[{"date_created":"2019-07-17T10:35:04Z","intvolume":" 129","citation":{"ieee":"R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, and U. Wagner, “The crossing Tverberg theorem,” in 35th International Symposium on Computational Geometry, Portland, OR, United States, 2019, vol. 129, p. 38:1-38:13.","ama":"Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. The crossing Tverberg theorem. In: 35th International Symposium on Computational Geometry. Vol 129. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2019:38:1-38:13. doi:10.4230/LIPICS.SOCG.2019.38","chicago":"Fulek, Radoslav, Bernd Gärtner, Andrey Kupavskii, Pavel Valtr, and Uli Wagner. “The Crossing Tverberg Theorem.” In 35th International Symposium on Computational Geometry, 129:38:1-38:13. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019. https://doi.org/10.4230/LIPICS.SOCG.2019.38.","apa":"Fulek, R., Gärtner, B., Kupavskii, A., Valtr, P., & Wagner, U. (2019). The crossing Tverberg theorem. In 35th International Symposium on Computational Geometry (Vol. 129, p. 38:1-38:13). Portland, OR, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPICS.SOCG.2019.38","ista":"Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. 2019. The crossing Tverberg theorem. 35th International Symposium on Computational Geometry. SoCG 2019: Symposium on Computational Geometry, LIPIcs, vol. 129, 38:1-38:13.","short":"R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, U. Wagner, in:, 35th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019, p. 38:1-38:13.","mla":"Fulek, Radoslav, et al. “The Crossing Tverberg Theorem.” 35th International Symposium on Computational Geometry, vol. 129, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019, p. 38:1-38:13, doi:10.4230/LIPICS.SOCG.2019.38."},"ddc":["000","510"],"publication":"35th International Symposium on Computational Geometry","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","page":"38:1-38:13","volume":129,"publication_identifier":{"issn":["1868-8969"],"isbn":["9783959771047"]},"oa":1,"date_updated":"2025-04-14T13:52:36Z","related_material":{"record":[{"status":"public","relation":"later_version","id":"13974"}]},"alternative_title":["LIPIcs"],"oa_version":"Published Version","status":"public","conference":{"location":"Portland, OR, United States","end_date":"2019-06-21","start_date":"2019-06-18","name":"SoCG 2019: Symposium on Computational Geometry"},"file_date_updated":"2020-07-14T12:47:35Z","scopus_import":1,"type":"conference","abstract":[{"text":"The Tverberg theorem is one of the cornerstones of discrete geometry. It states that, given a set X of at least (d+1)(r-1)+1 points in R^d, one can find a partition X=X_1 cup ... cup X_r of X, such that the convex hulls of the X_i, i=1,...,r, all share a common point. In this paper, we prove a strengthening of this theorem that guarantees a partition which, in addition to the above, has the property that the boundaries of full-dimensional convex hulls have pairwise nonempty intersections. Possible generalizations and algorithmic aspects are also discussed. As a concrete application, we show that any n points in the plane in general position span floor[n/3] vertex-disjoint triangles that are pairwise crossing, meaning that their boundaries have pairwise nonempty intersections; this number is clearly best possible. A previous result of Alvarez-Rebollar et al. guarantees floor[n/6] pairwise crossing triangles. Our result generalizes to a result about simplices in R^d,d >=2.","lang":"eng"}],"has_accepted_license":"1","_id":"6647","month":"06","language":[{"iso":"eng"}],"external_id":{"arxiv":["1812.04911"]},"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2019-06-01T00:00:00Z","author":[{"first_name":"Radoslav","full_name":"Fulek, Radoslav","last_name":"Fulek","orcid":"0000-0001-8485-1774","id":"39F3FFE4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Gärtner, Bernd","first_name":"Bernd","last_name":"Gärtner"},{"last_name":"Kupavskii","full_name":"Kupavskii, Andrey","first_name":"Andrey"},{"full_name":"Valtr, Pavel","first_name":"Pavel","last_name":"Valtr"},{"orcid":"0000-0002-1494-0568","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner","full_name":"Wagner, Uli","first_name":"Uli"}],"day":"01","corr_author":"1","arxiv":1,"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2019","title":"The crossing Tverberg theorem","department":[{"_id":"UlWa"}],"file":[{"relation":"main_file","date_created":"2019-07-24T06:54:52Z","content_type":"application/pdf","checksum":"d6d017f8b41291b94d102294fa96ae9c","file_size":559837,"date_updated":"2020-07-14T12:47:35Z","creator":"dernst","file_name":"2019_LIPICS_Fulek.pdf","file_id":"6667","access_level":"open_access"}],"quality_controlled":"1","doi":"10.4230/LIPICS.SOCG.2019.38","project":[{"call_identifier":"FWF","name":"Eliminating intersections in drawings of graphs","grant_number":"M02281","_id":"261FA626-B435-11E9-9278-68D0E5697425"}]},{"publication":"BMC Research Notes","publisher":"BioMed Central","ddc":["570"],"intvolume":" 12","date_created":"2019-08-18T22:00:39Z","citation":{"ieee":"M. N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F. V. Rao, and C. V. Martin, “Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells,” BMC Research Notes, vol. 12. BioMed Central, 2019.","ama":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. 2019;12. doi:10.1186/s13104-019-4534-3","ista":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. 2019. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. 12, 494.","chicago":"Antoniou, Michael N., Armel Nicolas, Robin Mesnage, Martina Biserni, Francesco V. Rao, and Cristina Vazquez Martin. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” BMC Research Notes. BioMed Central, 2019. https://doi.org/10.1186/s13104-019-4534-3.","apa":"Antoniou, M. N., Nicolas, A., Mesnage, R., Biserni, M., Rao, F. V., & Martin, C. V. (2019). Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. BioMed Central. https://doi.org/10.1186/s13104-019-4534-3","short":"M.N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F.V. Rao, C.V. Martin, BMC Research Notes 12 (2019).","mla":"Antoniou, Michael N., et al. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” BMC Research Notes, vol. 12, 494, BioMed Central, 2019, doi:10.1186/s13104-019-4534-3."},"volume":12,"publication_identifier":{"eissn":["1756-0500"]},"related_material":{"record":[{"relation":"research_data","status":"public","id":"9784"}]},"oa":1,"date_updated":"2023-02-23T14:08:14Z","oa_version":"Published Version","status":"public","pmid":1,"file_date_updated":"2020-07-14T12:47:40Z","scopus_import":1,"type":"journal_article","_id":"6819","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Glyphosate (N-phosphonomethyl glycine) and its commercial herbicide formulations have been shown to exert toxicity via various mechanisms. It has been asserted that glyphosate substitutes for glycine in polypeptide chains leading to protein misfolding and toxicity. However, as no direct evidence exists for glycine to glyphosate substitution in proteins, including in mammalian organisms, we tested this claim by conducting a proteomics analysis of MDA-MB-231 human breast cancer cells grown in the presence of 100 mg/L glyphosate for 6 days. Protein extracts from three treated and three untreated cell cultures were analysed as one TMT-6plex labelled sample, to highlight a specific pattern (+/+/+/−/−/−) of reporter intensities for peptides bearing true glyphosate treatment induced-post translational modifications as well as allowing an investigation of the total proteome."}],"month":"08","article_number":"494","external_id":{"pmid":["31395095"]},"language":[{"iso":"eng"}],"date_published":"2019-08-08T00:00:00Z","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"08","author":[{"last_name":"Antoniou","full_name":"Antoniou, Michael N.","first_name":"Michael N."},{"id":"2A103192-F248-11E8-B48F-1D18A9856A87","last_name":"Nicolas","full_name":"Nicolas, Armel","first_name":"Armel"},{"first_name":"Robin","full_name":"Mesnage, Robin","last_name":"Mesnage"},{"last_name":"Biserni","full_name":"Biserni, Martina","first_name":"Martina"},{"first_name":"Francesco V.","full_name":"Rao, Francesco V.","last_name":"Rao"},{"first_name":"Cristina Vazquez","full_name":"Martin, Cristina Vazquez","last_name":"Martin"}],"article_processing_charge":"No","publication_status":"published","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","year":"2019","title":"Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells","department":[{"_id":"LifeSc"}],"file":[{"file_id":"6829","access_level":"open_access","file_name":"2019_BMC_Antoniou.pdf","date_updated":"2020-07-14T12:47:40Z","creator":"dernst","file_size":1177482,"date_created":"2019-08-23T11:10:35Z","relation":"main_file","checksum":"4a2bb7994b7f2c432bf44f5127ea3102","content_type":"application/pdf"}],"doi":"10.1186/s13104-019-4534-3","quality_controlled":"1"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","year":"2019","publication_status":"published","article_processing_charge":"No","arxiv":1,"date_published":"2019-08-01T00:00:00Z","day":"01","author":[{"last_name":"Censor-Hillel","first_name":"Keren","full_name":"Censor-Hillel, Keren"},{"first_name":"Michal","full_name":"Dory, Michal","last_name":"Dory"},{"first_name":"Janne","full_name":"Korhonen, Janne","last_name":"Korhonen","id":"C5402D42-15BC-11E9-A202-CA2BE6697425"},{"first_name":"Dean","full_name":"Leitersdorf, Dean","last_name":"Leitersdorf"}],"doi":"10.1145/3293611.3331633","quality_controlled":"1","title":"Fast approximate shortest paths in the congested clique","department":[{"_id":"DaAl"}],"oa_version":"Preprint","related_material":{"record":[{"id":"7939","relation":"later_version","status":"public"}]},"date_updated":"2026-06-18T19:28:41Z","oa":1,"publication_identifier":{"isbn":["9781450362177"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1903.05956"}],"publication":"Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin","publisher":"ACM","citation":{"ista":"Censor-Hillel K, Dory M, Korhonen J, Leitersdorf D. 2019. Fast approximate shortest paths in the congested clique. Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin. PODC: Symposium on Principles of Distributed Computing, 74–83.","apa":"Censor-Hillel, K., Dory, M., Korhonen, J., & Leitersdorf, D. (2019). Fast approximate shortest paths in the congested clique. In Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin (pp. 74–83). Toronto, ON, Canada: ACM. https://doi.org/10.1145/3293611.3331633","chicago":"Censor-Hillel, Keren, Michal Dory, Janne Korhonen, and Dean Leitersdorf. “Fast Approximate Shortest Paths in the Congested Clique.” In Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin, 74–83. ACM, 2019. https://doi.org/10.1145/3293611.3331633.","ama":"Censor-Hillel K, Dory M, Korhonen J, Leitersdorf D. Fast approximate shortest paths in the congested clique. In: Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin. ACM; 2019:74-83. doi:10.1145/3293611.3331633","ieee":"K. Censor-Hillel, M. Dory, J. Korhonen, and D. Leitersdorf, “Fast approximate shortest paths in the congested clique,” in Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin, Toronto, ON, Canada, 2019, pp. 74–83.","mla":"Censor-Hillel, Keren, et al. “Fast Approximate Shortest Paths in the Congested Clique.” Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin, ACM, 2019, pp. 74–83, doi:10.1145/3293611.3331633.","short":"K. Censor-Hillel, M. Dory, J. Korhonen, D. Leitersdorf, in:, Proceedings of the 2019 ACM Symposium on Principles of Distributed Computin, ACM, 2019, pp. 74–83."