[{"publisher":"ACS","quality_controlled":"1","oa":1,"has_accepted_license":"1","year":"2018","day":"01","publication":"ACS Energy Letters","page":"170-176","doi":"10.1021/acsenergylett.7b01111","date_published":"2018-01-01T00:00:00Z","date_created":"2020-01-15T12:13:52Z","citation":{"ista":"Schafzahl B, Mourad E, Schafzahl L, Petit YK, Raju AR, Thotiyl MO, Wilkening M, Slugovc C, Freunberger SA. 2018. Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase. ACS Energy Letters. 3(1), 170–176.","chicago":"Schafzahl, Bettina, Eléonore Mourad, Lukas Schafzahl, Yann K. Petit, Anjana R. Raju, Musthafa Ottakam Thotiyl, Martin Wilkening, Christian Slugovc, and Stefan Alexander Freunberger. “Quantifying Total Superoxide, Peroxide, and Carbonaceous Compounds in Metal–O2 Batteries and the Solid Electrolyte Interphase.” ACS Energy Letters. ACS, 2018. https://doi.org/10.1021/acsenergylett.7b01111.","ama":"Schafzahl B, Mourad E, Schafzahl L, et al. Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase. ACS Energy Letters. 2018;3(1):170-176. doi:10.1021/acsenergylett.7b01111","apa":"Schafzahl, B., Mourad, E., Schafzahl, L., Petit, Y. K., Raju, A. R., Thotiyl, M. O., … Freunberger, S. A. (2018). Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase. ACS Energy Letters. ACS. https://doi.org/10.1021/acsenergylett.7b01111","ieee":"B. Schafzahl et al., “Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase,” ACS Energy Letters, vol. 3, no. 1. ACS, pp. 170–176, 2018.","short":"B. Schafzahl, E. Mourad, L. Schafzahl, Y.K. Petit, A.R. Raju, M.O. Thotiyl, M. Wilkening, C. Slugovc, S.A. Freunberger, ACS Energy Letters 3 (2018) 170–176.","mla":"Schafzahl, Bettina, et al. “Quantifying Total Superoxide, Peroxide, and Carbonaceous Compounds in Metal–O2 Batteries and the Solid Electrolyte Interphase.” ACS Energy Letters, vol. 3, no. 1, ACS, 2018, pp. 170–76, doi:10.1021/acsenergylett.7b01111."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Schafzahl, Bettina","last_name":"Schafzahl","first_name":"Bettina"},{"full_name":"Mourad, Eléonore","last_name":"Mourad","first_name":"Eléonore"},{"first_name":"Lukas","full_name":"Schafzahl, Lukas","last_name":"Schafzahl"},{"first_name":"Yann K.","full_name":"Petit, Yann K.","last_name":"Petit"},{"first_name":"Anjana R.","full_name":"Raju, Anjana R.","last_name":"Raju"},{"first_name":"Musthafa Ottakam","full_name":"Thotiyl, Musthafa Ottakam","last_name":"Thotiyl"},{"last_name":"Wilkening","full_name":"Wilkening, Martin","first_name":"Martin"},{"last_name":"Slugovc","full_name":"Slugovc, Christian","first_name":"Christian"},{"last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"}],"article_processing_charge":"No","title":"Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase","abstract":[{"text":"Passivation layers on electrode materials are ubiquitous in nonaqueous battery chemistries and strongly govern performance and lifetime. They comprise breakdown products of the electrolyte including carbonate, alkyl carbonates, alkoxides, carboxylates, and polymers. Parasitic chemistry in metal–O2 batteries forms similar products and is tied to the deviation of the O2 balance from the ideal stoichiometry during formation/decomposition of alkaline peroxides or superoxides. Accurate and integral quantification of carbonaceous species and peroxides or superoxides in battery electrodes remains, however, elusive. We present a refined procedure to quantify them accurately and sensitively by pointing out and rectifying pitfalls of previous procedures. Carbonaceous compounds are differentiated into inorganic and organic ones. We combine mass and UV–vis spectrometry to quantify evolved O2 and complexed peroxide and CO2 evolved from carbonaceous compounds by acid treatment and Fenton’s reaction. The capabilities of the method are exemplified by means of Li–O2 and Na–O2 cathodes, graphite anodes, and LiNi0.8Co0.15Al0.05O2 cathodes.","lang":"eng"}],"oa_version":"Submitted Version","month":"01","intvolume":" 3","publication_identifier":{"issn":["2380-8195","2380-8195"]},"publication_status":"published","file":[{"date_created":"2020-06-29T14:19:36Z","file_name":"O2 TIOC_fin_incl_SI.pdf","date_updated":"2020-07-14T12:47:55Z","file_size":1892355,"creator":"sfreunbe","file_id":"8049","checksum":"461ccf575ba077af90314fe72d20521e","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"language":[{"iso":"eng"}],"volume":3,"issue":"1","_id":"7287","article_type":"letter_note","type":"journal_article","status":"public","date_updated":"2021-01-12T08:12:46Z","extern":"1","ddc":["540","543","546","547"],"file_date_updated":"2020-07-14T12:47:55Z"},{"issue":"6","volume":12,"language":[{"iso":"eng"}],"file":[{"file_id":"8052","checksum":"050f7f0ba5d845c5c71779ef14ad5ef3","content_type":"application/pdf","access_level":"open_access","relation":"main_file","date_created":"2020-06-29T14:56:40Z","file_name":"Manuscript 20092017_subm.pdf","date_updated":"2020-07-14T12:47:55Z","file_size":1333353,"creator":"sfreunbe"}],"publication_status":"published","publication_identifier":{"issn":["1936-0851"]},"intvolume":" 12","month":"06","oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"Hydrogelation, the self-assembly of molecules into soft, water-loaded networks, is one way to bridge the structural gap between single molecules and functional materials. The potential of hydrogels, such as those based on perylene bisimides, lies in their chemical, physical, optical, and electronic properties, which are governed by the supramolecular structure of the gel. However, the structural motifs and their precise role for long-range conductivity are yet to be explored. Here, we present a comprehensive structural picture of a perylene bisimide hydrogel, suggesting that its long-range conductivity is limited by charge transfer between electronic backbones. We reveal nanocrystalline ribbon-like structures as the electronic and structural backbone units between which charge transfer is mediated by polar solvent bridges. We exemplify this effect with sensing, where exposure to polar vapor enhances conductivity by 5 orders of magnitude, emphasizing the crucial role of the interplay between structural motif and surrounding medium for the rational design of devices based on nanocrystalline hydrogels."}],"file_date_updated":"2020-07-14T12:47:55Z","ddc":["540","541"],"extern":"1","date_updated":"2021-01-12T08:12:46Z","status":"public","article_type":"original","type":"journal_article","_id":"7285","date_created":"2020-01-15T12:13:25Z","date_published":"2018-06-05T00:00:00Z","doi":"10.1021/acsnano.8b01689","page":"5800-5806","publication":"ACS Nano","day":"05","year":"2018","has_accepted_license":"1","oa":1,"quality_controlled":"1","publisher":"ACS","title":"Inter-backbone charge transfer as prerequisite for long-range conductivity in perylene bisimide hydrogels","article_processing_charge":"No","author":[{"last_name":"Burian","full_name":"Burian, Max","first_name":"Max"},{"last_name":"Rigodanza","full_name":"Rigodanza, Francesco","first_name":"Francesco"},{"last_name":"Demitri","full_name":"Demitri, Nicola","first_name":"Nicola"},{"last_name":"D̵ord̵ević","full_name":"D̵ord̵ević, Luka","first_name":"Luka"},{"full_name":"Marchesan, Silvia","last_name":"Marchesan","first_name":"Silvia"},{"first_name":"Tereza","last_name":"Steinhartova","full_name":"Steinhartova, Tereza"},{"first_name":"Ilse","full_name":"Letofsky-Papst, Ilse","last_name":"Letofsky-Papst"},{"first_name":"Ivan","last_name":"Khalakhan","full_name":"Khalakhan, Ivan"},{"full_name":"Mourad, Eléonore","last_name":"Mourad","first_name":"Eléonore"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"last_name":"Amenitsch","full_name":"Amenitsch, Heinz","first_name":"Heinz"},{"full_name":"Prato, Maurizio","last_name":"Prato","first_name":"Maurizio"},{"first_name":"Zois","full_name":"Syrgiannis, Zois","last_name":"Syrgiannis"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Burian, Max, Francesco Rigodanza, Nicola Demitri, Luka D̵ord̵ević, Silvia Marchesan, Tereza Steinhartova, Ilse Letofsky-Papst, et al. “Inter-Backbone Charge Transfer as Prerequisite for Long-Range Conductivity in Perylene Bisimide Hydrogels.” ACS Nano. ACS, 2018. https://doi.org/10.1021/acsnano.8b01689.","ista":"Burian M, Rigodanza F, Demitri N, D̵ord̵ević L, Marchesan S, Steinhartova T, Letofsky-Papst I, Khalakhan I, Mourad E, Freunberger SA, Amenitsch H, Prato M, Syrgiannis Z. 2018. Inter-backbone charge transfer as prerequisite for long-range conductivity in perylene bisimide hydrogels. ACS Nano. 12(6), 5800–5806.","mla":"Burian, Max, et al. “Inter-Backbone Charge Transfer as Prerequisite for Long-Range Conductivity in Perylene Bisimide Hydrogels.” ACS Nano, vol. 12, no. 6, ACS, 2018, pp. 5800–06, doi:10.1021/acsnano.8b01689.","apa":"Burian, M., Rigodanza, F., Demitri, N., D̵ord̵ević, L., Marchesan, S., Steinhartova, T., … Syrgiannis, Z. (2018). Inter-backbone charge transfer as prerequisite for long-range conductivity in perylene bisimide hydrogels. ACS Nano. ACS. https://doi.org/10.1021/acsnano.8b01689","ama":"Burian M, Rigodanza F, Demitri N, et al. Inter-backbone charge transfer as prerequisite for long-range conductivity in perylene bisimide hydrogels. ACS Nano. 2018;12(6):5800-5806. doi:10.1021/acsnano.8b01689","short":"M. Burian, F. Rigodanza, N. Demitri, L. D̵ord̵ević, S. Marchesan, T. Steinhartova, I. Letofsky-Papst, I. Khalakhan, E. Mourad, S.A. Freunberger, H. Amenitsch, M. Prato, Z. Syrgiannis, ACS Nano 12 (2018) 5800–5806.","ieee":"M. Burian et al., “Inter-backbone charge transfer as prerequisite for long-range conductivity in perylene bisimide hydrogels,” ACS Nano, vol. 12, no. 6. ACS, pp. 5800–5806, 2018."}},{"author":[{"full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","last_name":"Pietrzak","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","title":"Proofs of catalytic space","citation":{"apa":"Pietrzak, K. Z. (2018). Proofs of catalytic space. In 10th Innovations in Theoretical Computer Science Conference (ITCS 2019) (Vol. 124, p. 59:1-59:25). San Diego, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPICS.ITCS.2019.59","ama":"Pietrzak KZ. Proofs of catalytic space. In: 10th Innovations in Theoretical Computer Science Conference (ITCS 2019). Vol 124. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018:59:1-59:25. doi:10.4230/LIPICS.ITCS.2019.59","ieee":"K. Z. Pietrzak, “Proofs of catalytic space,” in 10th Innovations in Theoretical Computer Science Conference (ITCS 2019), San Diego, CA, United States, 2018, vol. 124, p. 59:1-59:25.","short":"K.Z. Pietrzak, in:, 10th Innovations in Theoretical Computer Science Conference (ITCS 2019), Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, p. 59:1-59:25.","mla":"Pietrzak, Krzysztof Z. “Proofs of Catalytic Space.” 10th Innovations in Theoretical Computer Science Conference (ITCS 2019), vol. 124, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, p. 59:1-59:25, doi:10.4230/LIPICS.ITCS.2019.59.","ista":"Pietrzak KZ. 2018. Proofs of catalytic space. 10th Innovations in Theoretical Computer Science Conference (ITCS 2019). ITCS: Innovations in theoretical Computer Science Conference, LIPIcs, vol. 124, 59:1-59:25.","chicago":"Pietrzak, Krzysztof Z. “Proofs of Catalytic Space.” In 10th Innovations in Theoretical Computer Science Conference (ITCS 2019), 124:59:1-59:25. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPICS.ITCS.2019.59."