl, Georg","first_name":"Georg"},{"last_name":"Rajah","full_name":"Rajah, Luke","first_name":"Luke"},{"first_name":"Samuel A. I.","full_name":"Cohen, Samuel A. I.","last_name":"Cohen"},{"last_name":"Pfammatter","first_name":"Manuela","full_name":"Pfammatter, Manuela"},{"last_name":"Šarić","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela"},{"full_name":"Hellstrand, Erik","first_name":"Erik","last_name":"Hellstrand"},{"first_name":"Alexander K.","full_name":"Buell, Alexander K.","last_name":"Buell"},{"last_name":"Aguzzi","full_name":"Aguzzi, Adriano","first_name":"Adriano"},{"last_name":"Linse","full_name":"Linse, Sara","first_name":"Sara"},{"last_name":"Vendruscolo","first_name":"Michele","full_name":"Vendruscolo, Michele"},{"first_name":"Christopher M.","full_name":"Dobson, Christopher M.","last_name":"Dobson"},{"last_name":"Knowles","first_name":"Tuomas P. J.","full_name":"Knowles, Tuomas P. J."}],"article_processing_charge":"No","year":"2017","pmid":1,"oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://pubs.rsc.org/en/content/articlelanding/2017/SC/C7SC01965C"}],"page":"7087-7097","article_type":"original","license":"https://creativecommons.org/licenses/by-nc/3.0/","quality_controlled":"1","month":"08","ddc":["540"],"_id":"10374","acknowledgement":"The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (FP7/2007-2013) through the ERC grant PhysProt (agreement no. 337969) (SL, TPJK), Sidney Sussex College Cambridge (GM), the Frances and Augusta Newman Foundation (TPJK), the Biotechnology and Biological Science Research Council (TPJK), the Swedish Research Council (SL), the Academy of Medical Sciences (AŠ), Wellcome Trust (AŠ), and the Cambridge Centre for Misfolding Diseases (CMD, TPJK, MV).","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","status":"public","title":"Scaling behaviour and rate-determining steps in filamentous self-assembly","volume":8,"date_created":"2021-11-29T09:29:31Z","type":"journal_article","publisher":"Royal Society of Chemistry","intvolume":"         8","citation":{"apa":"Meisl, G., Rajah, L., Cohen, S. A. I., Pfammatter, M., Šarić, A., Hellstrand, E., … Knowles, T. P. J. (2017). Scaling behaviour and rate-determining steps in filamentous self-assembly. <i>Chemical Science</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/c7sc01965c\">https://doi.org/10.1039/c7sc01965c</a>","ama":"Meisl G, Rajah L, Cohen SAI, et al. Scaling behaviour and rate-determining steps in filamentous self-assembly. <i>Chemical Science</i>. 2017;8(10):7087-7097. doi:<a href=\"https://doi.org/10.1039/c7sc01965c\">10.1039/c7sc01965c</a>","short":"G. Meisl, L. Rajah, S.A.I. Cohen, M. Pfammatter, A. Šarić, E. Hellstrand, A.K. Buell, A. Aguzzi, S. Linse, M. Vendruscolo, C.M. Dobson, T.P.J. Knowles, Chemical Science 8 (2017) 7087–7097.","chicago":"Meisl, Georg, Luke Rajah, Samuel A. I. Cohen, Manuela Pfammatter, Anđela Šarić, Erik Hellstrand, Alexander K. Buell, et al. “Scaling Behaviour and Rate-Determining Steps in Filamentous Self-Assembly.” <i>Chemical Science</i>. Royal Society of Chemistry, 2017. <a href=\"https://doi.org/10.1039/c7sc01965c\">https://doi.org/10.1039/c7sc01965c</a>.","ieee":"G. Meisl <i>et al.</i>, “Scaling behaviour and rate-determining steps in filamentous self-assembly,” <i>Chemical Science</i>, vol. 8, no. 10. Royal Society of Chemistry, pp. 7087–7097, 2017.","mla":"Meisl, Georg, et al. “Scaling Behaviour and Rate-Determining Steps in Filamentous Self-Assembly.” <i>Chemical Science</i>, vol. 8, no. 10, Royal Society of Chemistry, 2017, pp. 7087–97, doi:<a href=\"https://doi.org/10.1039/c7sc01965c\">10.1039/c7sc01965c</a>.","ista":"Meisl G, Rajah L, Cohen SAI, Pfammatter M, Šarić A, Hellstrand E, Buell AK, Aguzzi A, Linse S, Vendruscolo M, Dobson CM, Knowles TPJ. 2017. Scaling behaviour and rate-determining steps in filamentous self-assembly. Chemical Science. 8(10), 7087–7097."