},"date_created":"2019-10-08T12:48:42Z","page":"74-83","month":"08","isi":1,"language":[{"iso":"eng"}],"external_id":{"arxiv":["1903.05956"],"isi":["000570442000011"]},"type":"conference","_id":"6933","abstract":[{"text":"We design fast deterministic algorithms for distance computation in the CONGESTED CLIQUE model. Our key contributions include:\r\n\r\n - A (2+ε)-approximation for all-pairs shortest paths problem in O(log²n / ε) rounds on unweighted undirected graphs. With a small additional additive factor, this also applies for weighted graphs. This is the first sub-polynomial constant-factor approximation for APSP in this model.\r\n - A (1+ε)-approximation for multi-source shortest paths problem from O(√n) sources in O(log² n / ε) rounds on weighted undirected graphs. This is the first sub-polynomial algorithm obtaining this approximation for a set of sources of polynomial size.\r\n\r\nOur main techniques are new distance tools that are obtained via improved algorithms for sparse matrix multiplication, which we leverage to construct efficient hopsets and shortest paths. Furthermore, our techniques extend to additional distance problems for which we improve upon the state-of-the-art, including diameter approximation, and an exact single-source shortest paths algorithm for weighted undirected graphs in Õ(n^{1/6}) rounds.","lang":"eng"}],"conference":{"name":"PODC: Symposium on Principles of Distributed Computing","start_date":"2019-07-29","end_date":"2019-08-02","location":"Toronto, ON, Canada"},"scopus_import":"1","status":"public"},{"language":[{"iso":"ger"}],"edition":"1","month":"10","editor":[{"full_name":"Kersting, Kristian","first_name":"Kristian","last_name":"Kersting"},{"last_name":"Lampert","orcid":"0000-0001-8622-7887","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","full_name":"Lampert, Christoph"},{"full_name":"Rothkopf, Constantin","first_name":"Constantin","last_name":"Rothkopf"}],"abstract":[{"lang":"ger","text":"Wissen Sie, was sich hinter künstlicher Intelligenz und maschinellem Lernen verbirgt? \r\nDieses Sachbuch erklärt Ihnen leicht verständlich und ohne komplizierte Formeln die grundlegenden Methoden und Vorgehensweisen des maschinellen Lernens. Mathematisches Vorwissen ist dafür nicht nötig. Kurzweilig und informativ illustriert Lisa, die Protagonistin des Buches, diese anhand von Alltagssituationen. \r\nEin Buch für alle, die in Diskussionen über Chancen und Risiken der aktuellen Entwicklung der künstlichen Intelligenz und des maschinellen Lernens mit Faktenwissen punkten möchten. Auch für Schülerinnen und Schüler geeignet!"}],"_id":"7171","quality_controlled":"1","type":"book_editor","doi":"10.1007/978-3-658-26763-6","department":[{"_id":"ChLa"}],"title":"Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt","status":"public","oa_version":"None","year":"2019","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_status":"published","place":"Wiesbaden","date_updated":"2021-12-22T14:40:58Z","related_material":{"link":[{"description":"News on IST Website","relation":"press_release","url":"https://ist.ac.at/en/news/book-release-how-machines-learn/"}]},"article_processing_charge":"No","publication_identifier":{"eisbn":["978-3-658-26763-6"],"isbn":["978-3-658-26762-9"]},"page":"XIV, 245","day":"30","date_created":"2019-12-11T14:15:56Z","citation":{"mla":"Kersting, Kristian, et al., editors. Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt. 1st ed., Springer Nature, 2019, doi:10.1007/978-3-658-26763-6.","short":"K. Kersting, C. Lampert, C. Rothkopf, eds., Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt, 1st ed., Springer Nature, Wiesbaden, 2019.","ista":"Kersting K, Lampert C, Rothkopf C eds. 2019. Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt 1st ed., Wiesbaden: Springer Nature, XIV, 245p.","apa":"Kersting, K., Lampert, C., & Rothkopf, C. (Eds.). (2019). Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt (1st ed.). Wiesbaden: Springer Nature. https://doi.org/10.1007/978-3-658-26763-6","chicago":"Kersting, Kristian, Christoph Lampert, and Constantin Rothkopf, eds. Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt. 1st ed. Wiesbaden: Springer Nature, 2019. https://doi.org/10.1007/978-3-658-26763-6.","ieee":"K. Kersting, C. Lampert, and C. Rothkopf, Eds., Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt, 1st ed. Wiesbaden: Springer Nature, 2019.","ama":"Kersting K, Lampert C, Rothkopf C, eds. Wie Maschinen Lernen: Künstliche Intelligenz Verständlich Erklärt. 1st ed. Wiesbaden: Springer Nature; 2019. doi:10.1007/978-3-658-26763-6"},"publisher":"Springer Nature","date_published":"2019-10-30T00:00:00Z"},{"language":[{"iso":"eng"}],"external_id":{"pmid":["31792410"],"isi":["000500748900021"]},"isi":1,"month":"12","abstract":[{"text":"Multiple sequence alignments (MSAs) are used for structural1,2 and evolutionary predictions1,2, but the complexity of aligning large datasets requires the use of approximate solutions3, including the progressive algorithm4. Progressive MSA methods start by aligning the most similar sequences and subsequently incorporate the remaining sequences, from leaf-to-root, based on a guide-tree. Their accuracy declines substantially as the number of sequences is scaled up5. We introduce a regressive algorithm that enables MSA of up to 1.4 million sequences on a standard workstation and substantially improves accuracy on datasets larger than 10,000 sequences. Our regressive algorithm works the other way around to the progressive algorithm and begins by aligning the most dissimilar sequences. It uses an efficient divide-and-conquer strategy to run third-party alignment methods in linear time, regardless of their original complexity. Our approach will enable analyses of extremely large genomic datasets such as the recently announced Earth BioGenome Project, which comprises 1.5 million eukaryotic genomes6.","lang":"eng"}],"_id":"7181","type":"journal_article","scopus_import":"1","issue":"12","pmid":1,"status":"public","oa_version":"Submitted Version","oa":1,"date_updated":"2025-07-10T11:54:19Z","related_material":{"record":[{"status":"public","relation":"research_data","id":"13059"}]},"article_type":"original","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6894943/","open_access":"1"}],"publication_identifier":{"eissn":["1546-1696"],"issn":["1087-0156"]},"volume":37,"page":"1466-1470","ec_funded":1,"citation":{"short":"E. Garriga, P. Di Tommaso, C. Magis, I. Erb, L. Mansouri, A. Baltzis, H. Laayouni, F. Kondrashov, E. Floden, C. Notredame, Nature Biotechnology 37 (2019) 1466–1470.","mla":"Garriga, Edgar, et al. “Large Multiple Sequence Alignments with a Root-to-Leaf Regressive Method.” Nature Biotechnology, vol. 37, no. 12, Springer Nature, 2019, pp. 1466–70, doi:10.1038/s41587-019-0333-6.","ieee":"E. Garriga et al., “Large multiple sequence alignments with a root-to-leaf regressive method,” Nature Biotechnology, vol. 37, no. 12. Springer Nature, pp. 1466–1470, 2019.","ama":"Garriga E, Di Tommaso P, Magis C, et al. Large multiple sequence alignments with a root-to-leaf regressive method. Nature Biotechnology. 2019;37(12):1466-1470. doi:10.1038/s41587-019-0333-6","chicago":"Garriga, Edgar, Paolo Di Tommaso, Cedrik Magis, Ionas Erb, Leila Mansouri, Athanasios Baltzis, Hafid Laayouni, Fyodor Kondrashov, Evan Floden, and Cedric Notredame. “Large Multiple Sequence Alignments with a Root-to-Leaf Regressive Method.” Nature Biotechnology. Springer Nature, 2019. https://doi.org/10.1038/s41587-019-0333-6.","apa":"Garriga, E., Di Tommaso, P., Magis, C., Erb, I., Mansouri, L., Baltzis, A., … Notredame, C. (2019). Large multiple sequence alignments with a root-to-leaf regressive method. Nature Biotechnology. Springer Nature. https://doi.org/10.1038/s41587-019-0333-6","ista":"Garriga E, Di Tommaso P, Magis C, Erb I, Mansouri L, Baltzis A, Laayouni H, Kondrashov F, Floden E, Notredame C. 2019. Large multiple sequence alignments with a root-to-leaf regressive method. Nature Biotechnology. 37(12), 1466–1470."},"date_created":"2019-12-15T23:00:43Z","intvolume":" 37","publisher":"Springer Nature","publication":"Nature Biotechnology","quality_controlled":"1","doi":"10.1038/s41587-019-0333-6","project":[{"_id":"26580278-B435-11E9-9278-68D0E5697425","grant_number":"771209","call_identifier":"H2020","name":"Characterizing the fitness landscape on population and global scales"}],"department":[{"_id":"FyKo"}],"title":"Large multiple sequence alignments with a root-to-leaf regressive method","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","article_processing_charge":"No","author":[{"first_name":"Edgar","full_name":"Garriga, Edgar","last_name":"Garriga"},{"full_name":"Di Tommaso, Paolo","first_name":"Paolo","last_name":"Di Tommaso"},{"last_name":"Magis","first_name":"Cedrik","full_name":"Magis, Cedrik"},{"last_name":"Erb","first_name":"Ionas","full_name":"Erb, Ionas"},{"first_name":"Leila","full_name":"Mansouri, Leila","last_name":"Mansouri"},{"full_name":"Baltzis, Athanasios","first_name":"Athanasios","last_name":"Baltzis"},{"last_name":"Laayouni","full_name":"Laayouni, Hafid","first_name":"Hafid"},{"last_name":"Kondrashov","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694","first_name":"Fyodor","full_name":"Kondrashov, Fyodor"},{"full_name":"Floden, Evan","first_name":"Evan","last_name":"Floden"},{"last_name":"Notredame","first_name":"Cedric","full_name":"Notredame, Cedric"}],"day":"01","date_published":"2019-12-01T00:00:00Z"},{"has_accepted_license":"1","_id":"7398","abstract":[{"lang":"eng","text":"Transporters of the solute carrier 6 (SLC6) family translocate their cognate substrate together with Na+ and Cl−. Detailed kinetic models exist for the transporters of GABA (GAT1/SLC6A1) and the monoamines dopamine (DAT/SLC6A3) and serotonin (SERT/SLC6A4). Here, we posited that the transport cycle of individual SLC6 transporters reflects the physiological requirements they operate under. We tested this hypothesis by analyzing the transport cycle of glycine transporter 1 (GlyT1/SLC6A9) and glycine transporter 2 (GlyT2/SLC6A5). GlyT2 is the only SLC6 family member known to translocate glycine, Na+, and Cl− in a 1:3:1 stoichiometry. We analyzed partial reactions in real time by electrophysiological recordings. Contrary to monoamine transporters, both GlyTs were found to have a high transport capacity driven by rapid return of the empty transporter after release of Cl− on the intracellular side. Rapid cycling of both GlyTs was further supported by highly cooperative binding of cosubstrate ions and substrate such that their forward transport mode was maintained even under conditions of elevated intracellular Na+ or Cl−. The most important differences in the transport cycle of GlyT1 and GlyT2 arose from the kinetics of charge movement and the resulting voltage-dependent rate-limiting reactions: the kinetics of GlyT1 were governed by transition of the substrate-bound transporter from outward- to inward-facing conformations, whereas the kinetics of GlyT2 were governed by Na+ binding (or a related conformational change). Kinetic modeling showed that the kinetics of GlyT1 are ideally suited for supplying the extracellular glycine levels required for NMDA receptor activation."