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"call_identifier":"H2020","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","name":"Teaching Old Crypto New Tricks","grant_number":"682815"}],"page":"59:1-59:25","date_published":"2018-12-31T00:00:00Z","doi":"10.4230/LIPICS.ITCS.2019.59","date_created":"2020-01-30T09:16:05Z","has_accepted_license":"1","year":"2018","day":"31","publication":"10th Innovations in Theoretical Computer Science Conference (ITCS 2019)","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","quality_controlled":"1","oa":1,"department":[{"_id":"KrPi"}],"file_date_updated":"2020-07-14T12:47:57Z","date_updated":"2021-01-12T08:13:26Z","ddc":["000"],"type":"conference","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"conference":{"end_date":"2019-01-12","location":"San Diego, CA, United States","start_date":"2019-01-10","name":"ITCS: Innovations in theoretical Computer Science Conference"},"status":"public","_id":"7407","volume":124,"ec_funded":1,"license":"https://creativecommons.org/licenses/by/4.0/","publication_identifier":{"isbn":["978-3-95977-095-8"],"issn":["1868-8969"]},"publication_status":"published","file":[{"creator":"dernst","date_updated":"2020-07-14T12:47:57Z","file_size":822884,"date_created":"2020-02-04T08:17:52Z","file_name":"2018_LIPIcs_Pietrzak.pdf","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"7443","checksum":"5cebb7f7849a3beda898f697d755dd96"}],"language":[{"iso":"eng"}],"scopus_import":1,"alternative_title":["LIPIcs"],"main_file_link":[{"url":"https://eprint.iacr.org/2018/194","open_access":"1"}],"month":"12","intvolume":" 124","abstract":[{"text":"Proofs of space (PoS) [Dziembowski et al., CRYPTO'15] are proof systems where a prover can convince a verifier that he \"wastes\" disk space. PoS were introduced as a more ecological and economical replacement for proofs of work which are currently used to secure blockchains like Bitcoin. In this work we investigate extensions of PoS which allow the prover to embed useful data into the dedicated space, which later can be recovered. Our first contribution is a security proof for the original PoS from CRYPTO'15 in the random oracle model (the original proof only applied to a restricted class of adversaries which can store a subset of the data an honest prover would store). When this PoS is instantiated with recent constructions of maximally depth robust graphs, our proof implies basically optimal security. As a second contribution we show three different extensions of this PoS where useful data can be embedded into the space required by the prover. Our security proof for the PoS extends (non-trivially) to these constructions. We discuss how some of these variants can be used as proofs of catalytic space (PoCS), a notion we put forward in this work, and which basically is a PoS where most of the space required by the prover can be used to backup useful data. Finally we discuss how one of the extensions is a candidate construction for a proof of replication (PoR), a proof system recently suggested in the Filecoin whitepaper. ","lang":"eng"}],"oa_version":"Published Version"},{"article_number":"75","article_processing_charge":"No","author":[{"first_name":"Qian","last_name":"Zhang","full_name":"Zhang, Qian"},{"full_name":"Marioni, Riccardo E","last_name":"Marioni","first_name":"Riccardo E"},{"first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard","last_name":"Robinson"},{"last_name":"Higham","full_name":"Higham, Jon","first_name":"Jon"},{"first_name":"Duncan","full_name":"Sproul, Duncan","last_name":"Sproul"},{"full_name":"Wray, Naomi R","last_name":"Wray","first_name":"Naomi R"},{"first_name":"Ian J","full_name":"Deary, Ian J","last_name":"Deary"},{"full_name":"McRae, Allan F","last_name":"McRae","first_name":"Allan F"},{"first_name":"Peter M","last_name":"Visscher","full_name":"Visscher, Peter M"}],"title":"Genotype effects contribute to variation in longitudinal methylome patterns in older people","citation":{"ieee":"Q. Zhang et al., “Genotype effects contribute to variation in longitudinal methylome patterns in older people,” Genome Medicine, vol. 10, no. 1. Springer Nature, 2018.","short":"Q. Zhang, R.E. Marioni, M.R. Robinson, J. Higham, D. Sproul, N.R. Wray, I.J. Deary, A.F. McRae, P.M. Visscher, Genome Medicine 10 (2018).","apa":"Zhang, Q., Marioni, R. E., Robinson, M. R., Higham, J., Sproul, D., Wray, N. R., … Visscher, P. M. (2018). Genotype effects contribute to variation in longitudinal methylome patterns in older people. Genome Medicine. Springer Nature. https://doi.org/10.1186/s13073-018-0585-7","ama":"Zhang Q, Marioni RE, Robinson MR, et al. Genotype effects contribute to variation in longitudinal methylome patterns in older people. Genome Medicine. 2018;10(1). doi:10.1186/s13073-018-0585-7","mla":"Zhang, Qian, et al. “Genotype Effects Contribute to Variation in Longitudinal Methylome Patterns in Older People.” Genome Medicine, vol. 10, no. 1, 75, Springer Nature, 2018, doi:10.1186/s13073-018-0585-7.","ista":"Zhang Q, Marioni RE, Robinson MR, Higham J, Sproul D, Wray NR, Deary IJ, McRae AF, Visscher PM. 2018. Genotype effects contribute to variation in longitudinal methylome patterns in older people. Genome Medicine. 10(1), 75.","chicago":"Zhang, Qian, Riccardo E Marioni, Matthew Richard Robinson, Jon Higham, Duncan Sproul, Naomi R Wray, Ian J Deary, Allan F McRae, and Peter M Visscher. “Genotype Effects Contribute to Variation in Longitudinal Methylome Patterns in Older People.” Genome Medicine. Springer Nature, 2018. https://doi.org/10.1186/s13073-018-0585-7."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"publisher":"Springer Nature","quality_controlled":"1","date_created":"2020-04-30T10:42:50Z","date_published":"2018-10-22T00:00:00Z","doi":"10.1186/s13073-018-0585-7","year":"2018","publication":"Genome Medicine","day":"22","article_type":"original","type":"journal_article","status":"public","_id":"7717","date_updated":"2021-01-12T08:15:04Z","extern":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1186/s13073-018-0585-7"}],"intvolume":" 10","month":"10","abstract":[{"text":"Background: DNA methylation levels change along with age, but few studies have examined the variation in the rate of such changes between individuals.\r\nMethods: We performed a longitudinal analysis to quantify the variation in the rate of change of DNA methylation between individuals using whole blood DNA methylation array profiles collected at 2–4 time points (N = 2894) in 954 individuals (67–90 years).\r\nResults: After stringent quality control, we identified 1507 DNA methylation CpG sites (rsCpGs) with statistically significant variation in the rate of change (random slope) of DNA methylation among individuals in a mixed linear model analysis. Genes in the vicinity of these rsCpGs were found to be enriched in Homeobox transcription factors and the Wnt signalling pathway, both of which are related to ageing processes. Furthermore, we investigated the SNP effect on the random slope. We found that 4 out of 1507 rsCpGs had one significant (P < 5 × 10−8/1507) SNP effect and 343 rsCpGs had at least one SNP effect (436 SNP-probe pairs) reaching genome-wide significance (P < 5 × 10−8). Ninety-five percent of the significant (P < 5 × 10−8) SNPs are on different chromosomes from their corresponding probes.\r\nConclusions: We identified CpG sites that have variability in the rate of change of DNA methylation between individuals, and our results suggest a genetic basis of this variation. Genes around these CpG sites have been reported to be involved in the ageing process.","lang":"eng"}],"oa_version":"Published Version","volume":10,"issue":"1","publication_status":"published","publication_identifier":{"issn":["1756-994X"]},"language":[{"iso":"eng"}]},{"article_processing_charge":"No","author":[{"first_name":"Chloe X.","full_name":"Yap, Chloe X.","last_name":"Yap"},{"last_name":"Sidorenko","full_name":"Sidorenko, Julia","first_name":"Julia"},{"first_name":"Yang","full_name":"Wu, Yang","last_name":"Wu"},{"full_name":"Kemper, Kathryn E.","last_name":"Kemper","first_name":"Kathryn E."},{"first_name":"Jian","last_name":"Yang","full_name":"Yang, Jian"},{"last_name":"Wray","full_name":"Wray, Naomi R.","first_name":"Naomi R."},{"orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard","last_name":"Robinson","first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425"},{"first_name":"Peter M.","last_name":"Visscher","full_name":"Visscher, Peter M."}],"title":"Dissection of genetic variation and evidence for pleiotropy in male pattern baldness","citation":{"ista":"Yap CX, Sidorenko J, Wu Y, Kemper KE, Yang J, Wray NR, Robinson MR, Visscher PM. 2018. Dissection of genetic variation and evidence for pleiotropy in male pattern baldness. Nature Communications. 9, 5407.","chicago":"Yap, Chloe X., Julia Sidorenko, Yang Wu, Kathryn E. Kemper, Jian Yang, Naomi R. Wray, Matthew Richard Robinson, and Peter M. Visscher. “Dissection of Genetic Variation and Evidence for Pleiotropy in Male Pattern Baldness.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-07862-y.","short":"C.X. Yap, J. Sidorenko, Y. Wu, K.E. Kemper, J. Yang, N.R. Wray, M.R. Robinson, P.M. Visscher, Nature Communications 9 (2018).","ieee":"C. X. Yap et al., “Dissection of genetic variation and evidence for pleiotropy in male pattern baldness,” Nature Communications, vol. 9. Springer Nature, 2018.","apa":"Yap, C. X., Sidorenko, J., Wu, Y., Kemper, K. E., Yang, J., Wray, N. R., … Visscher, P. M. (2018). Dissection of genetic variation and evidence for pleiotropy in male pattern baldness. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-07862-y","ama":"Yap CX, Sidorenko J, Wu Y, et al. Dissection of genetic variation and evidence for pleiotropy in male pattern baldness. Nature Communications. 2018;9. doi:10.1038/s41467-018-07862-y","mla":"Yap, Chloe X., et al. “Dissection of Genetic Variation and Evidence for Pleiotropy in Male Pattern Baldness.” Nature Communications, vol. 9, 5407, Springer Nature, 2018, doi:10.1038/s41467-018-07862-y."},"date_updated":"2021-01-12T08:15:02Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","type":"journal_article","article_type":"original","status":"public","_id":"7712","article_number":"5407","date_created":"2020-04-30T10:41:19Z","doi":"10.1038/s41467-018-07862-y","volume":9,"date_published":"2018-12-20T00:00:00Z","year":"2018","publication_status":"published","publication_identifier":{"issn":["2041-1723"]},"language":[{"iso":"eng"}],"publication":"Nature Communications","day":"20","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41467-018-07862-y"}],"oa":1,"publisher":"Springer Nature","quality_controlled":"1","intvolume":" 9","month":"12","abstract":[{"lang":"eng","text":"Male pattern baldness (MPB) is a sex-limited, age-related, complex trait. We study MPB genetics in 205,327 European males from the UK Biobank. Here we show that MPB is strongly heritable and polygenic, with pedigree-heritability of 0.62 (SE = 0.03) estimated from close relatives, and SNP-heritability of 0.39 (SE = 0.01) from conventionally-unrelated males. We detect 624 near-independent genome-wide loci, contributing SNP-heritability of 0.25 (SE = 0.01), of which 26 X-chromosome loci explain 11.6%. Autosomal genetic variance is enriched for common variants and regions of lower linkage disequilibrium. We identify plausible genetic correlations between MPB and multiple sex-limited markers of earlier puberty, increased bone mineral density (rg = 0.15) and pancreatic β-cell function (rg = 0.12). Correlations with reproductive traits imply an effect on fitness, consistent with an estimated linear selection gradient of -0.018 per MPB standard deviation. Overall, we provide genetic insights into MPB: a phenotype of interest in its own right, with value as a model sex-limited, complex trait."}],"oa_version":"Published Version"},{"intvolume":" 9","month":"03","oa":1,"main_file_link":[{"url":"https://doi.org/10.1038/s41467-017-02769-6","open_access":"1"}],"publisher":"Springer Nature","quality_controlled":"1","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Genomic prediction has the potential to contribute to precision medicine. However, to date, the utility of such predictors is limited due to low accuracy for most traits. Here theory and simulation study are used to demonstrate that widespread pleiotropy among phenotypes can be utilised to improve genomic risk prediction. We show how a genetic predictor can be created as a weighted index that combines published genome-wide association study (GWAS) summary statistics across many different traits. We apply this framework to predict risk of schizophrenia and bipolar disorder in the Psychiatric Genomics consortium data, finding substantial heterogeneity in prediction accuracy increases across cohorts. For six additional phenotypes in the UK Biobank data, we find increases in prediction accuracy ranging from 0.7% for height to 47% for type 2 diabetes, when using a multi-trait predictor that combines published summary statistics from multiple traits, as compared to a predictor based only on one trait."}],"date_created":"2020-04-30T10:42:29Z","volume":9,"date_published":"2018-03-07T00:00:00Z","doi":"10.1038/s41467-017-02769-6","publication":"Nature Communications","language":[{"iso":"eng"}],"day":"07","publication_status":"published","year":"2018","publication_identifier":{"issn":["2041-1723"]},"status":"public","article_type":"original","type":"journal_article","article_number":"989","_id":"7716","title":"Improving genetic prediction by leveraging genetic correlations among human diseases and traits","article_processing_charge":"No","author":[{"last_name":"Maier","full_name":"Maier, Robert M.","first_name":"Robert M."},{"full_name":"Zhu, Zhihong","last_name":"Zhu","first_name":"Zhihong"},{"first_name":"Sang Hong","last_name":"Lee","full_name":"Lee, Sang Hong"},{"first_name":"Maciej","last_name":"Trzaskowski","full_name":"Trzaskowski, Maciej"},{"full_name":"Ruderfer, Douglas M.","last_name":"Ruderfer","first_name":"Douglas M."},{"last_name":"Stahl","full_name":"Stahl, Eli A.","first_name":"Eli A."},{"last_name":"Ripke","full_name":"Ripke, Stephan","first_name":"Stephan"},{"last_name":"Wray","full_name":"Wray, Naomi R.","first_name":"Naomi R."