},"publication_status":"published","day":"31","doi":"10.1039/c7sc01965c","date_published":"2017-08-31T00:00:00Z","oa":1,"language":[{"iso":"eng"}],"publication":"Chemical Science"},{"intvolume":"        13","publisher":"Royal Society of Chemistry","type":"journal_article","citation":{"chicago":"Vahid, Afshin, Anđela Šarić, and Timon Idema. “Curvature Variation Controls Particle Aggregation on Fluid Vesicles.” <i>Soft Matter</i>. Royal Society of Chemistry, 2017. <a href=\"https://doi.org/10.1039/c7sm00433h\">https://doi.org/10.1039/c7sm00433h</a>.","ieee":"A. Vahid, A. Šarić, and T. Idema, “Curvature variation controls particle aggregation on fluid vesicles,” <i>Soft Matter</i>, vol. 13, no. 28. Royal Society of Chemistry, pp. 4924–4930, 2017.","ista":"Vahid A, Šarić A, Idema T. 2017. Curvature variation controls particle aggregation on fluid vesicles. Soft Matter. 13(28), 4924–4930.","mla":"Vahid, Afshin, et al. “Curvature Variation Controls Particle Aggregation on Fluid Vesicles.” <i>Soft Matter</i>, vol. 13, no. 28, Royal Society of Chemistry, 2017, pp. 4924–30, doi:<a href=\"https://doi.org/10.1039/c7sm00433h\">10.1039/c7sm00433h</a>.","ama":"Vahid A, Šarić A, Idema T. Curvature variation controls particle aggregation on fluid vesicles. <i>Soft Matter</i>. 2017;13(28):4924-4930. doi:<a href=\"https://doi.org/10.1039/c7sm00433h\">10.1039/c7sm00433h</a>","short":"A. Vahid, A. Šarić, T. Idema, Soft Matter 13 (2017) 4924–4930.","apa":"Vahid, A., Šarić, A., &#38; Idema, T. (2017). Curvature variation controls particle aggregation on fluid vesicles. <i>Soft Matter</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/c7sm00433h\">https://doi.org/10.1039/c7sm00433h</a>"},"date_created":"2021-11-29T10:00:39Z","oa":1,"date_published":"2017-06-15T00:00:00Z","doi":"10.1039/c7sm00433h","publication":"Soft Matter","language":[{"iso":"eng"}],"publication_status":"published","day":"15","arxiv":1,"oa_version":"Published Version","pmid":1,"year":"2017","article_processing_charge":"No","author":[{"first_name":"Afshin","full_name":"Vahid, Afshin","last_name":"Vahid"},{"last_name":"Šarić","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","full_name":"Šarić, Anđela"},{"first_name":"Timon","full_name":"Idema, Timon","last_name":"Idema"}],"date_updated":"2021-11-29T10:33:36Z","abstract":[{"text":"Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by proteins. This interaction works both ways: while proteins influence the membrane shape, the membrane shape affects the interactions between the proteins. To study these membrane-mediated interactions on closed and anisotropically curved membranes, we use colloids adhered to ellipsoidal membrane vesicles as a model system. We find that two particles on a closed system always attract each other, and tend to align with the direction of largest curvature. Multiple particles form arcs, or, at large enough numbers, a complete ring surrounding the vesicle in its equatorial plane. The resulting vesicle shape resembles a snowman. Our results indicate that these physical interactions on membranes with anisotropic shapes can be exploited by cells to drive macromolecules to preferred regions of cellular or intracellular membranes, and utilized to initiate dynamic processes such as cell division. The same principle could be used to find the midplane of an artificial vesicle, as a first step towards dividing it into two equal parts.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by/3.0/","article_type":"original","page":"4924-4930","main_file_link":[{"open_access":"1","url":"https://pubs.rsc.org/en/content/articlelanding/2017/SM/C7SM00433H"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","short":"CC BY (3.0)"},"scopus_import":"1","issue":"28","keyword":["condensed matter physics","general chemistry"],"publication_identifier":{"eissn":["1744-6848"],"issn":["1744-683X"]},"external_id":{"pmid":["28677712"],"arxiv":["1703.00776"]},"extern":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"This work was supported by the Netherlands Organisation for Scientific Research (NWO/OCW), as