}],"type":"journal_article","isi":1,"external_id":{"isi":["000478792500008"],"pmid":["31270129"]},"language":[{"iso":"eng"}],"month":"07","status":"public","pmid":1,"file_date_updated":"2020-07-14T12:47:57Z","scopus_import":"1","issue":"8","oa":1,"date_updated":"2023-09-07T14:52:23Z","oa_version":"Published Version","page":"1035-1050","publisher":"Rockefeller University Press","publication":"The Journal of General Physiology","date_created":"2020-01-29T16:06:29Z","intvolume":" 151","ddc":["570"],"citation":{"short":"F.A. Erdem, M. Ilic, P. Koppensteiner, J. Gołacki, G. Lubec, M. Freissmuth, W. Sandtner, The Journal of General Physiology 151 (2019) 1035–1050.","mla":"Erdem, Fatma Asli, et al. “A Comparison of the Transport Kinetics of Glycine Transporter 1 and Glycine Transporter 2.” The Journal of General Physiology, vol. 151, no. 8, Rockefeller University Press, 2019, pp. 1035–50, doi:10.1085/jgp.201912318.","ieee":"F. A. Erdem et al., “A comparison of the transport kinetics of glycine transporter 1 and glycine transporter 2,” The Journal of General Physiology, vol. 151, no. 8. Rockefeller University Press, pp. 1035–1050, 2019.","ama":"Erdem FA, Ilic M, Koppensteiner P, et al. A comparison of the transport kinetics of glycine transporter 1 and glycine transporter 2. The Journal of General Physiology. 2019;151(8):1035-1050. doi:10.1085/jgp.201912318","chicago":"Erdem, Fatma Asli, Marija Ilic, Peter Koppensteiner, Jakub Gołacki, Gert Lubec, Michael Freissmuth, and Walter Sandtner. “A Comparison of the Transport Kinetics of Glycine Transporter 1 and Glycine Transporter 2.” The Journal of General Physiology. Rockefeller University Press, 2019. https://doi.org/10.1085/jgp.201912318.","apa":"Erdem, F. A., Ilic, M., Koppensteiner, P., Gołacki, J., Lubec, G., Freissmuth, M., & Sandtner, W. (2019). A comparison of the transport kinetics of glycine transporter 1 and glycine transporter 2. The Journal of General Physiology. Rockefeller University Press. https://doi.org/10.1085/jgp.201912318","ista":"Erdem FA, Ilic M, Koppensteiner P, Gołacki J, Lubec G, Freissmuth M, Sandtner W. 2019. A comparison of the transport kinetics of glycine transporter 1 and glycine transporter 2. The Journal of General Physiology. 151(8), 1035–1050."},"article_type":"original","publication_identifier":{"issn":["0022-1295"],"eissn":["1540-7748"]},"volume":151,"doi":"10.1085/jgp.201912318","quality_controlled":"1","department":[{"_id":"RySh"}],"title":"A comparison of the transport kinetics of glycine transporter 1 and glycine transporter 2","file":[{"file_id":"7450","access_level":"open_access","file_name":"2019_JGP_Erdem.pdf","date_updated":"2020-07-14T12:47:57Z","creator":"dernst","file_size":2641297,"date_created":"2020-02-05T07:20:32Z","relation":"main_file","checksum":"5706b4ccd74ee3e50bf7ecb2a203df71","content_type":"application/pdf"}],"publication_status":"published","year":"2019","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","day":"03","author":[{"last_name":"Erdem","full_name":"Erdem, Fatma Asli","first_name":"Fatma Asli"},{"last_name":"Ilic","first_name":"Marija","full_name":"Ilic, Marija"},{"orcid":"0000-0002-3509-1948","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87","last_name":"Koppensteiner","full_name":"Koppensteiner, Peter","first_name":"Peter"},{"full_name":"Gołacki, Jakub","first_name":"Jakub","last_name":"Gołacki"},{"first_name":"Gert","full_name":"Lubec, Gert","last_name":"Lubec"},{"last_name":"Freissmuth","first_name":"Michael","full_name":"Freissmuth, Michael"},{"full_name":"Sandtner, Walter","first_name":"Walter","last_name":"Sandtner"}],"date_published":"2019-07-03T00:00:00Z","tmp":{"name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","image":"/images/cc_by_nc_sa.png"},"article_processing_charge":"No"},{"publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2019","date_published":"2019-02-07T00:00:00Z","author":[{"orcid":"0000-0002-1287-3779","id":"3E999752-F248-11E8-B48F-1D18A9856A87","last_name":"Sokolowski","full_name":"Sokolowski, Thomas R","first_name":"Thomas R"},{"first_name":"Joris","full_name":"Paijmans, Joris","last_name":"Paijmans"},{"first_name":"Laurens","full_name":"Bossen, Laurens","last_name":"Bossen"},{"full_name":"Miedema, Thomas","first_name":"Thomas","last_name":"Miedema"},{"full_name":"Wehrens, Martijn","first_name":"Martijn","last_name":"Wehrens"},{"last_name":"Becker","first_name":"Nils B.","full_name":"Becker, Nils B."},{"last_name":"Kaizu","first_name":"Kazunari","full_name":"Kaizu, Kazunari"},{"full_name":"Takahashi, Koichi","first_name":"Koichi","last_name":"Takahashi"},{"first_name":"Marileen","full_name":"Dogterom, Marileen","last_name":"Dogterom"},{"last_name":"ten Wolde","full_name":"ten Wolde, Pieter Rein","first_name":"Pieter Rein"}],"day":"07","arxiv":1,"article_processing_charge":"No","quality_controlled":"1","doi":"10.1063/1.5064867","title":"eGFRD in all dimensions","department":[{"_id":"GaTk"}],"date_updated":"2023-09-06T14:59:28Z","oa":1,"oa_version":"Preprint","date_created":"2020-01-30T10:34:36Z","citation":{"mla":"Sokolowski, Thomas R., et al. “EGFRD in All Dimensions.” The Journal of Chemical Physics, vol. 150, no. 5, 054108, AIP Publishing, 2019, doi:10.1063/1.5064867.","short":"T.R. Sokolowski, J. Paijmans, L. Bossen, T. Miedema, M. Wehrens, N.B. Becker, K. Kaizu, K. Takahashi, M. Dogterom, P.R. ten Wolde, The Journal of Chemical Physics 150 (2019).","ista":"Sokolowski TR, Paijmans J, Bossen L, Miedema T, Wehrens M, Becker NB, Kaizu K, Takahashi K, Dogterom M, ten Wolde PR. 2019. eGFRD in all dimensions. The Journal of Chemical Physics. 150(5), 054108.","chicago":"Sokolowski, Thomas R, Joris Paijmans, Laurens Bossen, Thomas Miedema, Martijn Wehrens, Nils B. Becker, Kazunari Kaizu, Koichi Takahashi, Marileen Dogterom, and Pieter Rein ten Wolde. “EGFRD in All Dimensions.” The Journal of Chemical Physics. AIP Publishing, 2019. https://doi.org/10.1063/1.5064867.","apa":"Sokolowski, T. R., Paijmans, J., Bossen, L., Miedema, T., Wehrens, M., Becker, N. B., … ten Wolde, P. R. (2019). eGFRD in all dimensions. The Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/1.5064867","ieee":"T. R. Sokolowski et al., “eGFRD in all dimensions,” The Journal of Chemical Physics, vol. 150, no. 5. AIP Publishing, 2019.","ama":"Sokolowski TR, Paijmans J, Bossen L, et al. eGFRD in all dimensions. The Journal of Chemical Physics. 2019;150(5). doi:10.1063/1.5064867"},"intvolume":" 150","publisher":"AIP Publishing","publication":"The Journal of Chemical Physics","publication_identifier":{"issn":["0021-9606"],"eissn":["1089-7690"]},"volume":150,"article_type":"original","main_file_link":[{"url":"https://arxiv.org/abs/1708.09364","open_access":"1"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Biochemical reactions often occur at low copy numbers but at once in crowded and diverse environments. Space and stochasticity therefore play an essential role in biochemical networks. Spatial-stochastic simulations have become a prominent tool for understanding how stochasticity at the microscopic level influences the macroscopic behavior of such systems. While particle-based models guarantee the level of detail necessary to accurately describe the microscopic dynamics at very low copy numbers, the algorithms used to simulate them typically imply trade-offs between computational efficiency and biochemical accuracy. eGFRD (enhanced Green’s Function Reaction Dynamics) is an exact algorithm that evades such trade-offs by partitioning the N-particle system into M ≤ N analytically tractable one- and two-particle systems; the analytical solutions (Green’s functions) then are used to implement an event-driven particle-based scheme that allows particles to make large jumps in time and space while retaining access to their state variables at arbitrary simulation times. Here we present “eGFRD2,” a new eGFRD version that implements the principle of eGFRD in all dimensions, thus enabling efficient particle-based simulation of biochemical reaction-diffusion processes in the 3D cytoplasm, on 2D planes representing membranes, and on 1D elongated cylinders representative of, e.g., cytoskeletal tracks or DNA; in 1D, it also incorporates convective motion used to model active transport. We find that, for low particle densities, eGFRD2 is up to 6 orders of magnitude faster than conventional Brownian dynamics. We exemplify the capabilities of eGFRD2 by simulating an idealized model of Pom1 gradient formation, which involves 3D diffusion, active transport on microtubules, and autophosphorylation on the membrane, confirming recent experimental and theoretical results on this system to hold under genuinely stochastic conditions."}],"_id":"7422","month":"02","language":[{"iso":"eng"}],"isi":1,"external_id":{"isi":["000458109300009"],"arxiv":["1708.09364"]},"article_number":"054108","status":"public","issue":"5"},{"department":[{"_id":"FyKo"}],"title":"Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","status":"public","month":"09","abstract":[{"lang":"eng","text":"Frameshift and nonsense mutations near homopolymeric tracts of OG1 genes. Only 374 genes with typical length and domain composition were considered. (CSV 6 kb)"}],"_id":"9897","doi":"10.6084/m9.figshare.9808850.v1","type":"research_data_reference","article_processing_charge":"No","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808850.v1","open_access":"1"}],"author":[{"last_name":"Sigalova","full_name":"Sigalova, Olga M.","first_name":"Olga M."},{"first_name":"Andrei V.","full_name":"Chaplin, Andrei V.","last_name":"Chaplin"},{"id":"C4558D3C-6102-11E9-A62E-F418E6697425","orcid":"0000-0003-1006-6639","last_name":"Bochkareva","full_name":"Bochkareva, Olga","first_name":"Olga"},{"first_name":"Pavel V.","full_name":"Shelyakin, Pavel V.","last_name":"Shelyakin"},{"first_name":"Vsevolod A.","full_name":"Filaretov, Vsevolod A.","last_name":"Filaretov"},{"last_name":"Akkuratov","full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E."},{"first_name":"Valentina","full_name":"Burskaia, Valentina","last_name":"Burskaia"},{"first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S.","last_name":"Gelfand"}],"day":"12","citation":{"ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808850.v1","ieee":"O. M. Sigalova et al., “Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808850.v1.","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808850.v1","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 20 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808850.v1.","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","mla":"Sigalova, Olga M., et al. Additional File 20 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808850.v1."},"date_created":"2021-08-12T07:58:15Z","date_published":"2019-09-12T00:00:00Z","publisher":"Springer Nature","oa_version":"Published Version","year":"2019","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","oa":1,"date_updated":"2026-04-03T09:39:41Z","related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]}},{"title":"Almost sure scattering for the energy-critical NLS with radial data below H1(R4)","quality_controlled":"1","doi":"10.1080/03605302.2018.1541904","das_tickbox":"1","author":[{"full_name":"Killip, Rowan","first_name":"Rowan","last_name":"Killip"},{"full_name":"Murphy, Jason","first_name":"Jason","last_name":"Murphy"},{"id":"056daca0-b8d1-11f0-964f-f91054abf8ca","last_name":"Visan","full_name":"Visan, Monica","first_name":"Monica"}],"day":"15","date_published":"2019-02-15T00:00:00Z","arxiv":1,"article_processing_charge":"No","publication_status":"published","year":"2019","mathsc":["35Q55"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","scopus_import":"1","issue":"1","abstract":[{"lang":"eng","text":"We prove almost sure global existence and scattering for the energy-critical nonlinear Schrödinger equation with randomized spherically symmetric initial data in 𝐻𝑠(ℝ4) with \r\n5/6<𝑠<1. We were inspired to consider this problem by the recent work of Dodson–Lührmann–Mendelson, which treated the analogous problem for the energy-critical wave equation."