},{"full_name":"Yang, Jian","last_name":"Yang","first_name":"Jian"},{"first_name":"Peter M.","last_name":"Visscher","full_name":"Visscher, Peter M."},{"first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard","last_name":"Robinson"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","citation":{"ista":"Maier RM, Zhu Z, Lee SH, Trzaskowski M, Ruderfer DM, Stahl EA, Ripke S, Wray NR, Yang J, Visscher PM, Robinson MR. 2018. Improving genetic prediction by leveraging genetic correlations among human diseases and traits. Nature Communications. 9, 989.","chicago":"Maier, Robert M., Zhihong Zhu, Sang Hong Lee, Maciej Trzaskowski, Douglas M. Ruderfer, Eli A. Stahl, Stephan Ripke, et al. “Improving Genetic Prediction by Leveraging Genetic Correlations among Human Diseases and Traits.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02769-6.","ieee":"R. M. Maier et al., “Improving genetic prediction by leveraging genetic correlations among human diseases and traits,” Nature Communications, vol. 9. Springer Nature, 2018.","short":"R.M. Maier, Z. Zhu, S.H. Lee, M. Trzaskowski, D.M. Ruderfer, E.A. Stahl, S. Ripke, N.R. Wray, J. Yang, P.M. Visscher, M.R. Robinson, Nature Communications 9 (2018).","apa":"Maier, R. M., Zhu, Z., Lee, S. H., Trzaskowski, M., Ruderfer, D. M., Stahl, E. A., … Robinson, M. R. (2018). Improving genetic prediction by leveraging genetic correlations among human diseases and traits. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-017-02769-6","ama":"Maier RM, Zhu Z, Lee SH, et al. Improving genetic prediction by leveraging genetic correlations among human diseases and traits. Nature Communications. 2018;9. doi:10.1038/s41467-017-02769-6","mla":"Maier, Robert M., et al. “Improving Genetic Prediction by Leveraging Genetic Correlations among Human Diseases and Traits.” Nature Communications, vol. 9, 989, Springer Nature, 2018, doi:10.1038/s41467-017-02769-6."},"date_updated":"2021-01-12T08:15:03Z"},{"date_created":"2020-04-30T10:41:55Z","date_published":"2018-01-15T00:00:00Z","doi":"10.1038/s41467-017-02317-2","volume":9,"year":"2018","publication_status":"published","publication_identifier":{"issn":["2041-1723"]},"language":[{"iso":"eng"}],"publication":"Nature Communications","day":"15","oa":1,"main_file_link":[{"url":"https://doi.org/10.1038/s41467-017-02317-2","open_access":"1"}],"quality_controlled":"1","publisher":"Springer Nature","intvolume":" 9","month":"01","abstract":[{"lang":"eng","text":"Health risk factors such as body mass index (BMI) and serum cholesterol are associated with many common diseases. It often remains unclear whether the risk factors are cause or consequence of disease, or whether the associations are the result of confounding. We develop and apply a method (called GSMR) that performs a multi-SNP Mendelian randomization analysis using summary-level data from genome-wide association studies to test the causal associations of BMI, waist-to-hip ratio, serum cholesterols, blood pressures, height, and years of schooling (EduYears) with common diseases (sample sizes of up to 405,072). We identify a number of causal associations including a protective effect of LDL-cholesterol against type-2 diabetes (T2D) that might explain the side effects of statins on T2D, a protective effect of EduYears against Alzheimer’s disease, and bidirectional associations with opposite effects (e.g., higher BMI increases the risk of T2D but the effect of T2D on BMI is negative)."}],"oa_version":"Published Version","article_processing_charge":"No","author":[{"first_name":"Zhihong","full_name":"Zhu, Zhihong","last_name":"Zhu"},{"first_name":"Zhili","full_name":"Zheng, Zhili","last_name":"Zheng"},{"full_name":"Zhang, Futao","last_name":"Zhang","first_name":"Futao"},{"last_name":"Wu","full_name":"Wu, Yang","first_name":"Yang"},{"first_name":"Maciej","full_name":"Trzaskowski, Maciej","last_name":"Trzaskowski"},{"full_name":"Maier, Robert","last_name":"Maier","first_name":"Robert"},{"first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson","full_name":"Robinson, Matthew Richard","orcid":"0000-0001-8982-8813"},{"first_name":"John J.","last_name":"McGrath","full_name":"McGrath, John J."},{"full_name":"Visscher, Peter M.","last_name":"Visscher","first_name":"Peter M."},{"full_name":"Wray, Naomi R.","last_name":"Wray","first_name":"Naomi R."},{"full_name":"Yang, Jian","last_name":"Yang","first_name":"Jian"}],"title":"Causal associations between risk factors and common diseases inferred from GWAS summary data","date_updated":"2021-01-12T08:15:03Z","citation":{"ista":"Zhu Z, Zheng Z, Zhang F, Wu Y, Trzaskowski M, Maier R, Robinson MR, McGrath JJ, Visscher PM, Wray NR, Yang J. 2018. Causal associations between risk factors and common diseases inferred from GWAS summary data. Nature Communications. 9, 224.","chicago":"Zhu, Zhihong, Zhili Zheng, Futao Zhang, Yang Wu, Maciej Trzaskowski, Robert Maier, Matthew Richard Robinson, et al. “Causal Associations between Risk Factors and Common Diseases Inferred from GWAS Summary Data.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02317-2.","ama":"Zhu Z, Zheng Z, Zhang F, et al. Causal associations between risk factors and common diseases inferred from GWAS summary data. Nature Communications. 2018;9. doi:10.1038/s41467-017-02317-2","apa":"Zhu, Z., Zheng, Z., Zhang, F., Wu, Y., Trzaskowski, M., Maier, R., … Yang, J. (2018). Causal associations between risk factors and common diseases inferred from GWAS summary data. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-017-02317-2","short":"Z. Zhu, Z. Zheng, F. Zhang, Y. Wu, M. Trzaskowski, R. Maier, M.R. Robinson, J.J. McGrath, P.M. Visscher, N.R. Wray, J. Yang, Nature Communications 9 (2018).","ieee":"Z. Zhu et al., “Causal associations between risk factors and common diseases inferred from GWAS summary data,” Nature Communications, vol. 9. Springer Nature, 2018.","mla":"Zhu, Zhihong, et al. “Causal Associations between Risk Factors and Common Diseases Inferred from GWAS Summary Data.” Nature Communications, vol. 9, 224, Springer Nature, 2018, doi:10.1038/s41467-017-02317-2."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","type":"journal_article","article_type":"original","status":"public","_id":"7714","article_number":"224"},{"extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Guo J, Wu Y, Zhu Z, Zheng Z, Trzaskowski M, Zeng J, Robinson MR, Visscher PM, Yang J. 2018. Global genetic differentiation of complex traits shaped by natural selection in humans. Nature Communications. 9, 1865.","chicago":"Guo, Jing, Yang Wu, Zhihong Zhu, Zhili Zheng, Maciej Trzaskowski, Jian Zeng, Matthew Richard Robinson, Peter M. Visscher, and Jian Yang. “Global Genetic Differentiation of Complex Traits Shaped by Natural Selection in Humans.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-04191-y.","ieee":"J. Guo et al., “Global genetic differentiation of complex traits shaped by natural selection in humans,” Nature Communications, vol. 9. Springer Nature, 2018.","short":"J. Guo, Y. Wu, Z. Zhu, Z. Zheng, M. Trzaskowski, J. Zeng, M.R. Robinson, P.M. Visscher, J. Yang, Nature Communications 9 (2018).","apa":"Guo, J., Wu, Y., Zhu, Z., Zheng, Z., Trzaskowski, M., Zeng, J., … Yang, J. (2018). Global genetic differentiation of complex traits shaped by natural selection in humans. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-04191-y","ama":"Guo J, Wu Y, Zhu Z, et al. Global genetic differentiation of complex traits shaped by natural selection in humans. Nature Communications. 2018;9. doi:10.1038/s41467-018-04191-y","mla":"Guo, Jing, et al. “Global Genetic Differentiation of Complex Traits Shaped by Natural Selection in Humans.” Nature Communications, vol. 9, 1865, Springer Nature, 2018, doi:10.1038/s41467-018-04191-y."},"date_updated":"2021-01-12T08:15:02Z","title":"Global genetic differentiation of complex traits shaped by natural selection in humans","author":[{"first_name":"Jing","full_name":"Guo, Jing","last_name":"Guo"},{"first_name":"Yang","full_name":"Wu, Yang","last_name":"Wu"},{"last_name":"Zhu","full_name":"Zhu, Zhihong","first_name":"Zhihong"},{"full_name":"Zheng, Zhili","last_name":"Zheng","first_name":"Zhili"},{"first_name":"Maciej","last_name":"Trzaskowski","full_name":"Trzaskowski, Maciej"},{"full_name":"Zeng, Jian","last_name":"Zeng","first_name":"Jian"},{"last_name":"Robinson","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425"},{"first_name":"Peter M.","full_name":"Visscher, Peter M.","last_name":"Visscher"},{"first_name":"Jian","last_name":"Yang","full_name":"Yang, Jian"}],"article_processing_charge":"No","article_number":"1865","_id":"7713","status":"public","article_type":"original","type":"journal_article","day":"14","publication":"Nature Communications","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2041-1723"]},"publication_status":"published","year":"2018","volume":9,"date_published":"2018-05-14T00:00:00Z","doi":"10.1038/s41467-018-04191-y","date_created":"2020-04-30T10:41:36Z","oa_version":"Published Version","abstract":[{"lang":"eng","text":"There are mean differences in complex traits among global human populations. We hypothesize that part of the phenotypic differentiation is due to natural selection. To address this hypothesis, we assess the differentiation in allele frequencies of trait-associated SNPs among African, Eastern Asian, and European populations for ten complex traits using data of large sample size (up to ~405,000). We show that SNPs associated with height (P=2.46×10−5), waist-to-hip ratio (P=2.77×10−4), and schizophrenia (P=3.96×10−5) are significantly more differentiated among populations than matched “control” SNPs, suggesting that these trait-associated SNPs have undergone natural selection. We further find that SNPs associated with height (P=2.01×10−6) and schizophrenia (P=5.16×10−18) show significantly higher variance in linkage disequilibrium (LD) scores across populations than control SNPs. Our results support the hypothesis that natural selection has shaped the genetic differentiation of complex traits, such as height and schizophrenia, among worldwide populations."}],"month":"05","intvolume":" 9","publisher":"Springer Nature","quality_controlled":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.1038/s41467-018-04191-y","open_access":"1"}]},{"article_processing_charge":"No","author":[{"full_name":"Maier, R. M.","last_name":"Maier","first_name":"R. M."},{"full_name":"Visscher, P. M.","last_name":"Visscher","first_name":"P. M."},{"last_name":"Robinson","full_name":"Robinson, Matthew Richard","orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","first_name":"Matthew Richard"},{"first_name":"N. R.","full_name":"Wray, N. R.","last_name":"Wray"}],"title":"Embracing polygenicity: A review of methods and tools for psychiatric genetics research","citation":{"mla":"Maier, R. M., et al. “Embracing Polygenicity: A Review of Methods and Tools for Psychiatric Genetics Research.” Psychological Medicine, vol. 48, no. 7, Cambridge University Press, 2018, pp. 1055–67, doi:10.1017/s0033291717002318.","ieee":"R. M. Maier, P. M. Visscher, M. R. Robinson, and N. R. Wray, “Embracing polygenicity: A review of methods and tools for psychiatric genetics research,” Psychological Medicine, vol. 48, no. 7. Cambridge University Press, pp. 1055–1067, 2018.","short":"R.M. Maier, P.M. Visscher, M.R. Robinson, N.R. Wray, Psychological Medicine 48 (2018) 1055–1067.","ama":"Maier RM, Visscher PM, Robinson MR, Wray NR. Embracing polygenicity: A review of methods and tools for psychiatric genetics research. Psychological Medicine. 2018;48(7):1055-1067. doi:10.1017/s0033291717002318","apa":"Maier, R. M., Visscher, P. M., Robinson, M. R., & Wray, N. R. (2018). Embracing polygenicity: A review of methods and tools for psychiatric genetics research. Psychological Medicine. Cambridge University Press. https://doi.org/10.1017/s0033291717002318","chicago":"Maier, R. M., P. M. Visscher, Matthew Richard Robinson, and N. R. Wray. “Embracing Polygenicity: A Review of Methods and Tools for Psychiatric Genetics Research.” Psychological Medicine. Cambridge University Press, 2018. https://doi.org/10.1017/s0033291717002318.","ista":"Maier RM, Visscher PM, Robinson MR, Wray NR. 2018. Embracing polygenicity: A review of methods and tools for psychiatric genetics research. Psychological Medicine. 48(7), 1055–1067."