part of the Frontiers of Nanoscience program.","_id":"10375","volume":13,"title":"Curvature variation controls particle aggregation on fluid vesicles","status":"public","month":"06","quality_controlled":"1"},{"oa":1,"conference":{"start_date":"2018-01-07","end_date":"2018-01-13","location":"Los Angeles, CA, United States","name":"POPL: Programming Languages"},"date_published":"2017-12-27T00:00:00Z","doi":"10.1145/3158118","language":[{"iso":"eng"}],"file":[{"access_level":"open_access","date_updated":"2021-12-07T08:06:28Z","creator":"cchlebak","success":1,"file_id":"10421","file_name":"2017_ACMProgLang_Chatterjee.pdf","relation":"main_file","checksum":"faa3f7b3fe8aab84b50ed805c26a0ee5","date_created":"2021-12-07T08:06:28Z","file_size":460188,"content_type":"application/pdf"}],"project":[{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF"},{"grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF"}],"publication":"Proceedings of the ACM on Programming Languages","file_date_updated":"2021-12-07T08:06:28Z","publication_status":"published","article_number":"30","day":"27","department":[{"_id":"KrCh"}],"type":"journal_article","intvolume":"         2","publisher":"Association for Computing Machinery","citation":{"ieee":"K. Chatterjee, B. Choudhary, and A. Pavlogiannis, “Optimal Dyck reachability for data-dependence and Alias analysis,” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL. Association for Computing Machinery, 2017.","chicago":"Chatterjee, Krishnendu, Bhavya Choudhary, and Andreas Pavlogiannis. “Optimal Dyck Reachability for Data-Dependence and Alias Analysis.” <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery, 2017. <a href=\"https://doi.org/10.1145/3158118\">https://doi.org/10.1145/3158118</a>.","mla":"Chatterjee, Krishnendu, et al. “Optimal Dyck Reachability for Data-Dependence and Alias Analysis.” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL, 30, Association for Computing Machinery, 2017, doi:<a href=\"https://doi.org/10.1145/3158118\">10.1145/3158118</a>.","ista":"Chatterjee K, Choudhary B, Pavlogiannis A. 2017. Optimal Dyck reachability for data-dependence and Alias analysis. Proceedings of the ACM on Programming Languages. 2(POPL), 30.","apa":"Chatterjee, K., Choudhary, B., &#38; Pavlogiannis, A. (2017). Optimal Dyck reachability for data-dependence and Alias analysis. <i>Proceedings of the ACM on Programming Languages</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3158118\">https://doi.org/10.1145/3158118</a>","ama":"Chatterjee K, Choudhary B, Pavlogiannis A. Optimal Dyck reachability for data-dependence and Alias analysis. <i>Proceedings of the ACM on Programming Languages</i>. 2017;2(POPL). doi:<a href=\"https://doi.org/10.1145/3158118\">10.1145/3158118</a>","short":"K. Chatterjee, B. Choudhary, A. Pavlogiannis, Proceedings of the ACM on Programming Languages 2 (2017)."},"date_created":"2021-12-05T23:01:48Z","_id":"10416","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"The research was partly supported by Austrian Science Fund (FWF) Grant No P23499-N23, FWF NFN Grant No S11407-N23 (RiSE/SHiNE), and ERC Start grant (279307: Graph Games).\r\n","status":"public","volume":2,"title":"Optimal Dyck reachability for data-dependence and Alias analysis","month":"12","ddc":["000"],"quality_controlled":"1","article_processing_charge":"No","year":"2017","author":[{"last_name":"Chatterjee","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu"},{"last_name":"Choudhary","first_name":"Bhavya","full_name":"Choudhary, Bhavya"},{"orcid":"0000-0002-8943-0722","last_name":"Pavlogiannis","full_name":"Pavlogiannis, Andreas","first_name":"Andreas","id":"49704004-F248-11E8-B48F-1D18A9856A87"}],"ec_funded":1,"date_updated":"2025-04-15T07:26:20Z","abstract":[{"text":"A fundamental algorithmic problem at the heart of static analysis is Dyck reachability. The input is a graph where the edges are labeled with different types of opening and closing parentheses, and the reachability