}],"_id":"22066","OA_place":"repository","type":"journal_article","external_id":{"arxiv":["1707.09051"]},"language":[{"iso":"eng"}],"month":"02","page":"51-71","intvolume":" 44","citation":{"ista":"Killip R, Murphy J, Vişan M. 2019. Almost sure scattering for the energy-critical NLS with radial data below H1(R4). Communications in Partial Differential Equations. 44(1), 51–71.","apa":"Killip, R., Murphy, J., & Vişan, M. (2019). Almost sure scattering for the energy-critical NLS with radial data below H1(R4). Communications in Partial Differential Equations. Informa UK Limited. https://doi.org/10.1080/03605302.2018.1541904","chicago":"Killip, Rowan, Jason Murphy, and Monica Vişan. “Almost Sure Scattering for the Energy-Critical NLS with Radial Data below H1(R4).” Communications in Partial Differential Equations. Informa UK Limited, 2019. https://doi.org/10.1080/03605302.2018.1541904.","ieee":"R. Killip, J. Murphy, and M. Vişan, “Almost sure scattering for the energy-critical NLS with radial data below H1(R4),” Communications in Partial Differential Equations, vol. 44, no. 1. Informa UK Limited, pp. 51–71, 2019.","ama":"Killip R, Murphy J, Vişan M. Almost sure scattering for the energy-critical NLS with radial data below H1(R4). Communications in Partial Differential Equations. 2019;44(1):51-71. doi:10.1080/03605302.2018.1541904","mla":"Killip, Rowan, et al. “Almost Sure Scattering for the Energy-Critical NLS with Radial Data below H1(R4).” Communications in Partial Differential Equations, vol. 44, no. 1, Informa UK Limited, 2019, pp. 51–71, doi:10.1080/03605302.2018.1541904.","short":"R. Killip, J. Murphy, M. Vişan, Communications in Partial Differential Equations 44 (2019) 51–71."},"date_created":"2026-06-19T08:13:26Z","publication":"Communications in Partial Differential Equations","OA_type":"green","publisher":"Informa UK Limited","article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.1707.09051"}],"volume":44,"publication_identifier":{"issn":["0360-5302"],"eissn":["1532-4133"]},"oa":1,"date_updated":"2026-06-30T07:16:06Z","oa_version":"Preprint","extern":"1"},{"has_accepted_license":"1","_id":"6822","abstract":[{"text":"In two-player games on graphs, the players move a token through a graph to produce an infinite path, which determines the qualitative winner or quantitative payoff of the game. In bidding games, in each turn, we hold an auction between the two players to determine which player moves the token. Bidding games have largely been studied with concrete bidding mechanisms that are variants of a first-price auction: in each turn both players simultaneously submit bids, the higher\r\nbidder moves the token, and pays his bid to the lower bidder in Richman bidding, to the bank in poorman bidding, and in taxman bidding, the bid is split between the other player and the bank according to a predefined constant factor. Bidding games are deterministic games. They have an intriguing connection with a fragment of stochastic games called \r\n randomturn games. We study, for the first time, a combination of bidding games with probabilistic behavior; namely, we study bidding games that are played on Markov decision processes, where the players bid for the right to choose the next action, which determines the probability distribution according to which the next vertex is chosen. We study parity and meanpayoff bidding games on MDPs and extend results from the deterministic bidding setting to the probabilistic one.","lang":"eng"}],"type":"conference","language":[{"iso":"eng"}],"isi":1,"external_id":{"isi":["001333747500001"]},"month":"09","status":"public","scopus_import":"1","file_date_updated":"2020-07-14T12:47:41Z","conference":{"name":"RP: Reachability Problems","start_date":"2019-09-11","end_date":"2019-09-13","location":"Brussels, Belgium"},"oa":1,"date_updated":"2026-07-07T13:29:21Z","oa_version":"Submitted Version","alternative_title":["LNCS"],"page":"1-12","publisher":"Springer","publication":"Proceedings of the 13th International Conference of Reachability Problems","ddc":["000"],"date_created":"2019-08-19T07:58:10Z","citation":{"short":"G. Avni, T.A. Henzinger, R. Ibsen-Jensen, P. Novotny, in:, Proceedings of the 13th International Conference of Reachability Problems, Springer, 2019, pp. 1–12.","mla":"Avni, Guy, et al. “Bidding Games on Markov Decision Processes.” Proceedings of the 13th International Conference of Reachability Problems, vol. 11674, Springer, 2019, pp. 1–12, doi:10.1007/978-3-030-30806-3_1.","ama":"Avni G, Henzinger TA, Ibsen-Jensen R, Novotny P. Bidding games on Markov decision processes. In: Proceedings of the 13th International Conference of Reachability Problems. Vol 11674. Springer; 2019:1-12. doi:10.1007/978-3-030-30806-3_1","ieee":"G. Avni, T. A. Henzinger, R. Ibsen-Jensen, and P. Novotny, “Bidding games on Markov decision processes,” in Proceedings of the 13th International Conference of Reachability Problems, Brussels, Belgium, 2019, vol. 11674, pp. 1–12.","ista":"Avni G, Henzinger TA, Ibsen-Jensen R, Novotny P. 2019. Bidding games on Markov decision processes. Proceedings of the 13th International Conference of Reachability Problems. RP: Reachability Problems, LNCS, vol. 11674, 1–12.","apa":"Avni, G., Henzinger, T. A., Ibsen-Jensen, R., & Novotny, P. (2019). Bidding games on Markov decision processes. In Proceedings of the 13th International Conference of Reachability Problems (Vol. 11674, pp. 1–12). Brussels, Belgium: Springer. https://doi.org/10.1007/978-3-030-30806-3_1","chicago":"Avni, Guy, Thomas A Henzinger, Rasmus Ibsen-Jensen, and Petr Novotny. “Bidding Games on Markov Decision Processes.” In Proceedings of the 13th International Conference of Reachability Problems, 11674:1–12. Springer, 2019. https://doi.org/10.1007/978-3-030-30806-3_1."},"intvolume":" 11674","publication_identifier":{"isbn":["978-303030805-6"],"issn":["0302-9743"]},"volume":11674,"doi":"10.1007/978-3-030-30806-3_1","project":[{"name":"Formal Methods meets Algorithmic Game Theory","call_identifier":"FWF","grant_number":"M02369","_id":"264B3912-B435-11E9-9278-68D0E5697425"},{"grant_number":"S11402-N23","_id":"25F2ACDE-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"call_identifier":"FWF","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","department":[{"_id":"ToHe"}],"title":"Bidding games on Markov decision processes","file":[{"access_level":"open_access","file_id":"6823","file_name":"prob.pdf","creator":"gavni","date_updated":"2020-07-14T12:47:41Z","file_size":436635,"checksum":"45ebbc709af2b247d28c7c293c01504b","content_type":"application/pdf","date_created":"2019-08-19T07:56:40Z","relation":"main_file"}],"publication_status":"published","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"06","author":[{"last_name":"Avni","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5588-8287","first_name":"Guy","full_name":"Avni, Guy"},{"first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724"},{"last_name":"Ibsen-Jensen","orcid":"0000-0003-4783-0389","id":"3B699956-F248-11E8-B48F-1D18A9856A87","first_name":"Rasmus","full_name":"Ibsen-Jensen, Rasmus"},{"last_name":"Novotny","first_name":"Petr","full_name":"Novotny, Petr"}],"das_tickbox":"1","date_published":"2019-09-06T00:00:00Z","article_processing_charge":"No"},{"oa_version":"Submitted Version","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8934"}]},"oa":1,"date_updated":"2026-07-21T22:30:55Z","publication_identifier":{"isbn":["9781450359337"]},"volume":"Part F147772","page":"400-408","publication":"Proceedings of the 34th ACM Symposium on Applied Computing","publisher":"ACM","citation":{"ista":"Chatterjee K, Goharshady AK, Goharshady EK. 2019. The treewidth of smart contracts. Proceedings of the 34th ACM Symposium on Applied Computing. SAC: Symposium on Applied Computing vol. Part F147772, 400–408.","apa":"Chatterjee, K., Goharshady, A. K., & Goharshady, E. K. (2019). The treewidth of smart contracts. In Proceedings of the 34th ACM Symposium on Applied Computing (Vol. Part F147772, pp. 400–408). Limassol, Cyprus: ACM. https://doi.org/10.1145/3297280.3297322","chicago":"Chatterjee, Krishnendu, Amir Kafshdar Goharshady, and Ehsan Kafshdar Goharshady. “The Treewidth of Smart Contracts.” In Proceedings of the 34th ACM Symposium on Applied Computing, Part F147772:400–408. ACM, 2019. https://doi.org/10.1145/3297280.3297322.","ieee":"K. Chatterjee, A. K. Goharshady, and E. K. Goharshady, “The treewidth of smart contracts,” in Proceedings of the 34th ACM Symposium on Applied Computing, Limassol, Cyprus, 2019, vol. Part F147772, pp. 400–408.","ama":"Chatterjee K, Goharshady AK, Goharshady EK. The treewidth of smart contracts. In: Proceedings of the 34th ACM Symposium on Applied Computing. Vol Part F147772. ACM; 2019:400-408. doi:10.1145/3297280.3297322","mla":"Chatterjee, Krishnendu, et al. “The Treewidth of Smart Contracts.” Proceedings of the 34th ACM Symposium on Applied Computing, vol. Part F147772, ACM, 2019, pp. 400–08, doi:10.1145/3297280.3297322.","short":"K. Chatterjee, A.K. Goharshady, E.K. Goharshady, in:, Proceedings of the 34th ACM Symposium on Applied Computing, ACM, 2019, pp. 400–408."},"ddc":["000"],"date_created":"2019-05-26T21:59:15Z","language":[{"iso":"eng"}],"external_id":{"isi":["000474685800052"]},"isi":1,"month":"04","_id":"6490","has_accepted_license":"1","abstract":[{"text":"Smart contracts are programs that are stored and executed on the Blockchain and can receive, manage and transfer money (cryptocurrency units). Two important problems regarding smart contracts are formal analysis and compiler optimization. Formal analysis is extremely important, because smart contracts hold funds worth billions of dollars and their code is immutable after deployment. Hence, an undetected bug can cause significant financial losses. Compiler optimization is also crucial, because every action of a smart contract has to be executed by every node in the Blockchain network. Therefore, optimizations in compiling smart contracts can lead to significant savings in computation, time and energy.\r\n\r\nTwo classical approaches in program analysis and compiler optimization are intraprocedural and interprocedural analysis. In intraprocedural analysis, each function is analyzed separately, while interprocedural analysis considers the entire program. In both cases, the analyses are usually reduced to graph problems over the control flow graph (CFG) of the program. These graph problems are often computationally expensive. Hence, there has been ample research on exploiting structural properties of CFGs for efficient algorithms. One such well-studied property is the treewidth, which is a measure of tree-likeness of graphs. It is known that intraprocedural CFGs of structured programs have treewidth at most 6, whereas the interprocedural treewidth cannot be bounded. This result has been used as a basis for many efficient intraprocedural analyses.\r\n\r\nIn this paper, we explore the idea of exploiting the treewidth of smart contracts for formal analysis and compiler optimization. First, similar to classical programs, we show that the intraprocedural treewidth of structured Solidity and Vyper smart contracts is at most 9. Second, for global analysis, we prove that the interprocedural treewidth of structured smart contracts is bounded by 10 and, in sharp contrast with classical programs, treewidth-based algorithms can be easily applied for interprocedural analysis. Finally, we supplement our theoretical results with experiments using a tool we implemented for computing treewidth of smart contracts and show that the treewidth is much lower in practice. We use 36,764 real-world Ethereum smart contracts as benchmarks and find that they have an average treewidth of at most 3.35 for the intraprocedural case and 3.65 for the interprocedural case.