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","page":"1055-1067","date_created":"2020-04-30T10:44:35Z","date_published":"2018-05-01T00:00:00Z","doi":"10.1017/s0033291717002318","year":"2018","publication":"Psychological Medicine","day":"01","oa":1,"quality_controlled":"1","publisher":"Cambridge University Press","date_updated":"2021-01-12T08:15:05Z","extern":"1","type":"journal_article","article_type":"original","status":"public","_id":"7721","volume":48,"issue":"7","publication_status":"published","publication_identifier":{"issn":["0033-2917","1469-8978"]},"language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1017/s0033291717002318","open_access":"1"}],"intvolume":" 48","month":"05","abstract":[{"text":"The availability of genome-wide genetic data on hundreds of thousands of people has led to an equally rapid growth in methodologies available to analyse these data. While the motivation for undertaking genome-wide association studies (GWAS) is identification of genetic markers associated with complex traits, once generated these data can be used for many other analyses. GWAS have demonstrated that complex traits exhibit a highly polygenic genetic architecture, often with shared genetic risk factors across traits. New methods to analyse data from GWAS are increasingly being used to address a diverse set of questions about the aetiology of complex traits and diseases, including psychiatric disorders. Here, we give an overview of some of these methods and present examples of how they have contributed to our understanding of psychiatric disorders. We consider: (i) estimation of the extent of genetic influence on traits, (ii) uncovering of shared genetic control between traits, (iii) predictions of genetic risk for individuals, (iv) uncovering of causal relationships between traits, (v) identifying causal single-nucleotide polymorphisms and genes or (vi) the detection of genetic heterogeneity. This classification helps organise the large number of recently developed methods, although some could be placed in more than one category. While some methods require GWAS data on individual people, others simply use GWAS summary statistics data, allowing novel well-powered analyses to be conducted at a low computational burden.","lang":"eng"}],"oa_version":"Published Version"},{"publication_identifier":{"issn":["2041-1723"]},"year":"2018","publication_status":"published","day":"19","language":[{"iso":"eng"}],"publication":"Nature Communications","doi":"10.1038/s41467-018-06851-5","date_published":"2018-10-19T00:00:00Z","volume":9,"date_created":"2020-04-30T11:38:01Z","abstract":[{"lang":"eng","text":"Creating a selective gel that filters particles based on their interactions is a major goal of nanotechnology, with far-reaching implications from drug delivery to controlling assembly pathways. However, this is particularly difficult when the particles are larger than the gel’s characteristic mesh size because such particles cannot passively pass through the gel. Thus, filtering requires the interacting particles to transiently reorganize the gel’s internal structure. While significant advances, e.g., in DNA engineering, have enabled the design of nano-materials with programmable interactions, it is not clear what physical principles such a designer gel could exploit to achieve selective permeability. We present an equilibrium mechanism where crosslink binding dynamics are affected by interacting particles such that particle diffusion is enhanced. In addition to revealing specific design rules for manufacturing selective gels, our results have the potential to explain the origin of selective permeability in certain biological materials, including the nuclear pore complex."}],"oa_version":"Published Version","publisher":"Springer Nature","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1038/s41467-018-06851-5","open_access":"1"}],"oa":1,"month":"10","intvolume":" 9","date_updated":"2021-01-12T08:15:18Z","citation":{"chicago":"Goodrich, Carl Peter, Michael P. Brenner, and Katharina Ribbeck. “Enhanced Diffusion by Binding to the Crosslinks of a Polymer Gel.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-06851-5.","ista":"Goodrich CP, Brenner MP, Ribbeck K. 2018. Enhanced diffusion by binding to the crosslinks of a polymer gel. Nature Communications. 9, 4348.","mla":"Goodrich, Carl Peter, et al. “Enhanced Diffusion by Binding to the Crosslinks of a Polymer Gel.” Nature Communications, vol. 9, 4348, Springer Nature, 2018, doi:10.1038/s41467-018-06851-5.","ama":"Goodrich CP, Brenner MP, Ribbeck K. Enhanced diffusion by binding to the crosslinks of a polymer gel. Nature Communications. 2018;9. doi:10.1038/s41467-018-06851-5","apa":"Goodrich, C. P., Brenner, M. P., & Ribbeck, K. (2018). Enhanced diffusion by binding to the crosslinks of a polymer gel. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-06851-5","ieee":"C. P. Goodrich, M. P. Brenner, and K. Ribbeck, “Enhanced diffusion by binding to the crosslinks of a polymer gel,” Nature Communications, vol. 9. Springer Nature, 2018.","short":"C.P. Goodrich, M.P. Brenner, K. Ribbeck, Nature Communications 9 (2018)."},"extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"id":"EB352CD2-F68A-11E9-89C5-A432E6697425","first_name":"Carl Peter","orcid":"0000-0002-1307-5074","full_name":"Goodrich, Carl Peter","last_name":"Goodrich"},{"full_name":"Brenner, Michael P.","last_name":"Brenner","first_name":"Michael P."},{"first_name":"Katharina","last_name":"Ribbeck","full_name":"Ribbeck, Katharina"}],"article_processing_charge":"No","title":"Enhanced diffusion by binding to the crosslinks of a polymer gel","_id":"7754","article_number":"4348","article_type":"original","type":"journal_article","status":"public"},{"month":"11","publisher":"Cold Spring Harbor Laboratory","main_file_link":[{"url":"https://doi.org/10.1101/466771 ","open_access":"1"}],"oa":1,"oa_version":"Preprint","abstract":[{"text":"The Drosophila Genetic Reference Panel (DGRP) serves as a valuable resource to better understand the genetic landscapes underlying quantitative traits. However, such DGRP studies have so far only focused on nuclear genetic variants. To address this, we sequenced the mitochondrial genomes of >170 DGRP lines, identifying 229 variants including 21 indels and 7 frameshifts. We used our mitochondrial variation data to identify 12 genetically distinct mitochondrial haplotypes, thus revealing important population structure at the mitochondrial level. We further examined whether this population structure was reflected on the nuclear genome by screening for the presence of potential mito-nuclear genetic incompatibilities in the form of significant genotype ratio distortions (GRDs) between mitochondrial and nuclear variants. In total, we detected a remarkable 1,845 mito-nuclear GRDs, with the highest enrichment observed in a 40 kb region around the gene Sex-lethal (Sxl). Intriguingly, downstream phenotypic analyses did not uncover major fitness effects associated with these GRDs, suggesting that a large number of mito-nuclear GRDs may reflect population structure at the mitochondrial level rather than actual genomic incompatibilities. This is further supported by the GRD landscape showing particular large genomic regions associated with a single mitochondrial haplotype. Next, we explored the functional relevance of the detected mitochondrial haplotypes through an association analysis on a set of 259 assembled, non-correlating DGRP phenotypes. We found multiple significant associations with stress- and metabolism-related phenotypes, including food intake in males. We validated the latter observation by reciprocal swapping of mitochondrial genomes from high food intake DGRP lines to low food intake ones. In conclusion, our study uncovered important mitochondrial population structure and haplotype-specific metabolic variation in the DGRP, thus demonstrating the significance of incorporating mitochondrial haplotypes in geno-phenotype relationship studies.","lang":"eng"}],"date_published":"2018-11-09T00:00:00Z","date_created":"2020-04-30T13:09:37Z","page":"49","day":"09","language":[{"iso":"eng"}],"publication":"bioRxiv","year":"2018","publication_status":"published","status":"public","type":"preprint","_id":"7783","title":"Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel","author":[{"full_name":"Bevers, Roel P.J.","last_name":"Bevers","first_name":"Roel P.J."},{"first_name":"Maria","full_name":"Litovchenko, Maria","last_name":"Litovchenko"},{"last_name":"Kapopoulou","full_name":"Kapopoulou, Adamandia","first_name":"Adamandia"},{"first_name":"Virginie S.","last_name":"Braman","full_name":"Braman, Virginie S."},{"first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","full_name":"Robinson, Matthew Richard","orcid":"0000-0001-8982-8813","last_name":"Robinson"},{"last_name":"Auwerx","full_name":"Auwerx, Johan","first_name":"Johan"},{"full_name":"Hollis, Brian","last_name":"Hollis","first_name":"Brian"},{"last_name":"Deplancke","full_name":"Deplancke, Bart","first_name":"Bart"}],"article_processing_charge":"No","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:15:30Z","citation":{"mla":"Bevers, Roel P. J., et al. “Extensive Mitochondrial Population Structure and Haplotype-Specific Phenotypic Variation in the Drosophila Genetic Reference Panel.” BioRxiv, Cold Spring Harbor Laboratory, 2018.","short":"R.P.J. Bevers, M. Litovchenko, A. Kapopoulou, V.S. Braman, M.R. Robinson, J. Auwerx, B. Hollis, B. Deplancke, BioRxiv (2018).","ieee":"R. P. J. Bevers et al., “Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel,” bioRxiv. Cold Spring Harbor Laboratory, 2018.","ama":"Bevers RPJ, Litovchenko M, Kapopoulou A, et al. Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel. bioRxiv. 2018.","apa":"Bevers, R. P. J., Litovchenko, M., Kapopoulou, A., Braman, V. S., Robinson, M. R., Auwerx, J., … Deplancke, B. (2018). Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel. bioRxiv. Cold Spring Harbor Laboratory.","chicago":"Bevers, Roel P.J., Maria Litovchenko, Adamandia Kapopoulou, Virginie S. Braman, Matthew Richard Robinson, Johan Auwerx, Brian Hollis, and Bart Deplancke. “Extensive Mitochondrial Population Structure and Haplotype-Specific Phenotypic Variation in the Drosophila Genetic Reference Panel.” BioRxiv. Cold Spring Harbor Laboratory, 2018.","ista":"Bevers RPJ, Litovchenko M, Kapopoulou A, Braman VS, Robinson MR, Auwerx J, Hollis B, Deplancke B. 2018. Extensive mitochondrial population structure and haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel. bioRxiv, ."}},{"abstract":[{"lang":"eng","text":"Deep neural networks (DNNs) continue to make significant advances, solving tasks from image classification to translation or reinforcement learning. One aspect of the field receiving considerable attention is efficiently executing deep models in resource-constrained environments, such as mobile or embedded devices. This paper focuses on this problem, and proposes two new compression methods, which jointly leverage weight quantization and distillation of larger teacher networks into smaller student networks. The first method we propose is called quantized distillation and leverages distillation during the training process, by incorporating distillation loss, expressed with respect to the teacher, into the training of a student network whose weights are quantized to a limited set of levels. The second method, differentiable quantization, optimizes the location of quantization points through stochastic gradient descent, to better fit the behavior of the teacher model. We validate both methods through experiments on convolutional and recurrent architectures. We show that quantized shallow students can reach similar accuracy levels to full-precision teacher models, while providing order of magnitude compression, and inference speedup that is linear in the depth reduction. In sum, our results enable DNNs for resource-constrained environments to leverage architecture and accuracy advances developed on more powerful devices."}],"oa_version":"Published Version","oa":1,"quality_controlled":"1","scopus_import":1,"month":"05","year":"2018","publication_status":"published","has_accepted_license":"1","publication":"6th International Conference on Learning Representations","language":[{"iso":"eng"}],"file":[{"checksum":"a4336c167978e81891970e4e4517a8c3","file_id":"7894","access_level":"open_access","relation":"main_file","content_type":"application/pdf","date_created":"2020-05-26T13:02:00Z","file_name":"2018_ICLR_Polino.pdf","creator":"dernst","date_updated":"2020-07-14T12:48:03Z","file_size":308339}],"day":"01","date_created":"2020-05-10T22:00:51Z","date_published":"2018-05-01T00:00:00Z","_id":"7812","conference":{"start_date":"2018-04-30","end_date":"2018-05-03","location":"Vancouver, Canada","name":"ICLR: International Conference on Learning Representations"},"type":"conference","status":"public","citation":{"mla":"Polino, Antonio, et al. “Model Compression via Distillation and Quantization.” 6th International Conference on Learning Representations, 2018.","apa":"Polino, A., Pascanu, R., & Alistarh, D.