information is computed via paths whose parentheses are properly matched. We present new results for Dyck reachability problems with applications to alias analysis and data-dependence analysis. Our main contributions, that include improved upper bounds as well as lower bounds that establish optimality guarantees, are as follows: First, we consider Dyck reachability on bidirected graphs, which is the standard way of performing field-sensitive points-to analysis. Given a bidirected graph with n nodes and m edges, we present: (i) an algorithm with worst-case running time O(m + n · α(n)), where α(n) is the inverse Ackermann function, improving the previously known O(n2) time bound; (ii) a matching lower bound that shows that our algorithm is optimal wrt to worst-case complexity; and (iii) an optimal average-case upper bound of O(m) time, improving the previously known O(m · logn) bound. Second, we consider the problem of context-sensitive data-dependence analysis, where the task is to obtain analysis summaries of library code in the presence of callbacks. Our algorithm preprocesses libraries in almost linear time, after which the contribution of the library in the complexity of the client analysis is only linear, and only wrt the number of call sites. Third, we prove that combinatorial algorithms for Dyck reachability on general graphs with truly sub-cubic bounds cannot be obtained without obtaining sub-cubic combinatorial algorithms for Boolean Matrix Multiplication, which is a long-standing open problem. Thus we establish that the existing combinatorial algorithms for Dyck reachability are (conditionally) optimal for general graphs. We also show that the same hardness holds for graphs of constant treewidth. Finally, we provide a prototype implementation of our algorithms for both alias analysis and data-dependence analysis. Our experimental evaluation demonstrates that the new algorithms significantly outperform all existing methods on the two problems, over real-world benchmarks.","lang":"eng"}],"arxiv":1,"oa_version":"Published Version","has_accepted_license":"1","related_material":{"record":[{"relation":"earlier_version","id":"5455","status":"public"}]},"article_type":"original","publication_identifier":{"eissn":["2475-1421"]},"corr_author":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"scopus_import":"1","issue":"POPL","external_id":{"arxiv":["1910.00241"]}},{"abstract":[{"lang":"eng","text":"We present a new proof rule for proving almost-sure termination of probabilistic programs, including those that contain demonic non-determinism. An important question for a probabilistic program is whether the probability mass of all its diverging runs is zero, that is that it terminates \"almost surely\". Proving that can be hard, and this paper presents a new method for doing so. It applies directly to the program's source code, even if the program contains demonic choice. Like others, we use variant functions (a.k.a. \"super-martingales\") that are real-valued and decrease randomly on each loop iteration; but our key innovation is that the amount as well as the probability of the decrease are parametric. We prove the soundness of the new rule, indicate where its applicability goes beyond existing rules, and explain its connection to classical results on denumerable (non-demonic) Markov chains."}],"date_updated":"2024-10-09T21:01:14Z","author":[{"first_name":"Annabelle","full_name":"Mciver, Annabelle","last_name":"Mciver"},{"last_name":"Morgan","full_name":"Morgan, Carroll","first_name":"Carroll"},{"first_name":"Benjamin Lucien","full_name":"Kaminski, Benjamin Lucien","last_name":"Kaminski"},{"first_name":"Joost P","full_name":"Katoen, Joost P","id":"4524F760-F248-11E8-B48F-1D18A9856A87","last_name":"Katoen"}],"article_processing_charge":"No","year":"2017","oa_version":"Published