\r\n","lang":"eng"}],"type":"conference","file_date_updated":"2020-07-14T12:47:32Z","scopus_import":"1","conference":{"name":"SAC: Symposium on Applied Computing","location":"Limassol, Cyprus","end_date":"2019-04-12","start_date":"2019-04-08"},"status":"public","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","article_processing_charge":"No","corr_author":"1","day":"01","pubrep_id":"1070","author":[{"last_name":"Chatterjee","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"last_name":"Goharshady","id":"391365CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1702-6584","first_name":"Amir Kafshdar","full_name":"Goharshady, Amir Kafshdar"},{"last_name":"Goharshady","full_name":"Goharshady, Ehsan Kafshdar","first_name":"Ehsan Kafshdar"}],"date_published":"2019-04-01T00:00:00Z","doi":"10.1145/3297280.3297322","quality_controlled":"1","file":[{"creator":"dernst","date_updated":"2020-07-14T12:47:32Z","file_name":"2019_ACM_Chatterjee.pdf","file_id":"7827","access_level":"open_access","content_type":"application/pdf","checksum":"dddc20f6d9881f23b8755eb720ec9d6f","relation":"main_file","date_created":"2020-05-14T09:50:11Z","file_size":6937138}],"department":[{"_id":"KrCh"}],"title":"The treewidth of smart contracts"},{"pmid":1,"status":"public","scopus_import":"1","type":"journal_article","abstract":[{"text":"Biomarkers of aging can be used to assess the health of individuals and to study aging and age-related diseases. We generate a large dataset of genome-wide RNA-seq profiles of human dermal fibroblasts from 133 people aged 1 to 94 years old to test whether signatures of aging are encoded within the transcriptome. We develop an ensemble machine learning method that predicts age to a median error of 4 years, outperforming previous methods used to predict age. The ensemble was further validated by testing it on ten progeria patients, and our method is the only one that predicts accelerated aging in these patients.","lang":"eng"}],"_id":"11064","month":"12","external_id":{"pmid":["30567591"]},"language":[{"iso":"eng"}],"article_number":"221","date_created":"2022-04-07T07:45:40Z","citation":{"short":"J.G. Fleischer, R. Schulte, H.H. Tsai, S. Tyagi, A. Ibarra, M.N. Shokhirev, L. Huang, M. Hetzer, S. Navlakha, Genome Biology 19 (2018).","mla":"Fleischer, Jason G., et al. “Predicting Age from the Transcriptome of Human Dermal Fibroblasts.” Genome Biology, vol. 19, 221, BioMed Central, 2018, doi:10.1186/s13059-018-1599-6.","ama":"Fleischer JG, Schulte R, Tsai HH, et al. Predicting age from the transcriptome of human dermal fibroblasts. Genome Biology. 2018;19. doi:10.1186/s13059-018-1599-6","ieee":"J. G. Fleischer et al., “Predicting age from the transcriptome of human dermal fibroblasts,” Genome Biology, vol. 19. BioMed Central, 2018.","chicago":"Fleischer, Jason G., Roberta Schulte, Hsiao H. Tsai, Swati Tyagi, Arkaitz Ibarra, Maxim N. Shokhirev, Ling Huang, Martin Hetzer, and Saket Navlakha. “Predicting Age from the Transcriptome of Human Dermal Fibroblasts.” Genome Biology. BioMed Central, 2018. https://doi.org/10.1186/s13059-018-1599-6.","apa":"Fleischer, J. G., Schulte, R., Tsai, H. H., Tyagi, S., Ibarra, A., Shokhirev, M. N., … Navlakha, S. (2018). Predicting age from the transcriptome of human dermal fibroblasts. Genome Biology. BioMed Central. https://doi.org/10.1186/s13059-018-1599-6","ista":"Fleischer JG, Schulte R, Tsai HH, Tyagi S, Ibarra A, Shokhirev MN, Huang L, Hetzer M, Navlakha S. 2018. Predicting age from the transcriptome of human dermal fibroblasts. Genome Biology. 19, 221."},"intvolume":" 19","publication":"Genome Biology","publisher":"BioMed Central","volume":19,"publication_identifier":{"issn":["1474-760X"]},"article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1186/s13059-018-1599-6"}],"date_updated":"2024-10-14T11:20:00Z","oa":1,"extern":"1","oa_version":"Published Version","title":"Predicting age from the transcriptome of human dermal fibroblasts","quality_controlled":"1","doi":"10.1186/s13059-018-1599-6","date_published":"2018-12-20T00:00:00Z","author":[{"last_name":"Fleischer","first_name":"Jason G.","full_name":"Fleischer, Jason G."},{"last_name":"Schulte","first_name":"Roberta","full_name":"Schulte, Roberta"},{"first_name":"Hsiao H.","full_name":"Tsai, Hsiao H.","last_name":"Tsai"},{"full_name":"Tyagi, Swati","first_name":"Swati","last_name":"Tyagi"},{"first_name":"Arkaitz","full_name":"Ibarra, Arkaitz","last_name":"Ibarra"},{"first_name":"Maxim N.","full_name":"Shokhirev, Maxim N.","last_name":"Shokhirev"},{"first_name":"Ling","full_name":"Huang, Ling","last_name":"Huang"},{"first_name":"Martin W","full_name":"HETZER, Martin W","last_name":"HETZER","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed"},{"first_name":"Saket","full_name":"Navlakha, Saket","last_name":"Navlakha"}],"day":"20","article_processing_charge":"No","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018"},{"volume":619,"publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1805.11621"}],"article_type":"original","publication":"Astronomy & Astrophysics","publisher":"EDP Sciences","citation":{"mla":"Matthee, Jorryt J., et al. “Confirmation of Double Peaked Lyα Emission at z = 6.593: Witnessing a Galaxy Directly Contributing to the Reionisation of the Universe.” Astronomy & Astrophysics, vol. 619, A136, EDP Sciences, 2018, doi:10.1051/0004-6361/201833528.","short":"J.J. Matthee, D. Sobral, M. Gronke, A. Paulino-Afonso, M. Stefanon, H. Röttgering, Astronomy & Astrophysics 619 (2018).","apa":"Matthee, J. J., Sobral, D., Gronke, M., Paulino-Afonso, A., Stefanon, M., & Röttgering, H. (2018). Confirmation of double peaked Lyα emission at z = 6.593: Witnessing a galaxy directly contributing to the reionisation of the universe. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201833528","chicago":"Matthee, Jorryt J, David Sobral, Max Gronke, Ana Paulino-Afonso, Mauro Stefanon, and Huub Röttgering. “Confirmation of Double Peaked Lyα Emission at z = 6.593: Witnessing a Galaxy Directly Contributing to the Reionisation of the Universe.” Astronomy & Astrophysics. EDP Sciences, 2018. https://doi.org/10.1051/0004-6361/201833528.","ista":"Matthee JJ, Sobral D, Gronke M, Paulino-Afonso A, Stefanon M, Röttgering H. 2018. Confirmation of double peaked Lyα emission at z = 6.593: Witnessing a galaxy directly contributing to the reionisation of the universe. Astronomy & Astrophysics. 619, A136.","ama":"Matthee JJ, Sobral D, Gronke M, Paulino-Afonso A, Stefanon M, Röttgering H. Confirmation of double peaked Lyα emission at z = 6.593: Witnessing a galaxy directly contributing to the reionisation of the universe. Astronomy & Astrophysics. 2018;619. doi:10.1051/0004-6361/201833528","ieee":"J. J. Matthee, D. Sobral, M. Gronke, A. Paulino-Afonso, M. Stefanon, and H. Röttgering, “Confirmation of double peaked Lyα emission at z = 6.593: Witnessing a galaxy directly contributing to the reionisation of the universe,” Astronomy & Astrophysics, vol. 619. EDP Sciences, 2018."},"date_created":"2022-07-06T11:14:23Z","intvolume":" 619","extern":"1","oa_version":"Published Version","oa":1,"date_updated":"2024-10-14T11:31:36Z","scopus_import":"1","acknowledgement":"JM acknowledges the award of a Huygens PhD fellowship from Leiden University. MG acknowledges support from NASA grant NNX17AK58G. APA, PhD::SPACE fellow, acknowledges support from the FCT through the fellowship PD/BD/52706/2014. Based on observations made with ESO Telescopes at the La Silla Paranal Observatory under programme IDs 294.A-5018, 098.A-0819, 099.A-0254 and 0100.A-0213. We are grateful for the excellent data-sets from the COSMOS and UltraVISTA survey teams. This research was supported by the Munich Institute for Astro- and Particle Physics (MIAPP) of the DFG cluster of excellence “Origin and Structure of the Universe”. We thank the referee for their comments that improved the paper. We also thank Christoph Behrens, Len Cowie, Koki Kakiichi, Peter Laursen, Charlotte Mason, Eros Vanzella, Lewis Weinberger and Johannes Zabl for discussions. We have benefited from the public available programming language Python, including the numpy, matplotlib, scipy and astropy packages (Hunter 2007; Astropy Collaboration 2013), the astronomical imaging tools Swarp (Bertin 2010) and ds9 and the Topcat analysis tool (Taylor 2013).","keyword":["Space and Planetary Science","Astronomy and Astrophysics","galaxies: high-redshift / galaxies: formation / dark ages / reionization / first stars / techniques: spectroscopic / intergalactic medium"],"status":"public","month":"11","article_number":"A136","external_id":{"arxiv":["1805.11621"]},"language":[{"iso":"eng"}],"type":"journal_article","_id":"11508","abstract":[{"text":"Distant luminous Lyman-α emitters (LAEs) are excellent targets for spectroscopic observations of galaxies in the epoch of reionisation (EoR). We present deep high-resolution (R = 5000) VLT/X-shooter observations, along with an extensive collection of photometric data of COLA1, a proposed double peaked LAE at z = 6.6. We rule out the possibility that COLA1’s emission line is an [OII] doublet at z = 1.475 on the basis of i) the asymmetric red line-profile and flux ratio of the peaks (blue/red=0.31 ± 0.03) and ii) an unphysical [OII]/Hα ratio ([OII]/Hα > 22). We show that COLA1’s observed B-band flux is explained by a faint extended foreground LAE, for which we detect Lyα and [OIII] at z = 2.142. We thus conclude that COLA1 is a real double-peaked LAE at z = 6.593, the first discovered at z > 6. COLA1 is UV luminous (M1500 = −21.6 ± 0.3), has a high equivalent width (EW0,Lyα = 120−40+50 Å) and very compact Lyα emission (r50,Lyα = 0.33−0.04+0.07 kpc). Relatively weak inferred Hβ+[OIII] line-emission from Spitzer/IRAC indicates an extremely low metallicity of Z < 1/20 Z⊙ or reduced strength of nebular lines due to high escape of ionising photons. The small Lyα peak separation of 220 ± 20 km s−1 implies a low HI column density and an ionising photon escape fraction of ≈15 − 30%, providing the first direct evidence that such galaxies contribute actively to the reionisation of the Universe at z > 6. Based on simple estimates, we find that COLA1 could have provided just enough photons to reionise its own ≈0.3 pMpc (2.3 cMpc) bubble, allowing the blue Lyα line to be observed. However, we also discuss alternative scenarios explaining the detected double peaked nature of COLA1. Our results show that future high-resolution observations of statistical samples of double peaked LAEs at z > 5 are a promising probe of the occurrence of ionised regions around galaxies in the EoR.","lang":"eng"}],"arxiv":1,"article_processing_charge":"No","date_published":"2018-11-19T00:00:00Z","day":"19","author":[{"full_name":"Matthee, Jorryt J","first_name":"Jorryt J","orcid":"0000-0003-2871-127X","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee"},{"last_name":"Sobral","full_name":"Sobral, David","first_name":"David"},{"last_name":"Gronke","first_name":"Max","full_name":"Gronke, Max"},{"last_name":"Paulino-Afonso","full_name":"Paulino-Afonso, Ana","first_name":"Ana"},{"full_name":"Stefanon, Mauro","first_name":"Mauro","last_name":"Stefanon"},{"last_name":"Röttgering","first_name":"Huub","full_name":"Röttgering, Huub"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publication_status":"published","title":"Confirmation of double peaked Lyα emission at z = 6.593: Witnessing a galaxy directly contributing to the reionisation of the