-A. (2018). Model compression via distillation and quantization. In 6th International Conference on Learning Representations. Vancouver, Canada.","ama":"Polino A, Pascanu R, Alistarh D-A. Model compression via distillation and quantization. In: 6th International Conference on Learning Representations. ; 2018.","short":"A. Polino, R. Pascanu, D.-A. Alistarh, in:, 6th International Conference on Learning Representations, 2018.","ieee":"A. Polino, R. Pascanu, and D.-A. Alistarh, “Model compression via distillation and quantization,” in 6th International Conference on Learning Representations, Vancouver, Canada, 2018.","chicago":"Polino, Antonio, Razvan Pascanu, and Dan-Adrian Alistarh. “Model Compression via Distillation and Quantization.” In 6th International Conference on Learning Representations, 2018.","ista":"Polino A, Pascanu R, Alistarh D-A. 2018. Model compression via distillation and quantization. 6th International Conference on Learning Representations. ICLR: International Conference on Learning Representations."},"date_updated":"2023-02-23T13:18:41Z","ddc":["000"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","external_id":{"arxiv":["1802.05668"]},"author":[{"first_name":"Antonio","last_name":"Polino","full_name":"Polino, Antonio"},{"first_name":"Razvan","last_name":"Pascanu","full_name":"Pascanu, Razvan"},{"first_name":"Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh","full_name":"Alistarh, Dan-Adrian","orcid":"0000-0003-3650-940X"}],"title":"Model compression via distillation and quantization","file_date_updated":"2020-07-14T12:48:03Z","department":[{"_id":"DaAl"}]},{"volume":130,"issue":"19","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","file":[{"creator":"dernst","file_size":674789,"date_updated":"2020-07-14T12:48:06Z","file_name":"2018_AngChemieDT_Mahne.pdf","date_created":"2020-06-19T11:58:06Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","checksum":"81506e0f7079e1e3591f3cd9f626bf67","file_id":"7988"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["0044-8249"]},"publication_status":"published","month":"05","intvolume":" 130","oa_version":"Published Version","abstract":[{"text":"Feste Alkalicarbonate sind universelle Bestandteile von Passivierungsschichten an Materialien für Interkalationsbatterien, übliche Nebenprodukte in Metall‐O2‐Batterien, und es wird angenommen, dass sie sich reversibel in Metall‐O2 /CO2‐Zellen bilden und zersetzen. In all diesen Kathoden zersetzt sich Li2CO3 zu CO2, sobald es Spannungen >3.8 V vs. Li/Li+ ausgesetzt wird. Beachtenswert ist, dass keine O2‐Entwicklung detektiert wird, wie gemäß der Zersetzungsreaktion 2 Li2CO3 → 4 Li+ + 4 e− + 2 CO2 + O2 zu erwarten wäre. Deswegen war der Verbleib eines der O‐Atome ungeklärt und wurde nicht identifizierten parasitären Reaktionen zugerechnet. Hier zeigen wir, dass hochreaktiver Singulett‐Sauerstoff (1O2) bei der Oxidation von Li2CO3 in einem aprotischen Elektrolyten gebildet und daher nicht als O2 freigesetzt wird. Diese Ergebnisse haben weitreichende Auswirkungen auf die langfristige Zyklisierbarkeit von Batterien: sie untermauern die Wichtigkeit, 1O2 in Metall‐O2‐Batterien zu verhindern, stellen die Möglichkeit einer reversiblen Metall‐O2 /CO2‐Batterie basierend auf einem Carbonat‐Entladeprodukt in Frage und helfen, Grenzflächenreaktivität von Übergangsmetallkathoden mit Li2CO3‐Resten zu erklären.","lang":"ger"}],"file_date_updated":"2020-07-14T12:48:06Z","extern":"1","ddc":["540"],"date_updated":"2021-01-12T08:16:21Z","status":"public","article_type":"original","type":"journal_article","tmp":{"short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png"},"_id":"7983","date_published":"2018-05-04T00:00:00Z","doi":"10.1002/ange.201802277","date_created":"2020-06-19T08:33:24Z","page":"5627-5631","day":"04","publication":"Angewandte Chemie","has_accepted_license":"1","year":"2018","quality_controlled":"1","publisher":"Wiley","oa":1,"title":"Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff","author":[{"first_name":"Nika","last_name":"Mahne","full_name":"Mahne, Nika"},{"first_name":"Sara E.","full_name":"Renfrew, Sara E.","last_name":"Renfrew"},{"first_name":"Bryan D.","last_name":"McCloskey","full_name":"McCloskey, Bryan D."},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","first_name":"Stefan Alexander"}],"article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Mahne, Nika, Sara E. Renfrew, Bryan D. McCloskey, and Stefan Alexander Freunberger. “Elektrochemische Oxidation von Lithiumcarbonat Generiert Singulett-Sauerstoff.” Angewandte Chemie. Wiley, 2018. https://doi.org/10.1002/ange.201802277.","ista":"Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. 2018. Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff. Angewandte Chemie. 130(19), 5627–5631.","mla":"Mahne, Nika, et al. “Elektrochemische Oxidation von Lithiumcarbonat Generiert Singulett-Sauerstoff.” Angewandte Chemie, vol. 130, no. 19, Wiley, 2018, pp. 5627–31, doi:10.1002/ange.201802277.","apa":"Mahne, N., Renfrew, S. E., McCloskey, B. D., & Freunberger, S. A. (2018). Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.201802277","ama":"Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff. Angewandte Chemie. 2018;130(19):5627-5631. doi:10.1002/ange.201802277","ieee":"N. Mahne, S. E. Renfrew, B. D. McCloskey, and S. A. Freunberger, “Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff,” Angewandte Chemie, vol. 130, no. 19. Wiley, pp. 5627–5631, 2018.","short":"N. Mahne, S.E. Renfrew, B.D. McCloskey, S.A. Freunberger, Angewandte Chemie 130 (2018) 5627–5631."}},{"main_file_link":[{"url":"https://doi.org/10.1016/j.neuron.2018.03.028","open_access":"1"}],"intvolume":" 98","month":"04","abstract":[{"lang":"eng","text":"The neural code of cortical processing remains uncracked; however, it must necessarily rely on faithful signal propagation between cortical areas. In this issue of Neuron, Joglekar et al. (2018) show that strong inter-areal excitation balanced by local inhibition can enable reliable signal propagation in data-constrained network models of macaque cortex. "}],"oa_version":"Published Version","pmid":1,"volume":98,"issue":"1","publication_status":"published","publication_identifier":{"issn":["0896-6273"]},"language":[{"iso":"eng"}],"type":"journal_article","article_type":"original","status":"public","_id":"8015","date_updated":"2021-01-12T08:16:31Z","extern":"1","oa":1,"publisher":"Elsevier","quality_controlled":"1","page":"8-9","date_created":"2020-06-25T12:53:39Z","doi":"10.1016/j.neuron.2018.03.028","date_published":"2018-04-04T00:00:00Z","year":"2018","publication":"Neuron","day":"04","article_processing_charge":"No","external_id":{"pmid":["29621492"]},"author":[{"last_name":"Stroud","full_name":"Stroud, Jake P.","first_name":"Jake P."},{"first_name":"Tim P","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","last_name":"Vogels","full_name":"Vogels, Tim P","orcid":"0000-0003-3295-6181"}],"title":"Cortical signal propagation: Balance, amplify, transmit","citation":{"ista":"Stroud JP, Vogels TP. 2018. Cortical signal propagation: Balance, amplify, transmit. Neuron. 98(1), 8–9.","chicago":"Stroud, Jake P., and Tim P Vogels. “Cortical Signal Propagation: Balance, Amplify, Transmit.” Neuron. Elsevier, 2018. https://doi.org/10.1016/j.neuron.2018.03.028.","apa":"Stroud, J. P., & Vogels, T. P. (2018). Cortical signal propagation: Balance, amplify, transmit. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2018.03.028","ama":"Stroud JP, Vogels TP. Cortical signal propagation: Balance, amplify, transmit. Neuron. 2018;98(1):8-9. doi:10.1016/j.neuron.2018.03.028","ieee":"J. P. Stroud and T. P. Vogels, “Cortical signal propagation: Balance, amplify, transmit,” Neuron, vol. 98, no. 1. Elsevier, pp. 8–9, 2018.","short":"J.P. Stroud, T.P. Vogels, Neuron 98 (2018) 8–9.","mla":"Stroud, Jake P., and Tim P. Vogels. “Cortical Signal Propagation: Balance, Amplify, Transmit.” Neuron, vol. 98, no. 1, Elsevier, 2018, pp. 8–9, doi:10.1016/j.neuron.2018.03.028."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"citation":{"chicago":"Stroud, Jake P., Mason A. Porter, Guillaume Hennequin, and Tim P Vogels. “Motor Primitives in Space and Time via Targeted Gain Modulation in Cortical Networks.” Nature Neuroscience. Springer Nature, 2018. https://doi.org/10.1038/s41593-018-0276-0.","ista":"Stroud JP, Porter MA, Hennequin G, Vogels TP. 2018. Motor primitives in space and time via targeted gain modulation in cortical networks. Nature Neuroscience. 21(12), 1774–1783.","mla":"Stroud, Jake P., et al. “Motor Primitives in Space and Time via Targeted Gain Modulation in Cortical Networks.” Nature Neuroscience, vol. 21, no. 12, Springer Nature, 2018, pp. 1774–83, doi:10.1038/s41593-018-0276-0.","short":"J.P. Stroud, M.A. Porter, G. Hennequin, T.P. Vogels, Nature Neuroscience 21 (2018) 1774–1783.","ieee":"J. P. Stroud, M. A. Porter, G. Hennequin, and T. P. Vogels, “Motor primitives in space and time via targeted gain modulation in cortical networks,” Nature Neuroscience, vol. 21, no. 12. Springer Nature, pp. 1774–1783, 2018.","apa":"Stroud, J. P., Porter, M. A., Hennequin, G., & Vogels, T. P. (2018). Motor primitives in space and time via targeted gain modulation in cortical networks. Nature Neuroscience. Springer Nature. https://doi.org/10.1038/s41593-018-0276-0","ama":"Stroud JP, Porter MA, Hennequin G, Vogels TP. Motor primitives in space and time via targeted gain modulation in cortical networks. Nature Neuroscience. 2018;21(12):1774-1783. doi:10.1038/s41593-018-0276-0"},"user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","author":[{"last_name":"Stroud","full_name":"Stroud, Jake P.","first_name":"Jake P."},{"first_name":"Mason A.","full_name":"Porter, Mason A.","last_name":"Porter"},{"first_name":"Guillaume","full_name":"Hennequin, Guillaume","last_name":"Hennequin"},{"id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","first_name":"Tim P","last_name":"Vogels","full_name":"Vogels, Tim P","orcid":"0000-0003-3295-6181"}],"external_id":{"pmid":["30482949"]},"article_processing_charge":"No","title":"Motor primitives in space and time via targeted gain modulation in cortical networks","year":"2018","day":"01","publication":"Nature Neuroscience","page":"1774-1783","doi":"10.1038/s41593-018-0276-0","date_published":"2018-12-01T00:00:00Z","date_created":"2020-06-30T13:18:02Z","quality_controlled":"1","publisher":"Springer Nature","oa":1,"date_updated":"2021-01-12T08:16:46Z","extern":"1","_id":"8073","article_type":"original","type":"journal_article","status":"public","publication_identifier":{"issn":["1097-6256","1546-1726"]},"publication_status":"published","language":[{"iso":"eng"}],"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41593-018-0307-x"}]},"issue":"12","volume":21,"abstract":[{"text":"Motor cortex (M1) exhibits a rich repertoire of neuronal activities to support the generation of complex movements. Although recent neuronal-network models capture many qualitative aspects of M1 dynamics, they can generate only a few distinct movements. Additionally, it is unclear how M1 efficiently controls movements over a wide range of shapes and speeds. We demonstrate that modulation of neuronal input–output gains in recurrent neuronal-network models with a fixed architecture can dramatically reorganize neuronal activity and thus downstream muscle outputs. Consistent with the observation of diffuse neuromodulatory projections to M1, a relatively small number of modulatory control units provide sufficient flexibility to adjust high-dimensional network activity using a simple reward-based learning rule. Furthermore, it is possible to assemble novel movements from previously learned primitives, and one can separately change movement speed while preserving movement shape. Our results provide a new perspective on the role of modulatory systems in controlling recurrent cortical activity.","lang":"eng"}],"oa_version":"Submitted Version","pmid":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6276991/"}],"month":"12","intvolume":" 21"},{"_id":"8231","type":"journal_article","article_type":"letter_note","status":"public","date_updated":"2021-01-12T08:17:37Z","citation":{"chicago":"Singer, Judit, Josef Singer, Kristina M. Ilieva, Miroslawa Matz, Ina Herrmann, Edzard Spillner, Sophia N. Karagiannis, and Erika Jensen-Jarolim. “AllergoOncology: Generating a Canine Anticancer IgE against the Epidermal Growth Factor Receptor.” Journal of Allergy and Clinical Immunology. Elsevier, 2018. https://doi.org/10.1016/j.jaci.2018.04.021.","ista":"Singer J, Singer J, Ilieva KM, Matz M, Herrmann I, Spillner E, Karagiannis SN, Jensen-Jarolim E. 2018. AllergoOncology: Generating a canine anticancer IgE against the epidermal growth factor receptor. Journal of Allergy and Clinical Immunology. 