Version","arxiv":1,"main_file_link":[{"open_access":"1","url":"https://dl.acm.org/doi/10.1145/3158121"}],"article_type":"original","publication_identifier":{"eissn":["2475-1421"]},"corr_author":"1","scopus_import":"1","issue":"POPL","external_id":{"arxiv":["1711.03588"]},"_id":"10418","acknowledgement":"McIver and Morgan are grateful to David Basin and the Information Security Group at ETH Zürich for hosting a six-month stay in Switzerland, during part of which this work began. And thanks particularly to Andreas Lochbihler, who shared with us the probabilistic termination problem that led to it. They acknowledge the support of ARC grant DP140101119. Part of this work was carried out during the Workshop on Probabilistic Programming Semantics\r\nat McGill University’s Bellairs Research Institute on Barbados organised by Alexandra Silva and\r\nPrakash Panangaden. Kaminski and Katoen are grateful to Sebastian Junges for spotting a flaw in §5.4.","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","status":"public","title":"A new proof rule for almost-sure termination","volume":2,"quality_controlled":"1","month":"12","type":"journal_article","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"publisher":"Association for Computing Machinery","intvolume":"         2","citation":{"mla":"Mciver, Annabelle, et al. “A New Proof Rule for Almost-Sure Termination.” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL, 33, Association for Computing Machinery, 2017, doi:<a href=\"https://doi.org/10.1145/3158121\">10.1145/3158121</a>.","ista":"Mciver A, Morgan C, Kaminski BL, Katoen JP. 2017. A new proof rule for almost-sure termination. Proceedings of the ACM on Programming Languages. 2(POPL), 33.","chicago":"Mciver, Annabelle, Carroll Morgan, Benjamin Lucien Kaminski, and Joost P Katoen. “A New Proof Rule for Almost-Sure Termination.” <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery, 2017. <a href=\"https://doi.org/10.1145/3158121\">https://doi.org/10.1145/3158121</a>.","ieee":"A. Mciver, C. Morgan, B. L. Kaminski, and J. P. Katoen, “A new proof rule for almost-sure termination,” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL. Association for Computing Machinery, 2017.","apa":"Mciver, A., Morgan, C., Kaminski, B. L., &#38; Katoen, J. P. (2017). A new proof rule for almost-sure termination. <i>Proceedings of the ACM on Programming Languages</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3158121\">https://doi.org/10.1145/3158121</a>","short":"A. Mciver, C. Morgan, B.L. Kaminski, J.P. Katoen, Proceedings of the ACM on Programming Languages 2 (2017).","ama":"Mciver A, Morgan C, Kaminski BL, Katoen JP. A new proof rule for almost-sure termination. <i>Proceedings of the ACM on Programming Languages</i>. 2017;2(POPL). doi:<a href=\"https://doi.org/10.1145/3158121\">10.1145/3158121</a>"},"date_created":"2021-12-05T23:01:49Z","doi":"10.1145/3158121","date_published":"2017-12-07T00:00:00Z","conference":{"start_date":"2018-01-07","end_date":"2018-01-13","location":"Los Angeles, CA, United States","name":"POPL: Programming Languages"},"oa":1,"language":[{"iso":"eng"}],"publication":"Proceedings of the ACM on Programming Languages","publication_status":"published","article_number":"33","day":"07"},{"publication_status":"published","day":"08","date_published":"2017-03-08T00:00:00Z","DOAJ_listed":"1","oa":1,"doi":"10.1039/c7sc00430c","language":[{"iso":"eng"}],"OA_place":"publisher","publication":"Chemical Science","date_created":"2026-01-29T21:31:01Z","type":"journal_article","intvolume":"         8","publisher":"Royal Society of Chemistry","citation":{"short":"X. Hu, S.J. Dawson, P.K. Mandal, X. de Hatten, B. Baptiste, I. Huc, Chemical Science 8 (2017) 3741–3749.","ama":"Hu X, Dawson SJ, Mandal PK, de Hatten X, Baptiste B, Huc I. Optimizing side chains for crystal growth from water: a case study of aromatic amide foldamers. <i>Chemical Science</i>. 