universe","doi":"10.1051/0004-6361/201833528","quality_controlled":"1"},{"arxiv":1,"article_processing_charge":"No","date_published":"2018-07-01T00:00:00Z","day":"01","author":[{"last_name":"Carniani","full_name":"Carniani, S","first_name":"S"},{"last_name":"Maiolino","full_name":"Maiolino, R","first_name":"R"},{"last_name":"Amorin","first_name":"R","full_name":"Amorin, R"},{"last_name":"Pentericci","first_name":"L","full_name":"Pentericci, L"},{"full_name":"Pallottini, A","first_name":"A","last_name":"Pallottini"},{"last_name":"Ferrara","first_name":"A","full_name":"Ferrara, A"},{"last_name":"Willott","full_name":"Willott, C J","first_name":"C J"},{"last_name":"Smit","full_name":"Smit, R","first_name":"R"},{"id":"7439a258-f3c0-11ec-9501-9df22fe06720","orcid":"0000-0003-2871-127X","last_name":"Matthee","full_name":"Matthee, Jorryt J","first_name":"Jorryt J"},{"last_name":"Sobral","first_name":"D","full_name":"Sobral, D"},{"full_name":"Santini, P","first_name":"P","last_name":"Santini"},{"full_name":"Castellano, M","first_name":"M","last_name":"Castellano"},{"full_name":"De Barros, S","first_name":"S","last_name":"De Barros"},{"last_name":"Fontana","full_name":"Fontana, A","first_name":"A"},{"first_name":"A","full_name":"Grazian, A","last_name":"Grazian"},{"full_name":"Guaita, L","first_name":"L","last_name":"Guaita"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publication_status":"published","title":"Kiloparsec-scale gaseous clumps and star formation at z = 5–7","doi":"10.1093/mnras/sty1088","quality_controlled":"1","volume":478,"publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1712.03985"}],"article_type":"original","publication":"Monthly Notices of the Royal Astronomical Society","publisher":"Oxford University Press","intvolume":" 478","date_created":"2022-07-11T08:05:42Z","citation":{"short":"S. Carniani, R. Maiolino, R. Amorin, L. Pentericci, A. Pallottini, A. Ferrara, C.J. Willott, R. Smit, J.J. Matthee, D. Sobral, P. Santini, M. Castellano, S. De Barros, A. Fontana, A. Grazian, L. Guaita, Monthly Notices of the Royal Astronomical Society 478 (2018) 1170–1184.","mla":"Carniani, S., et al. “Kiloparsec-Scale Gaseous Clumps and Star Formation at z = 5–7.” Monthly Notices of the Royal Astronomical Society, vol. 478, no. 1, Oxford University Press, 2018, pp. 1170–84, doi:10.1093/mnras/sty1088.","ieee":"S. Carniani et al., “Kiloparsec-scale gaseous clumps and star formation at z = 5–7,” Monthly Notices of the Royal Astronomical Society, vol. 478, no. 1. Oxford University Press, pp. 1170–1184, 2018.","ama":"Carniani S, Maiolino R, Amorin R, et al. Kiloparsec-scale gaseous clumps and star formation at z = 5–7. Monthly Notices of the Royal Astronomical Society. 2018;478(1):1170-1184. doi:10.1093/mnras/sty1088","apa":"Carniani, S., Maiolino, R., Amorin, R., Pentericci, L., Pallottini, A., Ferrara, A., … Guaita, L. (2018). Kiloparsec-scale gaseous clumps and star formation at z = 5–7. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/sty1088","chicago":"Carniani, S, R Maiolino, R Amorin, L Pentericci, A Pallottini, A Ferrara, C J Willott, et al. “Kiloparsec-Scale Gaseous Clumps and Star Formation at z = 5–7.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2018. https://doi.org/10.1093/mnras/sty1088.","ista":"Carniani S, Maiolino R, Amorin R, Pentericci L, Pallottini A, Ferrara A, Willott CJ, Smit R, Matthee JJ, Sobral D, Santini P, Castellano M, De Barros S, Fontana A, Grazian A, Guaita L. 2018. Kiloparsec-scale gaseous clumps and star formation at z = 5–7. Monthly Notices of the Royal Astronomical Society. 478(1), 1170–1184."},"page":"1170-1184","extern":"1","oa_version":"Preprint","date_updated":"2022-08-19T06:58:06Z","oa":1,"issue":"1","scopus_import":"1","acknowledgement":"This paper makes use of the following ALMA data:\r\nADS/JAO.ALMA#2012.1.00719.S, ADS/JAO.ALMA#2012.A.00040.S,\r\nADS/JAO.ALMA#2013.A.00433.S, ADS/JAO.ALMA#2011.0.00115.S,\r\nADS/JAO.ALMA#2012.1.00033.S, ADS/JAO.ALMA#2012.1.00523.S,\r\nADS/JAO.ALMA#2013.1.00815.S, ADS/JAO.ALMA#2015.1.00834.S.,\r\nADS/JAO.ALMA#2015.1.01105.S, AND ADS/JAO.ALMA#2016.1.01240.S\r\nwhich can be retrieved from the ALMA data archive:\r\nhttps://almascience.eso.org/ alma-data/archive. ALMA is a partnership of ESO (representing its member states), NSF (USA) and NINS (Japan), together with NRC (Canada) and NSC and ASIAA (Taiwan), in cooperation with the Republic of Chile. The Joint ALMA Observatory is operated by ESO, AUI/NRAO, and NAOJ. We are grateful to G. Jones to for providing his [C II] flux maps. RM and SC acknowledge support by the Science and Technology Facilities Council (STFC). RM acknowledges ERC Advanced Grant 695671 ‘QUENCH’. AF acknowledges support from the ERC Advanced Grant INTERSTELLAR H2020/740120.","status":"public","keyword":["Space and Planetary Science","Astronomy and Astrophysics","galaxies: evolution","galaxies: high-redshift","galaxies: ISM","galaxies: formation"],"month":"07","language":[{"iso":"eng"}],"external_id":{"arxiv":["1712.03985"]},"type":"journal_article","_id":"11555","abstract":[{"lang":"eng","text":"We investigate the morphology of the [C II] emission in a sample of ‘normal’ star-forming galaxies at 5 < z < 7.2 in relation to their UV (rest-frame) counterpart. We use new Atacama Large Millimetre/submillimetre Array (ALMA) observations of galaxies at z ∼ 6–7, as well as a careful re-analysis of archival ALMA data. In total 29 galaxies were analysed, 21 of which are detected in [C II]. For several of the latter the [C II] emission breaks into multiple components. Only a fraction of these [C II] components, if any, is associated with the primary UV systems, while the bulk of the [C II] emission is associated either with fainter UV components, or not associated with any UV counterpart at the current limits. By taking into account the presence of all these components, we find that the L[CII]–SFR (star formation rate) relation at early epochs is fully consistent with the local relation, but it has a dispersion of 0.48 ± 0.07 dex, which is about two times larger than observed locally. We also find that the deviation from the local L[CII]–SFR relation has a weak anticorrelation with the EW(Ly α). The morphological analysis also reveals that [C II] emission is generally much more extended than the UV emission. As a consequence, these primordial galaxies are characterized by a [C II] surface brightness generally much lower than expected from the local Σ[CII]−ΣSFR relation. These properties are likely a consequence of a combination of different effects, namely gas metallicity, [C II] emission from obscured star-forming regions, strong variations of the ionization parameter, and circumgalactic gas in accretion or ejected by these primeval galaxies."}]},{"title":"Slicing COSMOS with SC4K: The evolution of typical Ly α emitters and the Ly α escape fraction from z ∼ 2 to 6","doi":"10.1093/mnras/sty378","quality_controlled":"1","date_published":"2018-06-01T00:00:00Z","day":"01","author":[{"first_name":"David","full_name":"Sobral, David","last_name":"Sobral"},{"last_name":"Santos","full_name":"Santos, Sérgio","first_name":"Sérgio"},{"last_name":"Matthee","id":"7439a258-f3c0-11ec-9501-9df22fe06720","orcid":"0000-0003-2871-127X","first_name":"Jorryt J","full_name":"Matthee, Jorryt J"},{"first_name":"Ana","full_name":"Paulino-Afonso, Ana","last_name":"Paulino-Afonso"},{"last_name":"Ribeiro","first_name":"Bruno","full_name":"Ribeiro, Bruno"},{"first_name":"João","full_name":"Calhau, João","last_name":"Calhau"},{"last_name":"Khostovan","first_name":"Ali A","full_name":"Khostovan, Ali A"}],"arxiv":1,"article_processing_charge":"No","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","acknowledgement":"We thank the anonymous referee for their constructive comments that helped us improve the manuscript. DS acknowledges the hospitality of the IAC and a Severo Ochoa visiting grant. SS and JC acknowledge studentships from the Lancaster University. JM acknowledges a Huygens PhD fellowship from Leiden University. APA acknowledges financial support from the Science and Technology Foundation (FCT, Portugal) through research grants UID/FIS/04434/2013 and fellowship PD/BD/52706/2014. The authors thank Alyssa Drake, Kimihiko Nakajima, Yuichi Harikane, Max Gronke, Irene Shivaei, Helmut Dannerbauer, Huub Rottgering, ¨ Marius Eide, and Masami Ouchi for many engaging and stimulating discussions. We also thank Sara Perez, Alex Bennett, and Tom Rose for their involvement in the early stages of this project. Based on data products from observations made with European Southern Observatory (ESO) Telescopes at the La Silla Paranal Observatory under ESO programme IDs 294.A-5018, 097.A 0943,\r\n098.A-0819, 099.A-0254, and 179.A-2005 and on data products produced by TERAPIX and the Cambridge Astronomy Survey Unit on behalf of the UltraVISTA consortium. Based on observations using the WFC on the 2.5 m INT, as part of programmes 2013AN002, 2013BN008, 2014AC88, 2014AN002, 2014BN006, 2014BC118, and 2016AN001. The INT is operated on the island of La Palma by the Isaac Newton Group in the Spanish Observatorio del Roque de los Muchachos of the Instituto de Astrofisica de Canarias. This work is based in part on data products produced at TERAPIX available at the Canadian Astronomy Data Centre as part of the Canada–France– Hawaii Telescope Legacy Survey (CFHTLS), a collaborative project of NRC and CNRS.\r\nWe are grateful to the CFHTLS, COSMOS-UltraVISTA, and COSMOS survey teams. We are also unmeasurably thankful to the pioneering and continuous work from previous Ly α surveys’ teams. Without these previous Ly α and the wider reach legacy surveys, this research would have been impossible. We also thank the VUDS team for making available spectroscopic redshifts from data obtained with VIMOS at the European Southern Observatory Very Large Telescope, Paranal, Chile, under Large Programme 185.A-0791. Finally, the authors acknowledge the unique value of the publicly available programming language PYTHON, including the NUMPY and SCIPY (Van Der Walt, Colbert & Varoquaux 2011; Jones et al. 2001), MATPLOTLIB (Hunter 2007), ASTROPY (Astropy Collaboration et al. 2013), and the TOPCAT analysis program (Taylor 2005). We publicly release a catalogue with all LAEs used in this paper (SC4K), so it can be freely explored by the community (see five example entries in Table A1).","status":"public","keyword":["Space and Planetary Science","Astronomy and Astrophysics","galaxies: evolution","galaxies: formation","galaxies: high-redshift","galaxies: luminosity function","mass function","galaxies: statistics"],"issue":"4","scopus_import":"1","type":"journal_article","_id":"11558","abstract":[{"text":"We present and explore deep narrow- and medium-band data obtained with the Subaru and the Isaac Newton Telescopes in the ∼2 deg2 COSMOS field. We use these data as an extremely wide, low-resolution (R ∼ 20–80) Integral Field Unit survey to slice through the COSMOS field and obtain a large sample of ∼4000 Ly α emitters (LAEs) from z ∼ 2 to 6 in 16 redshift slices (SC4K). We present new Ly α luminosity functions (LFs) covering a comoving volume of ∼108 Mpc3. SC4K extensively complements ultradeep surveys, jointly covering over 4 dex in Ly α luminosity and revealing a global (2.5 < z < 6) synergy LF with α=−1.93+0.12−0.12, log10Φ∗Lyα=−3.45+0.22−0.29 Mpc−3, and log10L∗Lyα=42.93+0.15−0.11 erg s−1. The Schechter component of the Ly α LF reveals a factor ∼5 rise in L∗Lyα and a ∼7 × decline in Φ∗Lyα from z ∼ 2 to 6. The data reveal an extra power-law (or Schechter) component above LLy α ≈ 1043.3 erg s−1 at z ∼ 2.2–3.5 and we show that it is partially driven by X-ray and radio active galactic nucleus (AGN), as their Ly α LF resembles the excess. The power-law component vanishes and/or is below our detection limits above z > 3.5, likely linked with the evolution of the AGN population. The Ly α luminosity density rises by a factor ∼2 from z ∼ 2 to 3 but is then found to be roughly constant (1.1+0.2−0.2×1040 erg s−1 Mpc−3) to z ∼ 6, despite the ∼0.7 dex drop in ultraviolet (UV) luminosity density. The Ly α/UV luminosity density ratio rises from 4 ± 1 per cent to 30 ± 6 per cent from z ∼ 2.2 to 6. Our results imply a rise of a factor of ≈2 in the global ionization efficiency (ξion) and a factor ≈4 ± 1 in the Ly α escape fraction from z ∼ 2 to 6, hinting for evolution in both the typical burstiness/stellar populations and even more so in the typical interstellar medium conditions allowing Ly α photons to escape.","lang":"eng"}],"month":"06","language":[{"iso":"eng"}],"external_id":{"arxiv":["1712.04451"]},"publisher":"Oxford University Press","publication":"Monthly Notices of the Royal Astronomical Society","citation":{"ieee":"D. Sobral et al., “Slicing COSMOS with SC4K: The evolution of typical Ly α emitters and the Ly α escape fraction from z ∼ 2 to 6,” Monthly Notices of the Royal Astronomical Society, vol. 476, no. 4. Oxford University Press, pp. 4725–4752, 2018.","ama":"Sobral D, Santos S, Matthee JJ, et al. Slicing COSMOS with SC4K: The evolution of typical Ly α emitters and the Ly α escape fraction from z ∼ 2 to 6. Monthly Notices of the Royal Astronomical Society. 