142(3), 973–976.e11.","mla":"Singer, Judit, et al. “AllergoOncology: Generating a Canine Anticancer IgE against the Epidermal Growth Factor Receptor.” Journal of Allergy and Clinical Immunology, vol. 142, no. 3, Elsevier, 2018, p. 973–976.e11, doi:10.1016/j.jaci.2018.04.021.","ieee":"J. Singer et al., “AllergoOncology: Generating a canine anticancer IgE against the epidermal growth factor receptor,” Journal of Allergy and Clinical Immunology, vol. 142, no. 3. Elsevier, p. 973–976.e11, 2018.","short":"J. Singer, J. Singer, K.M. Ilieva, M. Matz, I. Herrmann, E. Spillner, S.N. Karagiannis, E. Jensen-Jarolim, Journal of Allergy and Clinical Immunology 142 (2018) 973–976.e11.","apa":"Singer, J., Singer, J., Ilieva, K. M., Matz, M., Herrmann, I., Spillner, E., … Jensen-Jarolim, E. (2018). AllergoOncology: Generating a canine anticancer IgE against the epidermal growth factor receptor. Journal of Allergy and Clinical Immunology. Elsevier. https://doi.org/10.1016/j.jaci.2018.04.021","ama":"Singer J, Singer J, Ilieva KM, et al. AllergoOncology: Generating a canine anticancer IgE against the epidermal growth factor receptor. Journal of Allergy and Clinical Immunology. 2018;142(3):973-976.e11. doi:10.1016/j.jaci.2018.04.021"},"extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Judit","id":"36432834-F248-11E8-B48F-1D18A9856A87","last_name":"Fazekas-Singer","full_name":"Fazekas-Singer, Judit","orcid":"0000-0002-8777-3502"},{"first_name":"Josef","last_name":"Singer","full_name":"Singer, Josef"},{"first_name":"Kristina M.","full_name":"Ilieva, Kristina M.","last_name":"Ilieva"},{"last_name":"Matz","full_name":"Matz, Miroslawa","first_name":"Miroslawa"},{"last_name":"Herrmann","full_name":"Herrmann, Ina","first_name":"Ina"},{"first_name":"Edzard","full_name":"Spillner, Edzard","last_name":"Spillner"},{"full_name":"Karagiannis, Sophia N.","last_name":"Karagiannis","first_name":"Sophia N."},{"last_name":"Jensen-Jarolim","full_name":"Jensen-Jarolim, Erika","first_name":"Erika"}],"article_processing_charge":"No","title":"AllergoOncology: Generating a canine anticancer IgE against the epidermal growth factor receptor","oa_version":"Published Version","quality_controlled":"1","publisher":"Elsevier","oa":1,"main_file_link":[{"url":"https://doi.org/10.1016/j.jaci.2018.04.021","open_access":"1"}],"month":"09","intvolume":" 142","publication_identifier":{"issn":["0091-6749"]},"publication_status":"published","year":"2018","day":"01","publication":"Journal of Allergy and Clinical Immunology","language":[{"iso":"eng"}],"page":"973-976.e11","volume":142,"issue":"3","date_published":"2018-09-01T00:00:00Z","doi":"10.1016/j.jaci.2018.04.021","date_created":"2020-08-10T11:51:36Z"},{"month":"02","intvolume":" 2018","quality_controlled":"1","publisher":"Hindawi","oa":1,"main_file_link":[{"url":"https://doi.org/10.1155/2018/1269830","open_access":"1"}],"oa_version":"Published Version","abstract":[{"text":"Molecular imaging probes such as PET-tracers have the potential to improve the accuracy of tumor characterization by directly visualizing the biochemical situation. Thus, molecular changes can be detected early before morphological manifestation. The A3 adenosine receptor (A3AR) is described to be highly expressed in colon cancer cell lines and human colorectal cancer (CRC), suggesting this receptor as a tumor marker. The aim of this preclinical study was the evaluation of FE@SUPPY as a PET-tracer for CRC using in vitro imaging and in vivo PET imaging. First, affinity and selectivity of FE@SUPPY and its metabolites were determined, proving the favorable binding profile of FE@SUPPY. The human adenocarcinoma cell line HT-29 was characterized regarding its hA3AR expression and was subsequently chosen as tumor graft. Promising results regarding the potential of FE@SUPPY as a PET-tracer for CRC imaging were obtained by autoradiography as ≥2.3-fold higher accumulation of FE@SUPPY was found in CRC tissue compared to adjacent healthy colon tissue from the same patient. Nevertheless, first in vivo studies using HT-29 xenografts showed insufficient tumor uptake due to (1) poor conservation of target expression in xenografts and (2) unfavorable pharmacokinetics of FE@SUPPY in mice. We therefore conclude that HT-29 xenografts are not adequate to visualize hA3ARs using FE@SUPPY.","lang":"eng"}],"date_published":"2018-02-13T00:00:00Z","doi":"10.1155/2018/1269830","volume":2018,"date_created":"2020-08-10T11:53:07Z","day":"13","language":[{"iso":"eng"}],"publication":"Contrast Media & Molecular Imaging","publication_identifier":{"issn":["1555-4309","1555-4317"]},"year":"2018","publication_status":"published","status":"public","article_type":"original","type":"journal_article","article_number":"1269830","_id":"8234","title":"Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal cancer","author":[{"first_name":"T.","last_name":"Balber","full_name":"Balber, T."},{"last_name":"Singer","full_name":"Singer, Judit","orcid":"0000-0002-8777-3502","id":"36432834-F248-11E8-B48F-1D18A9856A87","first_name":"Judit"},{"first_name":"N.","last_name":"Berroterán-Infante","full_name":"Berroterán-Infante, N."},{"first_name":"M.","full_name":"Dumanic, M.","last_name":"Dumanic"},{"first_name":"L.","full_name":"Fetty, L.","last_name":"Fetty"},{"last_name":"Fazekas-Singer","orcid":"0000-0002-8777-3502","full_name":"Fazekas-Singer, J.","first_name":"J."},{"first_name":"C.","full_name":"Vraka, C.","last_name":"Vraka"},{"first_name":"L.","full_name":"Nics, L.","last_name":"Nics"},{"first_name":"M.","last_name":"Bergmann","full_name":"Bergmann, M."},{"first_name":"K.","full_name":"Pallitsch, K.","last_name":"Pallitsch"},{"full_name":"Spreitzer, H.","last_name":"Spreitzer","first_name":"H."},{"full_name":"Wadsak, W.","orcid":"0000-0003-4479-8053","last_name":"Wadsak","first_name":"W."},{"first_name":"M.","last_name":"Hacker","full_name":"Hacker, M."},{"first_name":"E.","full_name":"Jensen-Jarolim, E.","last_name":"Jensen-Jarolim"},{"first_name":"H.","last_name":"Viernstein","full_name":"Viernstein, H."},{"last_name":"Mitterhauser","orcid":"0000-0003-3173-5272","full_name":"Mitterhauser, M.","first_name":"M."}],"article_processing_charge":"No","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:17:38Z","citation":{"chicago":"Balber, T., Judit Singer, N. Berroterán-Infante, M. Dumanic, L. Fetty, J. Fazekas-Singer, C. Vraka, et al. “Preclinical in Vitro and in Vivo Evaluation of [18F]FE@SUPPY for Cancer PET Imaging: Limitations of a Xenograft Model for Colorectal Cancer.” Contrast Media & Molecular Imaging. Hindawi, 2018. https://doi.org/10.1155/2018/1269830.","ista":"Balber T, Singer J, Berroterán-Infante N, Dumanic M, Fetty L, Fazekas-Singer J, Vraka C, Nics L, Bergmann M, Pallitsch K, Spreitzer H, Wadsak W, Hacker M, Jensen-Jarolim E, Viernstein H, Mitterhauser M. 2018. Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal cancer. Contrast Media & Molecular Imaging. 2018, 1269830.","mla":"Balber, T., et al. “Preclinical in Vitro and in Vivo Evaluation of [18F]FE@SUPPY for Cancer PET Imaging: Limitations of a Xenograft Model for Colorectal Cancer.” Contrast Media & Molecular Imaging, vol. 2018, 1269830, Hindawi, 2018, doi:10.1155/2018/1269830.","short":"T. Balber, J. Singer, N. Berroterán-Infante, M. Dumanic, L. Fetty, J. Fazekas-Singer, C. Vraka, L. Nics, M. Bergmann, K. Pallitsch, H. Spreitzer, W. Wadsak, M. Hacker, E. Jensen-Jarolim, H. Viernstein, M. Mitterhauser, Contrast Media & Molecular Imaging 2018 (2018).","ieee":"T. Balber et al., “Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal cancer,” Contrast Media & Molecular Imaging, vol. 2018. Hindawi, 2018.","ama":"Balber T, Singer J, Berroterán-Infante N, et al. Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal cancer. Contrast Media & Molecular Imaging. 2018;2018. doi:10.1155/2018/1269830","apa":"Balber, T., Singer, J., Berroterán-Infante, N., Dumanic, M., Fetty, L., Fazekas-Singer, J., … Mitterhauser, M. (2018). Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal cancer. Contrast Media & Molecular Imaging. Hindawi. https://doi.org/10.1155/2018/1269830"}},{"status":"public","type":"journal_article","article_type":"original","_id":"8232","title":"Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody","article_processing_charge":"No","author":[{"first_name":"Tadanobu","full_name":"Nagaya, Tadanobu","last_name":"Nagaya"},{"first_name":"Shuhei","last_name":"Okuyama","full_name":"Okuyama, Shuhei"},{"last_name":"Ogata","full_name":"Ogata, Fusa","first_name":"Fusa"},{"last_name":"Maruoka","full_name":"Maruoka, Yasuhiro","first_name":"Yasuhiro"},{"last_name":"Knapp","full_name":"Knapp, Deborah W.","first_name":"Deborah W."},{"first_name":"Sophia N.","full_name":"Karagiannis, Sophia N.","last_name":"Karagiannis"},{"orcid":"0000-0002-8777-3502","full_name":"Fazekas-Singer, Judit","last_name":"Fazekas-Singer","id":"36432834-F248-11E8-B48F-1D18A9856A87","first_name":"Judit"},{"first_name":"Peter L.","last_name":"Choyke","full_name":"Choyke, Peter L."},{"first_name":"Amy K.","full_name":"LeBlanc, Amy K.","last_name":"LeBlanc"},{"first_name":"Erika","last_name":"Jensen-Jarolim","full_name":"Jensen-Jarolim, Erika"},{"last_name":"Kobayashi","full_name":"Kobayashi, Hisataka","first_name":"Hisataka"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","citation":{"apa":"Nagaya, T., Okuyama, S., Ogata, F., Maruoka, Y., Knapp, D. W., Karagiannis, S. N., … Kobayashi, H. (2018). Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody. Oncotarget. Impact Journals. https://doi.org/10.18632/oncotarget.24876","ama":"Nagaya T, Okuyama S, Ogata F, et al. Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody. Oncotarget. 2018;9:19026-19038. doi:10.18632/oncotarget.24876","short":"T. Nagaya, S. Okuyama, F. Ogata, Y. Maruoka, D.W. Knapp, S.N. Karagiannis, J. Singer, P.L. Choyke, A.K. LeBlanc, E. Jensen-Jarolim, H. Kobayashi, Oncotarget 9 (2018) 19026–19038.","ieee":"T. Nagaya et al., “Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody,” Oncotarget, vol. 9. Impact Journals, pp. 19026–19038, 2018.","mla":"Nagaya, Tadanobu, et al. “Near Infrared Photoimmunotherapy Targeting Bladder Cancer with a Canine Anti-Epidermal Growth Factor Receptor (EGFR) Antibody.” Oncotarget, vol. 9, Impact Journals, 2018, pp. 19026–38, doi:10.18632/oncotarget.24876.","ista":"Nagaya T, Okuyama S, Ogata F, Maruoka Y, Knapp DW, Karagiannis SN, Singer J, Choyke PL, LeBlanc AK, Jensen-Jarolim E, Kobayashi H. 2018. Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody. Oncotarget. 9, 19026–19038.","chicago":"Nagaya, Tadanobu, Shuhei Okuyama, Fusa Ogata, Yasuhiro Maruoka, Deborah W. Knapp, Sophia N. Karagiannis, Judit Singer, et al. “Near Infrared Photoimmunotherapy Targeting Bladder Cancer with a Canine Anti-Epidermal Growth Factor Receptor (EGFR) Antibody.” Oncotarget. Impact Journals, 2018. https://doi.org/10.18632/oncotarget.24876."},"date_updated":"2021-01-12T08:17:37Z","intvolume":" 9","month":"04","oa":1,"main_file_link":[{"url":"https://doi.org/10.18632/oncotarget.24876","open_access":"1"}],"quality_controlled":"1","publisher":"Impact Journals","oa_version":"Published Version","abstract":[{"lang":"eng","text":"Anti-epidermal growth factor receptor (EGFR) antibody therapy is used in EGFR expressing cancers including lung, colon, head and neck, and bladder cancers, however results have been modest. Near infrared photoimmunotherapy (NIR-PIT) is a highly selective tumor treatment that employs an antibody-photo-absorber conjugate which is activated by NIR light. NIR-PIT is in clinical trials in patients with recurrent head and neck cancers using cetuximab-IR700 as the conjugate. However, its use has otherwise been restricted to mouse models. This is an effort to explore larger animal models with NIR-PIT. We describe the use of a recombinant canine anti-EGFR monoclonal antibody (mAb), can225IgG, conjugated to the photo-absorber, IR700DX, in three EGFR expressing canine transitional cell carcinoma (TCC) cell lines as a prelude to possible canine clinical studies. Can225-IR700 conjugate showed specific binding and cell-specific killing after NIR-PIT on EGFR expressing cells in vitro. In the in vivo study, can225-IR700 conjugate demonstrated accumulation of the fluorescent conjugate with high tumor-to-background ratio. Tumor-bearing mice were separated into 4 groups: (1) no treatment; (2) 100 μg of can225-IR700 i.v. only; (3) NIR light exposure only; (4) 100 μg of can225-IR700 i.v., NIR light exposure. Tumor growth was significantly inhibited by NIR-PIT treatment compared with the other groups (p < 0.001), and significantly prolonged survival was achieved (p < 0.001 vs. other groups) in the treatment groups. In conclusion, NIR-PIT with can225-IR700 is a promising treatment for canine EGFR-expressing cancers, including invasive transitional cell carcinoma in pet dogs, that could provide a pathway to translation to humans."