2017;8(5):3741-3749. doi:<a href=\"https://doi.org/10.1039/c7sc00430c\">10.1039/c7sc00430c</a>","apa":"Hu, X., Dawson, S. J., Mandal, P. K., de Hatten, X., Baptiste, B., &#38; Huc, I. (2017). Optimizing side chains for crystal growth from water: a case study of aromatic amide foldamers. <i>Chemical Science</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/c7sc00430c\">https://doi.org/10.1039/c7sc00430c</a>","ista":"Hu X, Dawson SJ, Mandal PK, de Hatten X, Baptiste B, Huc I. 2017. Optimizing side chains for crystal growth from water: a case study of aromatic amide foldamers. Chemical Science. 8(5), 3741–3749.","mla":"Hu, Xiaobo, et al. “Optimizing Side Chains for Crystal Growth from Water: A Case Study of Aromatic Amide Foldamers.” <i>Chemical Science</i>, vol. 8, no. 5, Royal Society of Chemistry, 2017, pp. 3741–49, doi:<a href=\"https://doi.org/10.1039/c7sc00430c\">10.1039/c7sc00430c</a>.","chicago":"Hu, Xiaobo, Simon J. Dawson, Pradeep K Mandal, Xavier de Hatten, Benoit Baptiste, and Ivan Huc. “Optimizing Side Chains for Crystal Growth from Water: A Case Study of Aromatic Amide Foldamers.” <i>Chemical Science</i>. Royal Society of Chemistry, 2017. <a href=\"https://doi.org/10.1039/c7sc00430c\">https://doi.org/10.1039/c7sc00430c</a>.","ieee":"X. Hu, S. J. Dawson, P. K. Mandal, X. de Hatten, B. Baptiste, and I. Huc, “Optimizing side chains for crystal growth from water: a case study of aromatic amide foldamers,” <i>Chemical Science</i>, vol. 8, no. 5. Royal Society of Chemistry, pp. 3741–3749, 2017."},"OA_type":"gold","month":"03","quality_controlled":"1","_id":"21098","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","volume":8,"title":"Optimizing side chains for crystal growth from water: a case study of aromatic amide foldamers","publication_identifier":{"issn":["2041-6520"],"eissn":["2041-6539"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/3.0/legalcode","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)","short":"CC BY-NC (3.0)"},"issue":"5","extern":"1","year":"2017","author":[{"last_name":"Hu","first_name":"Xiaobo","full_name":"Hu, Xiaobo"},{"last_name":"Dawson","first_name":"Simon J.","full_name":"Dawson, Simon J."},{"id":"6a3def15-d4b4-11ef-9fa9-a24c1f545ec3","full_name":"Mandal, Pradeep K","first_name":"Pradeep K","orcid":"0000-0001-5996-956X","last_name":"Mandal"},{"last_name":"de Hatten","full_name":"de Hatten, Xavier","first_name":"Xavier"},{"last_name":"Baptiste","first_name":"Benoit","full_name":"Baptiste, Benoit"},{"first_name":"Ivan","full_name":"Huc, Ivan","last_name":"Huc"}],"article_processing_charge":"No","date_updated":"2026-02-23T09:53:30Z","abstract":[{"text":"The growth of crystals of aromatic compounds from water much depends on the nature of the water solubilizing functions that they carry. Rationalizing crystallization from water, and structure elucidation, of aromatic molecular and supramolecular systems is of general value across various fields of chemistry. Taking helical aromatic foldamers as a test case, we have validated several short polar side chains as efficient substituents to provide both solubility in, and crystal growth ability from, water. New 8-amino-2-quinolinecarboxylic acids bearing charged or neutral aminomethyl, carboxymethyl, sulfonic acid, or bis(hydroxymethyl)-methoxy side chains in position 4 or 5, were prepared on a multi gram scale. Fmoc protection of the main chain amine and suitable protections of the side chains ensured compatibility with solid phase synthesis. One tetrameric and five octameric oligoamides displaying these side chains were synthesized and shown to be soluble in water. In all cases but one, crystals were obtained using the hanging drop method, thus validating the initial design principle to combine polarity and rigidity. The only case that resisted crystallization appeared to be due to exceedingly high water solubility endowed by eight sulfonic acid functions. The neutral side chain did provide crystal growth ability from water but contributed poorly to solubility.","lang":"eng"}],"oa_version":"Published