2018;476(4):4725-4752. doi:10.1093/mnras/sty378","ista":"Sobral D, Santos S, Matthee JJ, Paulino-Afonso A, Ribeiro B, Calhau J, Khostovan AA. 2018. Slicing COSMOS with SC4K: The evolution of typical Ly α emitters and the Ly α escape fraction from z ∼ 2 to 6. Monthly Notices of the Royal Astronomical Society. 476(4), 4725–4752.","apa":"Sobral, D., Santos, S., Matthee, J. J., Paulino-Afonso, A., Ribeiro, B., Calhau, J., & Khostovan, A. A. (2018). Slicing COSMOS with SC4K: The evolution of typical Ly α emitters and the Ly α escape fraction from z ∼ 2 to 6. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/sty378","chicago":"Sobral, David, Sérgio Santos, Jorryt J Matthee, Ana Paulino-Afonso, Bruno Ribeiro, João Calhau, and Ali A Khostovan. “Slicing COSMOS with SC4K: The Evolution of Typical Ly α Emitters and the Ly α Escape Fraction from z ∼ 2 to 6.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2018. https://doi.org/10.1093/mnras/sty378.","short":"D. Sobral, S. Santos, J.J. Matthee, A. Paulino-Afonso, B. Ribeiro, J. Calhau, A.A. Khostovan, Monthly Notices of the Royal Astronomical Society 476 (2018) 4725–4752.","mla":"Sobral, David, et al. “Slicing COSMOS with SC4K: The Evolution of Typical Ly α Emitters and the Ly α Escape Fraction from z ∼ 2 to 6.” Monthly Notices of the Royal Astronomical Society, vol. 476, no. 4, Oxford University Press, 2018, pp. 4725–52, doi:10.1093/mnras/sty378."},"date_created":"2022-07-12T10:41:08Z","intvolume":" 476","page":"4725-4752","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"volume":476,"main_file_link":[{"url":"https://arxiv.org/abs/1712.04451","open_access":"1"}],"article_type":"original","oa":1,"date_updated":"2022-08-19T07:04:45Z","extern":"1","oa_version":"Preprint"},{"article_processing_charge":"No","date_published":"2018-10-18T00:00:00Z","author":[{"first_name":"Evan S.","full_name":"Miles, Evan S.","last_name":"Miles"},{"last_name":"Willis","full_name":"Willis, Ian","first_name":"Ian"},{"last_name":"Buri","first_name":"Pascal","full_name":"Buri, Pascal"},{"last_name":"Steiner","full_name":"Steiner, Jakob F.","first_name":"Jakob F."},{"last_name":"Arnold","first_name":"Neil S.","full_name":"Arnold, Neil S."},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca","first_name":"Francesca"}],"day":"18","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publication_status":"published","title":"Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss","quality_controlled":"1","doi":"10.1029/2018gl079678","volume":45,"publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"article_type":"letter_note","main_file_link":[{"url":"https://doi.org/10.1029/2018GL079678","open_access":"1"}],"date_created":"2023-02-20T08:13:18Z","citation":{"short":"E.S. Miles, I. Willis, P. Buri, J.F. Steiner, N.S. Arnold, F. Pellicciotti, Geophysical Research Letters 45 (2018) 10464–10473.","mla":"Miles, Evan S., et al. “Surface Pond Energy Absorption across Four Himalayan Glaciers Accounts for 1/8 of Total Catchment Ice Loss.” Geophysical Research Letters, vol. 45, no. 19, American Geophysical Union, 2018, pp. 10464–73, doi:10.1029/2018gl079678.","ieee":"E. S. Miles, I. Willis, P. Buri, J. F. Steiner, N. S. Arnold, and F. Pellicciotti, “Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss,” Geophysical Research Letters, vol. 45, no. 19. American Geophysical Union, pp. 10464–10473, 2018.","ama":"Miles ES, Willis I, Buri P, Steiner JF, Arnold NS, Pellicciotti F. Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss. Geophysical Research Letters. 2018;45(19):10464-10473. doi:10.1029/2018gl079678","apa":"Miles, E. S., Willis, I., Buri, P., Steiner, J. F., Arnold, N. S., & Pellicciotti, F. (2018). Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss. Geophysical Research Letters. American Geophysical Union. https://doi.org/10.1029/2018gl079678","chicago":"Miles, Evan S., Ian Willis, Pascal Buri, Jakob F. Steiner, Neil S. Arnold, and Francesca Pellicciotti. “Surface Pond Energy Absorption across Four Himalayan Glaciers Accounts for 1/8 of Total Catchment Ice Loss.” Geophysical Research Letters. American Geophysical Union, 2018. https://doi.org/10.1029/2018gl079678.","ista":"Miles ES, Willis I, Buri P, Steiner JF, Arnold NS, Pellicciotti F. 2018. Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss. Geophysical Research Letters. 45(19), 10464–10473."},"intvolume":" 45","publisher":"American Geophysical Union","publication":"Geophysical Research Letters","page":"10464-10473","extern":"1","oa_version":"Published Version","date_updated":"2023-02-28T11:46:48Z","oa":1,"issue":"19","scopus_import":"1","keyword":["General Earth and Planetary Sciences","Geophysics"],"status":"public","month":"10","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Glaciers in the high mountains of Asia provide an important water resource for millions of people. Many of these glaciers are partially covered by rocky debris, which protects the ice from solar radiation and warm air. However, studies have found that the surface of these debris-covered glaciers is actually lowering as fast as glaciers without debris. Water ponded on the surface of the glaciers may be partially responsible, as water can absorb atmospheric energy very efficiently. However, the overall effect of these ponds has not been thoroughly assessed yet. We study a valley in Nepal for which we have extensive weather measurements, and we use a numerical model to calculate the energy absorbed by ponds on the surface of the glaciers over 6 months. As we have not observed each individual pond thoroughly, we run the model 5,000 times with different setups. We find that ponds are extremely important for glacier melt and absorb energy 14 times as quickly as the debris-covered ice. Although the ponds account for 1% of the glacier area covered by rocks, and only 0.3% of the total glacier area, they absorb enough energy to account for one eighth of the whole valley's ice loss."}],"_id":"12604"},{"title":"Clicks for doughnuts","status":"public","issue":"8","abstract":[{"text":"The ideas of topology are breaking ground in origami-based metamaterials. Experiments now show that certain shapes — doughnuts included — exhibit topological bistability, and can be made to click between different topologically stable states.","lang":"eng"}],"publist_id":"7926","_id":"127","type":"journal_article","doi":"10.1038/s41567-018-0160-6","language":[{"iso":"eng"}],"month":"05","author":[{"full_name":"Waitukaitis, Scott R","first_name":"Scott R","orcid":"0000-0002-2299-3176","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","last_name":"Waitukaitis"}],"page":"777 - 778","day":"28","citation":{"chicago":"Waitukaitis, Scott R. “Clicks for Doughnuts.” Nature Physics. Nature Publishing Group, 2018. https://doi.org/10.1038/s41567-018-0160-6.","apa":"Waitukaitis, S. R. (2018). Clicks for doughnuts. Nature Physics. Nature Publishing Group. https://doi.org/10.1038/s41567-018-0160-6","ista":"Waitukaitis SR. 2018. Clicks for doughnuts. Nature Physics. 14(8), 777–778.","ama":"Waitukaitis SR. Clicks for doughnuts. Nature Physics. 2018;14(8):777-778. doi:10.1038/s41567-018-0160-6","ieee":"S. R. Waitukaitis, “Clicks for doughnuts,” Nature Physics, vol. 14, no. 8. Nature Publishing Group, pp. 777–778, 2018.","mla":"Waitukaitis, Scott R. “Clicks for Doughnuts.” Nature Physics, vol. 14, no. 8, Nature Publishing Group, 2018, pp. 777–78, doi:10.1038/s41567-018-0160-6.","short":"S.R. Waitukaitis, Nature Physics 14 (2018) 777–778."},"intvolume":" 14","date_created":"2018-12-11T11:44:46Z","publisher":"Nature Publishing Group","date_published":"2018-05-28T00:00:00Z","publication":"Nature Physics","volume":14,"publication_status":"published","date_updated":"2021-01-12T06:49:31Z","year":"2018","oa_version":"None","extern":"1","user_id":"2EBD1598-F248-11E8-B48F-1D18A9856A87"},{"quality_controlled":"1","doi":"10.1021/acsphotonics.8b00743","title":"Smith–Purcell radiation from low-energy electrons","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publication_status":"published","article_processing_charge":"No","arxiv":1,"date_published":"2018-08-30T00:00:00Z","author":[{"full_name":"Massuda, Aviram","first_name":"Aviram","last_name":"Massuda"},{"last_name":"Roques-Carmes","id":"e2e68fc9-6505-11ef-a541-eb4e72cc3e82","first_name":"Charles","full_name":"Roques-Carmes, Charles"},{"full_name":"Yang, Yujia","first_name":"Yujia","last_name":"Yang"},{"full_name":"Kooi, Steven E.","first_name":"Steven E.","last_name":"Kooi"},{"last_name":"Yang","full_name":"Yang, Yi","first_name":"Yi"},{"first_name":"Chitraang","full_name":"Murdia, Chitraang","last_name":"Murdia"},{"first_name":"Karl K.","full_name":"Berggren, Karl K.","last_name":"Berggren"},{"full_name":"Kaminer, Ido","first_name":"Ido","last_name":"Kaminer"},{"last_name":"Soljačić","full_name":"Soljačić, Marin","first_name":"Marin"}],"day":"30","month":"08","language":[{"iso":"eng"}],"external_id":{"arxiv":["1710.05358"]},"type":"journal_article","abstract":[{"text":"Recent advances in the fabrication of nanostructures and nanoscale features in metasurfaces offer new prospects for generating visible light emission from low-energy electrons. Here we present the experimental observation of visible light emission from low-energy free electrons interacting with nanoscale periodic surfaces through the Smith–Purcell (SP) effect. We demonstrate SP light emission from nanoscale gratings with periodicity as small as 50 nm, enabling the observation of tunable visible radiation from low-energy electrons (1.5 to 6 keV), an order of magnitude lower in energy than previously reported. We study the emission wavelength and intensity dependence on the grating pitch and electron energy, showing agreement between experiment and theory. Our results open the way to the production of SP-based nanophotonics integrated devices. Built inside electron microscopes, SP sources could enable the development of novel electron–optical correlated spectroscopic techniques and facilitate the observation of new quantum effects in light sources.","lang":"eng"}],"_id":"21533","OA_place":"repository","issue":"9","scopus_import":"1","status":"public","keyword":["light−matter interactions","periodic structures","nanophotonics","free-electron light sources"],"extern":"1","oa_version":"Preprint","oa":1,"date_updated":"2026-04-15T11:48:45Z","volume":5,"publication_identifier":{"eissn":["2330-4022"]},"article_type":"letter_note","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1710.05358","open_access":"1"}],"intvolume":" 5","citation":{"ieee":"A. Massuda et al., “Smith–Purcell radiation from low-energy electrons,” ACS Photonics, vol. 5, no. 9. American Chemical Society , pp. 3513–3518, 2018.","ama":"Massuda A, Roques-Carmes C, Yang Y, et al. Smith–Purcell radiation from low-energy electrons. ACS Photonics. 