}],"date_created":"2020-08-10T11:52:54Z","volume":9,"doi":"10.18632/oncotarget.24876","date_published":"2018-04-10T00:00:00Z","page":"19026-19038","language":[{"iso":"eng"}],"publication":"Oncotarget","day":"10","publication_status":"published","year":"2018","publication_identifier":{"eissn":["1949-2553"]}},{"citation":{"ista":"Herrmann I, Gotovina J, Singer J, Fischer MB, Hufnagl K, Bianchini R, Jensen-Jarolim E. 2018. Canine macrophages can like human macrophages be in vitro activated toward the M2a subtype relevant in allergy. Developmental & Comparative Immunology. 82(5), 118–127.","chicago":"Herrmann, Ina, Jelena Gotovina, Judit Singer, Michael B. Fischer, Karin Hufnagl, Rodolfo Bianchini, and Erika Jensen-Jarolim. “Canine Macrophages Can like Human Macrophages Be in Vitro Activated toward the M2a Subtype Relevant in Allergy.” Developmental & Comparative Immunology. Elsevier, 2018. https://doi.org/10.1016/j.dci.2018.01.005.","ieee":"I. Herrmann et al., “Canine macrophages can like human macrophages be in vitro activated toward the M2a subtype relevant in allergy,” Developmental & Comparative Immunology, vol. 82, no. 5. Elsevier, pp. 118–127, 2018.","short":"I. Herrmann, J. Gotovina, J. Singer, M.B. Fischer, K. Hufnagl, R. Bianchini, E. Jensen-Jarolim, Developmental & Comparative Immunology 82 (2018) 118–127.","apa":"Herrmann, I., Gotovina, J., Singer, J., Fischer, M. B., Hufnagl, K., Bianchini, R., & Jensen-Jarolim, E. (2018). Canine macrophages can like human macrophages be in vitro activated toward the M2a subtype relevant in allergy. Developmental & Comparative Immunology. Elsevier. https://doi.org/10.1016/j.dci.2018.01.005","ama":"Herrmann I, Gotovina J, Singer J, et al. Canine macrophages can like human macrophages be in vitro activated toward the M2a subtype relevant in allergy. Developmental & Comparative Immunology. 2018;82(5):118-127. doi:10.1016/j.dci.2018.01.005","mla":"Herrmann, Ina, et al. “Canine Macrophages Can like Human Macrophages Be in Vitro Activated toward the M2a Subtype Relevant in Allergy.” Developmental & Comparative Immunology, vol. 82, no. 5, Elsevier, 2018, pp. 118–27, doi:10.1016/j.dci.2018.01.005."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Ina","last_name":"Herrmann","full_name":"Herrmann, Ina"},{"last_name":"Gotovina","full_name":"Gotovina, Jelena","first_name":"Jelena"},{"first_name":"Judit","id":"36432834-F248-11E8-B48F-1D18A9856A87","full_name":"Fazekas-Singer, Judit","orcid":"0000-0002-8777-3502","last_name":"Fazekas-Singer"},{"first_name":"Michael B.","full_name":"Fischer, Michael B.","last_name":"Fischer"},{"first_name":"Karin","full_name":"Hufnagl, Karin","last_name":"Hufnagl"},{"last_name":"Bianchini","full_name":"Bianchini, Rodolfo","first_name":"Rodolfo"},{"full_name":"Jensen-Jarolim, Erika","last_name":"Jensen-Jarolim","first_name":"Erika"}],"article_processing_charge":"No","title":"Canine macrophages can like human macrophages be in vitro activated toward the M2a subtype relevant in allergy","quality_controlled":"1","publisher":"Elsevier","oa":1,"year":"2018","day":"01","publication":"Developmental & Comparative Immunology","page":"118-127","doi":"10.1016/j.dci.2018.01.005","date_published":"2018-05-01T00:00:00Z","date_created":"2020-08-10T11:53:01Z","_id":"8233","type":"journal_article","article_type":"original","status":"public","date_updated":"2021-01-12T08:17:38Z","extern":"1","abstract":[{"text":"The M2a subtype of macrophages plays an important role in human immunoglobulin E (IgE-mediated allergies) and other Th2 type immune reactions. In contrast, very little is known about these cells in the dog. Here we describe an in vitro method to activate canine histiocytic DH82 cells and primary canine monocyte-derived macrophages (MDMs) toward the M2a macrophages using human cytokines. For a side-by-side comparison, we compared the canine cells to human MDMs, and the human monocytic cell line U937 activated towards M1 and M2a cells on the cellular and molecular level. In analogy to activated human M2a cells, canine M2a, differentiated from both DH82 and MDMs, showed an increase in CD206 surface receptor expression compared to M1. Interestingly, canine M2a, but not M1 derived from MDM, upregulated the high-affinity IgE receptor (FcεRI). Transcription levels of M2a-associated genes (IL10, CCL22, TGFβ, CD163) showed a diverse pattern between the human and dog species, whereas M1 genes (IDO1, CXCL11, IL6, TNF-α) were similarly upregulated in canine and human M1 cells (cell lines and MDMs). We suggest that our novel in vitro method will be suitable in comparative allergology studies focussing on macrophages.","lang":"eng"}],"oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.dci.2018.01.005"}],"month":"05","intvolume":" 82","publication_identifier":{"issn":["0145-305X"]},"publication_status":"published","language":[{"iso":"eng"}],"volume":82,"issue":"5"},{"date_updated":"2023-02-23T13:28:52Z","citation":{"ista":"Bochkareva O, Moroz EV, Davydov II, Gelfand MS. 2018. Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp. BMC Genomics. 19, 965.","chicago":"Bochkareva, Olga, Elena V. Moroz, Iakov I. Davydov, and Mikhail S. Gelfand. “Genome Rearrangements and Selection in Multi-Chromosome Bacteria Burkholderia Spp.” BMC Genomics. Springer Nature, 2018. https://doi.org/10.1186/s12864-018-5245-1.","apa":"Bochkareva, O., Moroz, E. V., Davydov, I. I., & Gelfand, M. S. (2018). Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp. BMC Genomics. Springer Nature. https://doi.org/10.1186/s12864-018-5245-1","ama":"Bochkareva O, Moroz EV, Davydov II, Gelfand MS. Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp. BMC Genomics. 2018;19. doi:10.1186/s12864-018-5245-1","short":"O. Bochkareva, E.V. Moroz, I.I. Davydov, M.S. Gelfand, BMC Genomics 19 (2018).","ieee":"O. Bochkareva, E. V. Moroz, I. I. Davydov, and M. S. Gelfand, “Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.,” BMC Genomics, vol. 19. Springer Nature, 2018.","mla":"Bochkareva, Olga, et al. “Genome Rearrangements and Selection in Multi-Chromosome Bacteria Burkholderia Spp.” BMC Genomics, vol. 19, 965, Springer Nature, 2018, doi:10.1186/s12864-018-5245-1."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","article_processing_charge":"No","author":[{"first_name":"Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","orcid":"0000-0003-1006-6639","full_name":"Bochkareva, Olga","last_name":"Bochkareva"},{"last_name":"Moroz","full_name":"Moroz, Elena V.","first_name":"Elena V."},{"full_name":"Davydov, Iakov I.","last_name":"Davydov","first_name":"Iakov I."},{"first_name":"Mikhail S.","last_name":"Gelfand","full_name":"Gelfand, Mikhail S."}],"title":"Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp.","_id":"8262","article_number":"965","type":"journal_article","article_type":"original","status":"public","year":"2018","publication_status":"published","publication_identifier":{"issn":["1471-2164"]},"language":[{"iso":"eng"}],"publication":"BMC Genomics","day":"27","date_created":"2020-08-15T11:02:08Z","date_published":"2018-12-27T00:00:00Z","volume":19,"doi":"10.1186/s12864-018-5245-1","abstract":[{"lang":"eng","text":"Background: The genus Burkholderia consists of species that occupy remarkably diverse ecological niches. Its best known members are important pathogens, B. mallei and B. pseudomallei, which cause glanders and melioidosis, respectively. Burkholderia genomes are unusual due to their multichromosomal organization, generally comprised of 2-3 chromosomes.\r\n\r\nResults: We performed integrated genomic analysis of 127 Burkholderia strains. The pan-genome is open with the saturation to be reached between 86,000 and 88,000 genes. The reconstructed rearrangements indicate a strong avoidance of intra-replichore inversions that is likely caused by selection against the transfer of large groups of genes between the leading and the lagging strands. Translocated genes also tend to retain their position in the leading or the lagging strand, and this selection is stronger for large syntenies. Integrated reconstruction of chromosome rearrangements in the context of strains phylogeny reveals parallel rearrangements that may indicate inversion-based phase variation and integration of new genomic islands. In particular, we detected parallel inversions in the second chromosomes of B. pseudomallei with breakpoints formed by genes encoding membrane components of multidrug resistance complex, that may be linked to a phase variation mechanism. Two genomic islands, spreading horizontally between chromosomes, were detected in the B. cepacia group.\r\n\r\nConclusions: This study demonstrates the power of integrated analysis of pan-genomes, chromosome rearrangements, and selection regimes. Non-random inversion patterns indicate selective pressure, inversions are particularly frequent in a recent pathogen B. mallei, and, together with periods of positive selection at other branches, may indicate adaptation to new niches. One such adaptation could be a possible phase variation mechanism in B. pseudomallei."}],"oa_version":"Published Version","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1186/s12864-018-5245-1"}],"publisher":"Springer Nature","quality_controlled":"1","intvolume":" 19","month":"12"},{"_id":"8265","article_type":"original","type":"journal_article","status":"public","date_updated":"2023-02-23T13:28:57Z","extern":"1","abstract":[{"lang":"eng","text":"Genome rearrangements have played an important role in the evolution of Yersinia pestis from its progenitor Yersinia pseudotuberculosis. Traditional phylogenetic trees for Y. pestis based on sequence comparison have short internal branches and low bootstrap supports as only a small number of nucleotide substitutions have occurred. On the other hand, even a small number of genome rearrangements may resolve topological ambiguities in a phylogenetic tree. We reconstructed phylogenetic trees based on genome rearrangements using several popular approaches such as Maximum likelihood for Gene Order and the Bayesian model of genome rearrangements by inversions. We also reconciled phylogenetic trees for each of the three CRISPR loci to obtain an integrated scenario of the CRISPR cassette evolution. Analysis of contradictions between the obtained evolutionary trees yielded numerous parallel inversions and gain/loss events. Our data indicate that an integrated analysis of sequence-based and inversion-based trees enhances the resolution of phylogenetic reconstruction. In contrast, reconstructions of strain relationships based on solely CRISPR loci may not be reliable, as the history is obscured by large deletions, obliterating the order of spacer gains. Similarly, numerous parallel gene losses preclude reconstruction of phylogeny based on gene content."}],"oa_version":"Published Version","pmid":1,"main_file_link":[{"url":"https://doi.org/10.7717/peerj.4545","open_access":"1"}],"intvolume":" 6","month":"03","publication_status":"published","publication_identifier":{"issn":["2167-8359"]},"language":[{"iso":"eng"}],"volume":6,"article_number":"e4545","citation":{"mla":"Bochkareva, Olga, et al. “Genome Rearrangements and Phylogeny Reconstruction in Yersinia Pestis.” PeerJ, vol. 6, e4545, PeerJ, 2018, doi:10.7717/peerj.4545.","apa":"Bochkareva, O., Dranenko, N. O., Ocheredko, E. S., Kanevsky, G. M., Lozinsky, Y. N., Khalaycheva, V. A., … Gelfand, M. S. (2018). Genome rearrangements and phylogeny reconstruction in Yersinia pestis. PeerJ. PeerJ. https://doi.org/10.7717/peerj.4545","ama":"Bochkareva O, Dranenko NO, Ocheredko ES, et al. Genome rearrangements and phylogeny reconstruction in Yersinia pestis. PeerJ. 2018;6. doi:10.7717/peerj.4545","ieee":"O. Bochkareva et al., “Genome rearrangements and phylogeny reconstruction in Yersinia pestis,” PeerJ, vol. 6. PeerJ, 2018.","short":"O. Bochkareva, N.O. Dranenko, E.S. Ocheredko, G.M. Kanevsky, Y.N. Lozinsky, V.A. Khalaycheva, I.I. Artamonova, M.S. Gelfand, PeerJ 6 (2018).","chicago":"Bochkareva, Olga, Natalia O. Dranenko, Elena S. Ocheredko, German M. Kanevsky, Yaroslav N. Lozinsky, Vera A. Khalaycheva, Irena I. Artamonova, and Mikhail S. Gelfand. “Genome Rearrangements and Phylogeny Reconstruction in Yersinia Pestis.” PeerJ. PeerJ, 2018. https://doi.org/10.7717/peerj.4545.","ista":"Bochkareva O, Dranenko NO, Ocheredko ES, Kanevsky GM, Lozinsky YN, Khalaycheva VA, Artamonova II, Gelfand MS. 2018. Genome rearrangements and phylogeny reconstruction in Yersinia pestis. PeerJ. 6, e4545."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","external_id":{"pmid":["29607260"]},"author":[{"first_name":"Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva","full_name":"Bochkareva, Olga","orcid":"0000-0003-1006-6639"},{"first_name":"Natalia O.","last_name":"Dranenko","full_name":"Dranenko, Natalia O."