Version","has_accepted_license":"1","page":"3741-3749","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1039/C7SC00430C"}],"article_type":"original"},{"status":"public","title":"Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution","volume":73,"_id":"21156","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_type":"closed access","quality_controlled":"1","month":"05","page":"259-265","article_type":"original","abstract":[{"lang":"eng","text":"The crystal structure of the tetradecanucleotide d(CCCCGGTACCGGGG)2 has previously been reported as an A-type double helix at a resolution of 2.5 Å in space group P41. Here, the structure of this sequence was determined at a significantly higher resolution of 1.65 Å in space group P41212. The differences in crystal packing between the former and latter are described. The crystallographic asymmetric unit consists of one tetradecanucleotide duplex that spans more than one full turn of the A-helix. This structure allowed the unambiguous identification of solvent interactions."}],"date_updated":"2026-02-23T08:23:34Z","article_processing_charge":"No","year":"2017","author":[{"first_name":"Selvam","full_name":"Karthik, Selvam","last_name":"Karthik"},{"last_name":"Thirugnanasambandam","first_name":"Arunachalam","full_name":"Thirugnanasambandam, Arunachalam"},{"orcid":"0000-0001-5996-956X","last_name":"Mandal","full_name":"Mandal, Pradeep K","first_name":"Pradeep K","id":"6a3def15-d4b4-11ef-9fa9-a24c1f545ec3"},{"first_name":"Namasivayam","full_name":"Gautham, Namasivayam","last_name":"Gautham"}],"has_accepted_license":"1","oa_version":"None","extern":"1","publication_identifier":{"issn":["2053-230X"]},"issue":"5","language":[{"iso":"eng"}],"publication":"Acta Crystallographica Section F Structural Biology Communications","doi":"10.1107/s2053230x17004770","date_published":"2017-05-01T00:00:00Z","day":"01","publication_status":"published","citation":{"ama":"Karthik S, Thirugnanasambandam A, Mandal PK, Gautham N. Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution. <i>Acta Crystallographica Section F Structural Biology Communications</i>. 2017;73(5):259-265. doi:<a href=\"https://doi.org/10.1107/s2053230x17004770\">10.1107/s2053230x17004770</a>","short":"S. Karthik, A. Thirugnanasambandam, P.K. Mandal, N. Gautham, Acta Crystallographica Section F Structural Biology Communications 73 (2017) 259–265.","apa":"Karthik, S., Thirugnanasambandam, A., Mandal, P. K., &#38; Gautham, N. (2017). Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution. <i>Acta Crystallographica Section F Structural Biology Communications</i>. International Union of Crystallography. <a href=\"https://doi.org/10.1107/s2053230x17004770\">https://doi.org/10.1107/s2053230x17004770</a>","ieee":"S. Karthik, A. Thirugnanasambandam, P. K. Mandal, and N. Gautham, “Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution,” <i>Acta Crystallographica Section F Structural Biology Communications</i>, vol. 73, no. 5. International Union of Crystallography, pp. 259–265, 2017.","chicago":"Karthik, Selvam, Arunachalam Thirugnanasambandam, Pradeep K Mandal, and Namasivayam Gautham. “Crystal Structure of d(CCGGGGTACCCCGG)2 at 1.4 Å Resolution.” <i>Acta Crystallographica Section F Structural Biology Communications</i>. International Union of Crystallography, 2017. <a href=\"https://doi.org/10.1107/s2053230x17004770\">https://doi.org/10.1107/s2053230x17004770</a>.","mla":"Karthik, Selvam, et al. “Crystal Structure of d(CCGGGGTACCCCGG)2 at 1.4 Å Resolution.” <i>Acta Crystallographica Section F Structural Biology Communications</i>, vol. 73, no. 5, International Union of Crystallography, 2017, pp. 259–65, doi:<a href=\"https://doi.org/10.1107/s2053230x17004770\">10.1107/s2053230x17004770</a>.","ista":"Karthik S, Thirugnanasambandam A, Mandal PK, Gautham N. 2017. Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution. Acta Crystallographica Section F Structural Biology Communications. 73(5), 259–265."},"type":"journal_article","publisher":"International Union of Crystallography","intvolume":"        73","date_created":"2026-02-06T12:26:15Z"}]