2018;5(9):3513-3518. doi:10.1021/acsphotonics.8b00743","apa":"Massuda, A., Roques-Carmes, C., Yang, Y., Kooi, S. E., Yang, Y., Murdia, C., … Soljačić, M. (2018). Smith–Purcell radiation from low-energy electrons. ACS Photonics. American Chemical Society . https://doi.org/10.1021/acsphotonics.8b00743","chicago":"Massuda, Aviram, Charles Roques-Carmes, Yujia Yang, Steven E. Kooi, Yi Yang, Chitraang Murdia, Karl K. Berggren, Ido Kaminer, and Marin Soljačić. “Smith–Purcell Radiation from Low-Energy Electrons.” ACS Photonics. American Chemical Society , 2018. https://doi.org/10.1021/acsphotonics.8b00743.","ista":"Massuda A, Roques-Carmes C, Yang Y, Kooi SE, Yang Y, Murdia C, Berggren KK, Kaminer I, Soljačić M. 2018. Smith–Purcell radiation from low-energy electrons. ACS Photonics. 5(9), 3513–3518.","short":"A. Massuda, C. Roques-Carmes, Y. Yang, S.E. Kooi, Y. Yang, C. Murdia, K.K. Berggren, I. Kaminer, M. Soljačić, ACS Photonics 5 (2018) 3513–3518.","mla":"Massuda, Aviram, et al. “Smith–Purcell Radiation from Low-Energy Electrons.” ACS Photonics, vol. 5, no. 9, American Chemical Society , 2018, pp. 3513–18, doi:10.1021/acsphotonics.8b00743."},"ddc":["530"],"date_created":"2026-03-30T12:22:47Z","OA_type":"green","publication":"ACS Photonics","publisher":"American Chemical Society ","page":"3513-3518"},{"pmid":1,"status":"public","keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry","Multidisciplinary"],"scopus_import":"1","abstract":[{"text":"Confining molecules to volumes only slightly larger than the molecules themselves can profoundly alter their properties. Molecular switches—entities that can be toggled between two or more forms upon exposure to an external stimulus—often require conformational freedom to isomerize. Therefore, placing these switches in confined spaces can render them non-operational. To preserve the switchability of these species under confinement, we work with a water-soluble coordination cage that is flexible enough to adapt its shape to the conformation of the encapsulated guest. We show that owing to its flexibility, the cage is not only capable of accommodating—and solubilizing in water—several light-responsive spiropyran-based molecular switches, but, more importantly, it also provides an environment suitable for the efficient, reversible photoisomerization of the bound guests. Our findings pave the way towards studying various molecular switching processes in confined environments.","lang":"eng"}],"_id":"13374","type":"journal_article","language":[{"iso":"eng"}],"external_id":{"pmid":["29440687"]},"article_number":"641","month":"02","citation":{"mla":"Samanta, Dipak, et al. “Reversible Chromism of Spiropyran in the Cavity of a Flexible Coordination Cage.” Nature Communications, vol. 9, 641, Springer Nature, 2018, doi:10.1038/s41467-017-02715-6.","short":"D. Samanta, D. Galaktionova, J. Gemen, L.J.W. Shimon, Y. Diskin-Posner, L. Avram, P. Král, R. Klajn, Nature Communications 9 (2018).","chicago":"Samanta, Dipak, Daria Galaktionova, Julius Gemen, Linda J. W. Shimon, Yael Diskin-Posner, Liat Avram, Petr Král, and Rafal Klajn. “Reversible Chromism of Spiropyran in the Cavity of a Flexible Coordination Cage.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02715-6.","apa":"Samanta, D., Galaktionova, D., Gemen, J., Shimon, L. J. W., Diskin-Posner, Y., Avram, L., … Klajn, R. (2018). Reversible chromism of spiropyran in the cavity of a flexible coordination cage. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-017-02715-6","ista":"Samanta D, Galaktionova D, Gemen J, Shimon LJW, Diskin-Posner Y, Avram L, Král P, Klajn R. 2018. Reversible chromism of spiropyran in the cavity of a flexible coordination cage. Nature Communications. 9, 641.","ama":"Samanta D, Galaktionova D, Gemen J, et al. Reversible chromism of spiropyran in the cavity of a flexible coordination cage. Nature Communications. 2018;9. doi:10.1038/s41467-017-02715-6","ieee":"D. Samanta et al., “Reversible chromism of spiropyran in the cavity of a flexible coordination cage,” Nature Communications, vol. 9. Springer Nature, 2018."},"date_created":"2023-08-01T09:39:32Z","intvolume":" 9","publisher":"Springer Nature","publication":"Nature Communications","article_type":"original","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41467-017-02715-6"}],"publication_identifier":{"eissn":["2041-1723"]},"volume":9,"oa":1,"date_updated":"2024-10-14T12:14:34Z","related_material":{"link":[{"url":"https://doi.org/10.1038/s41467-018-03701-2","relation":"erratum"}]},"oa_version":"Published Version","extern":"1","title":"Reversible chromism of spiropyran in the cavity of a flexible coordination cage","quality_controlled":"1","doi":"10.1038/s41467-017-02715-6","author":[{"last_name":"Samanta","full_name":"Samanta, Dipak","first_name":"Dipak"},{"full_name":"Galaktionova, Daria","first_name":"Daria","last_name":"Galaktionova"},{"last_name":"Gemen","full_name":"Gemen, Julius","first_name":"Julius"},{"last_name":"Shimon","first_name":"Linda J. W.","full_name":"Shimon, Linda J. W."},{"last_name":"Diskin-Posner","full_name":"Diskin-Posner, Yael","first_name":"Yael"},{"last_name":"Avram","first_name":"Liat","full_name":"Avram, Liat"},{"last_name":"Král","full_name":"Král, Petr","first_name":"Petr"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","last_name":"Klajn","full_name":"Klajn, Rafal","first_name":"Rafal"}],"day":"13","date_published":"2018-02-13T00:00:00Z","article_processing_charge":"No","publication_status":"published","year":"2018","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"doi":"10.1051/0004-6361/201732274","quality_controlled":"1","title":"Spectral models for binary products: Unifying subdwarfs and Wolf-Rayet stars as a sequence of stripped-envelope stars","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","date_published":"2018-07-17T00:00:00Z","day":"17","author":[{"id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","orcid":"0000-0002-6960-6911","last_name":"Götberg","full_name":"Götberg, Ylva Louise Linsdotter","first_name":"Ylva Louise Linsdotter"},{"last_name":"de Mink","first_name":"S. E.","full_name":"de Mink, S. E."},{"first_name":"J. H.","full_name":"Groh, J. H.","last_name":"Groh"},{"full_name":"Kupfer, T.","first_name":"T.","last_name":"Kupfer"},{"full_name":"Crowther, P. A.","first_name":"P. A.","last_name":"Crowther"},{"last_name":"Zapartas","first_name":"E.","full_name":"Zapartas, E."},{"last_name":"Renzo","full_name":"Renzo, M.","first_name":"M."}],"arxiv":1,"article_processing_charge":"No","type":"journal_article","_id":"13475","abstract":[{"text":"Stars stripped of their hydrogen-rich envelope through interaction with a binary companion are generally not considered when accounting for ionizing radiation from stellar populations, despite the expectation that stripped stars emit hard ionizing radiation, form frequently, and live 10–100 times longer than single massive stars. We compute the first grid of evolutionary and spectral models specially made for stars stripped in binaries for a range of progenitor masses (2–20 M⊙) and metallicities ranging from solar to values representative for pop II stars. For stripped stars with masses in the range 0.3–7 M⊙, we find consistently high effective temperatures (20 000–100 000 K, increasing with mass), small radii (0.2–1 R⊙), and high bolometric luminosities, comparable to that of their progenitor before stripping. The spectra show a continuous sequence that naturally bridges subdwarf-type stars at the low-mass end and Wolf-Rayet-like spectra at the high-mass end. For intermediate masses we find hybrid spectral classes showing a mixture of absorption and emission lines. These appear for stars with mass-loss rates of 10−8−10−6 M⊙ yr−1, which have semi-transparent atmospheres. At low metallicity, substantial hydrogen-rich layers are left at the surface and we predict spectra that resemble O-type stars instead. We obtain spectra undistinguishable from subdwarfs for stripped stars with masses up to 1.7 M⊙, which questions whether the widely adopted canonical value of 0.47 M⊙ is uniformly valid. Only a handful of stripped stars of intermediate mass have currently been identified observationally. Increasing this sample will provide necessary tests for the physics of interaction, internal mixing, and stellar winds. We use our model spectra to investigate the feasibility to detect stripped stars next to an optically bright companion and recommend systematic searches for their UV excess and possible emission lines, most notably HeII λ4686 in the optical and HeII λ1640 in the UV. Our models are publicly available for further investigations or inclusion in spectral synthesis simulations.","lang":"eng"}],"month":"07","article_number":"A78","language":[{"iso":"eng"}],"external_id":{"arxiv":["1802.03018"]},"status":"public","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"scopus_import":"1","date_updated":"2024-10-14T12:22:18Z","oa":1,"extern":"1","oa_version":"Published Version","publication":"Astronomy & Astrophysics","publisher":"EDP Sciences","date_created":"2023-08-03T10:15:00Z","citation":{"short":"Y.L.L. Götberg, S.E. de Mink, J.H. Groh, T. Kupfer, P.A. Crowther, E. Zapartas, M. Renzo, Astronomy & Astrophysics 615 (2018).","mla":"Götberg, Ylva Louise Linsdotter, et al. “Spectral Models for Binary Products: Unifying Subdwarfs and Wolf-Rayet Stars as a Sequence of Stripped-Envelope Stars.” Astronomy & Astrophysics, vol. 615, A78, EDP Sciences, 2018, doi:10.1051/0004-6361/201732274.","ama":"Götberg YLL, de Mink SE, Groh JH, et al. Spectral models for binary products: Unifying subdwarfs and Wolf-Rayet stars as a sequence of stripped-envelope stars. Astronomy & Astrophysics. 2018;615. doi:10.1051/0004-6361/201732274","ieee":"Y. L. L. Götberg et al., “Spectral models for binary products: Unifying subdwarfs and Wolf-Rayet stars as a sequence of stripped-envelope stars,” Astronomy & Astrophysics, vol. 615. EDP Sciences, 2018.","chicago":"Götberg, Ylva Louise Linsdotter, S. E. de Mink, J. H. Groh, T. Kupfer, P. A. Crowther, E. Zapartas, and M. Renzo. “Spectral Models for Binary Products: Unifying Subdwarfs and Wolf-Rayet Stars as a Sequence of Stripped-Envelope Stars.” Astronomy & Astrophysics. EDP Sciences, 2018. https://doi.org/10.1051/0004-6361/201732274.","apa":"Götberg, Y. L. L., de Mink, S. E., Groh, J. H., Kupfer, T., Crowther, P. A., Zapartas, E., & Renzo, M. (2018). Spectral models for binary products: Unifying subdwarfs and Wolf-Rayet stars as a sequence of stripped-envelope stars. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201732274","ista":"Götberg YLL, de Mink SE, Groh JH, Kupfer T, Crowther PA, Zapartas E, Renzo M. 2018. Spectral models for binary products: Unifying subdwarfs and Wolf-Rayet stars as a sequence of stripped-envelope stars. Astronomy & Astrophysics. 615, A78."},"intvolume":" 615","publication_identifier":{"eissn":["1432-0746"],"issn":["0004-6361"]},"volume":615,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1051/0004-6361/201732274"}],"article_type":"original"}]