},{"full_name":"Ocheredko, Elena S.","last_name":"Ocheredko","first_name":"Elena S."},{"first_name":"German M.","last_name":"Kanevsky","full_name":"Kanevsky, German M."},{"first_name":"Yaroslav N.","full_name":"Lozinsky, Yaroslav N.","last_name":"Lozinsky"},{"last_name":"Khalaycheva","full_name":"Khalaycheva, Vera A.","first_name":"Vera A."},{"first_name":"Irena I.","last_name":"Artamonova","full_name":"Artamonova, Irena I."},{"full_name":"Gelfand, Mikhail S.","last_name":"Gelfand","first_name":"Mikhail S."}],"title":"Genome rearrangements and phylogeny reconstruction in Yersinia pestis","oa":1,"quality_controlled":"1","publisher":"PeerJ","year":"2018","publication":"PeerJ","day":"27","date_created":"2020-08-15T11:08:23Z","date_published":"2018-03-27T00:00:00Z","doi":"10.7717/peerj.4545"},{"page":"583-598","date_created":"2020-08-26T11:46:35Z","doi":"10.1109/sp.2018.000-5","date_published":"2018-07-26T00:00:00Z","year":"2018","publication_status":"published","publication_identifier":{"issn":["2375-1207"],"isbn":["9781538643532"]},"language":[{"iso":"eng"}],"publication":"2018 IEEE Symposium on Security and Privacy","day":"26","main_file_link":[{"url":"https://eprint.iacr.org/2017/406","open_access":"1"}],"oa":1,"publisher":"IEEE","quality_controlled":"1","month":"07","abstract":[{"text":"Designing a secure permissionless distributed ledger (blockchain) that performs on par with centralized payment\r\nprocessors, such as Visa, is a challenging task. Most existing distributed ledgers are unable to scale-out, i.e., to grow their totalprocessing capacity with the number of validators; and those that do, compromise security or decentralization. We present OmniLedger, a novel scale-out distributed ledger that preserves longterm security under permissionless operation. It ensures security and correctness by using a bias-resistant public-randomness protocol for choosing large, statistically representative shards that process transactions, and by introducing an efficient crossshard commit protocol that atomically handles transactions affecting multiple shards. OmniLedger also optimizes performance via parallel intra-shard transaction processing, ledger pruning via collectively-signed state blocks, and low-latency “trust-butverify” \r\nvalidation for low-value transactions. An evaluation ofour experimental prototype shows that OmniLedger’s throughput\r\nscales linearly in the number of active validators, supporting Visa-level workloads and beyond, while confirming typical transactions in under two seconds.","lang":"eng"}],"oa_version":"Preprint","article_processing_charge":"No","author":[{"id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30","first_name":"Eleftherios","last_name":"Kokoris Kogias","full_name":"Kokoris Kogias, Eleftherios"},{"last_name":"Jovanovic","full_name":"Jovanovic, Philipp","first_name":"Philipp"},{"full_name":"Gasser, Linus","last_name":"Gasser","first_name":"Linus"},{"last_name":"Gailly","full_name":"Gailly, Nicolas","first_name":"Nicolas"},{"full_name":"Syta, Ewa","last_name":"Syta","first_name":"Ewa"},{"first_name":"Bryan","last_name":"Ford","full_name":"Ford, Bryan"}],"title":"OmniLedger: A secure, scale-out, decentralized ledger via sharding","date_updated":"2021-01-12T08:17:56Z","citation":{"mla":"Kokoris Kogias, Eleftherios, et al. “OmniLedger: A Secure, Scale-out, Decentralized Ledger via Sharding.” 2018 IEEE Symposium on Security and Privacy, IEEE, 2018, pp. 583–98, doi:10.1109/sp.2018.000-5.","ama":"Kokoris Kogias E, Jovanovic P, Gasser L, Gailly N, Syta E, Ford B. OmniLedger: A secure, scale-out, decentralized ledger via sharding. In: 2018 IEEE Symposium on Security and Privacy. IEEE; 2018:583-598. doi:10.1109/sp.2018.000-5","apa":"Kokoris Kogias, E., Jovanovic, P., Gasser, L., Gailly, N., Syta, E., & Ford, B. (2018). OmniLedger: A secure, scale-out, decentralized ledger via sharding. In 2018 IEEE Symposium on Security and Privacy (pp. 583–598). San Francisco, CA, United States: IEEE. https://doi.org/10.1109/sp.2018.000-5","ieee":"E. Kokoris Kogias, P. Jovanovic, L. Gasser, N. Gailly, E. Syta, and B. Ford, “OmniLedger: A secure, scale-out, decentralized ledger via sharding,” in 2018 IEEE Symposium on Security and Privacy, San Francisco, CA, United States, 2018, pp. 583–598.","short":"E. Kokoris Kogias, P. Jovanovic, L. Gasser, N. Gailly, E. Syta, B. Ford, in:, 2018 IEEE Symposium on Security and Privacy, IEEE, 2018, pp. 583–598.","chicago":"Kokoris Kogias, Eleftherios, Philipp Jovanovic, Linus Gasser, Nicolas Gailly, Ewa Syta, and Bryan Ford. “OmniLedger: A Secure, Scale-out, Decentralized Ledger via Sharding.” In 2018 IEEE Symposium on Security and Privacy, 583–98. IEEE, 2018. https://doi.org/10.1109/sp.2018.000-5.","ista":"Kokoris Kogias E, Jovanovic P, Gasser L, Gailly N, Syta E, Ford B. 2018. OmniLedger: A secure, scale-out, decentralized ledger via sharding. 2018 IEEE Symposium on Security and Privacy. SP: Symposium on Security and Privacy, 583–598."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","conference":{"name":"SP: Symposium on Security and Privacy","start_date":"2018-05-20","location":"San Francisco, CA, United States","end_date":"2018-05-24"},"type":"conference","status":"public","_id":"8297"},{"abstract":[{"text":"The cerebral cortex contains multiple hierarchically organized areas with distinctive cytoarchitectonical patterns, but the cellular mechanisms underlying the emergence of this diversity remain unclear. Here, we have quantitatively investigated the neuronal output of individual progenitor cells in the ventricular zone of the developing mouse neocortex using a combination of methods that together circumvent the biases and limitations of individual approaches. We found that individual cortical progenitor cells show a high degree of stochasticity and generate pyramidal cell lineages that adopt a wide range of laminar configurations. Mathematical modelling these lineage data suggests that a small number of progenitor cell populations, each generating pyramidal cells following different stochastic developmental programs, suffice to generate the heterogenous complement of pyramidal cell lineages that collectively build the complex cytoarchitecture of the neocortex.","lang":"eng"}],"acknowledgement":"We thank I. Andrew and S.E. Bae for excellent technical assistance, F. Gage for plasmids, and K. Nave (Nex-Cre) for mouse colonies. We thank members of the Marín and Rico laboratories for stimulating discussions and ideas. Our research on this topic is supported by grants from the European Research Council (ERC-2017-AdG 787355 to O.M and ERC2016-CoG 725780 to S.H.) and Wellcome Trust (103714MA) to O.M. L.L. was the recipient of an EMBO long-term postdoctoral fellowship, R.B. received support from FWF Lise-Meitner program (M 2416) and F.K.W. was supported by an EMBO postdoctoral fellowship and is currently a Marie Skłodowska-Curie Fellow from the European Commission under the H2020 Programme.","oa_version":"Preprint","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/494088"}],"publisher":"Cold Spring Harbor Laboratory","month":"12","publication_status":"submitted","year":"2018","publication":"bioRxiv","language":[{"iso":"eng"}],"day":"13","date_created":"2020-09-21T12:01:50Z","ec_funded":1,"doi":"10.1101/494088","date_published":"2018-12-13T00:00:00Z","_id":"8547","type":"preprint","project":[{"name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","grant_number":"725780","_id":"260018B0-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"name":"Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex","grant_number":"M02416","call_identifier":"FWF","_id":"264E56E2-B435-11E9-9278-68D0E5697425"}],"status":"public","citation":{"ieee":"A. Llorca et al., “Heterogeneous progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture,” bioRxiv. Cold Spring Harbor Laboratory.","short":"A. Llorca, G. Ciceri, R.J. Beattie, F.K. Wong, G. Diana, E. Serafeimidou, M. Fernández-Otero, C. Streicher, S.J. Arnold, M. Meyer, S. Hippenmeyer, M. Maravall, O. Marín, BioRxiv (n.d.).","ama":"Llorca A, Ciceri G, Beattie RJ, et al. Heterogeneous progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture. bioRxiv. doi:10.1101/494088","apa":"Llorca, A., Ciceri, G., Beattie, R. J., Wong, F. K., Diana, G., Serafeimidou, E., … Marín, O. (n.d.). Heterogeneous progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture. bioRxiv. Cold Spring Harbor Laboratory. https://doi.org/10.1101/494088","mla":"Llorca, Alfredo, et al. “Heterogeneous Progenitor Cell Behaviors Underlie the Assembly of Neocortical Cytoarchitecture.” BioRxiv, Cold Spring Harbor Laboratory, doi:10.1101/494088.","ista":"Llorca A, Ciceri G, Beattie RJ, Wong FK, Diana G, Serafeimidou E, Fernández-Otero M, Streicher C, Arnold SJ, Meyer M, Hippenmeyer S, Maravall M, Marín O. Heterogeneous progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture. bioRxiv, 10.1101/494088.","chicago":"Llorca, Alfredo, Gabriele Ciceri, Robert J Beattie, Fong K. Wong, Giovanni Diana, Eleni Serafeimidou, Marian Fernández-Otero, et al. “Heterogeneous Progenitor Cell Behaviors Underlie the Assembly of Neocortical Cytoarchitecture.” BioRxiv. Cold Spring Harbor Laboratory, n.d. https://doi.org/10.1101/494088."},"date_updated":"2021-01-12T08:20:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","author":[{"full_name":"Llorca, Alfredo","last_name":"Llorca","first_name":"Alfredo"},{"first_name":"Gabriele","full_name":"Ciceri, Gabriele","last_name":"Ciceri"},{"first_name":"Robert J","id":"2E26DF60-F248-11E8-B48F-1D18A9856A87","full_name":"Beattie, Robert J","orcid":"0000-0002-8483-8753","last_name":"Beattie"},{"first_name":"Fong K.","full_name":"Wong, Fong K.","last_name":"Wong"},{"last_name":"Diana","full_name":"Diana, Giovanni","first_name":"Giovanni"},{"full_name":"Serafeimidou, Eleni","last_name":"Serafeimidou","first_name":"Eleni"},{"first_name":"Marian","full_name":"Fernández-Otero, Marian","last_name":"Fernández-Otero"},{"id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen","last_name":"Streicher","full_name":"Streicher, Carmen"},{"full_name":"Arnold, Sebastian J.","last_name":"Arnold","first_name":"Sebastian J."},{"full_name":"Meyer, Martin","last_name":"Meyer","first_name":"Martin"},{"orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon","last_name":"Hippenmeyer","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Miguel","last_name":"Maravall","full_name":"Maravall, Miguel"},{"full_name":"Marín, Oscar","last_name":"Marín","first_name":"Oscar"}],"title":"Heterogeneous progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture","department":[{"_id":"SiHi"}]},{"_id":"86","type":"book_chapter","status":"public","date_updated":"2021-01-12T08:20:14Z","ddc":["000"],"file_date_updated":"2020-07-14T12:48:14Z","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"abstract":[{"lang":"eng","text":"Responsiveness—the requirement that every request to a system be eventually handled—is one of the fundamental liveness properties of a reactive system. Average response time is a quantitative measure for the responsiveness requirement used commonly in performance evaluation. We show how average response time can be computed on state-transition graphs, on Markov chains, and on game graphs. In all three cases, we give polynomial-time algorithms."}],"oa_version":"Submitted Version","scopus_import":1,"alternative_title":["LNCS"],"intvolume":" 10760","month":"07","publication_status":"published","language":[{"iso":"eng"}],"file":[{"checksum":"9995c6ce6957333baf616fc4f20be597","file_id":"7053","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_name":"2018_PrinciplesModeling_Chatterjee.pdf","date_created":"2019-11-19T08:22:18Z","creator":"dernst","file_size":516307,"date_updated":"2020-07-14T12:48:14Z"}],"ec_funded":1,"volume":10760,"project":[{"name":"Rigorous Systems Engineering","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","name":"Game Theory"},{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"Z211","name":"The Wittgenstein Prize"},{"name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003","name":"Efficient Algorithms for Computer Aided Verification"}],"citation":{"apa":"Chatterjee, K., Henzinger, T. A., & Otop, J. (2018). Computing average response time. In M. Lohstroh, P. Derler, & M. Sirjani (Eds.), Principles of Modeling (Vol. 10760, pp. 143–161). Springer. https://doi.org/10.1007/978-3-319-95246-8_9","ama":"Chatterjee K, Henzinger TA, Otop J. Computing average response time. In: Lohstroh M, Derler P, Sirjani M, eds. Principles of Modeling. Vol 10760. Springer; 2018:143-161. doi:10.1007/978-3-319-95246-8_9","ieee":"K. Chatterjee, T. A. Henzinger, and J. Otop, “Computing average response time,” in Principles of Modeling, vol. 10760, M. Lohstroh, P. Derler, and M. Sirjani, Eds. Springer, 2018, pp. 143–161.","short":"K. Chatterjee, T.A. Henzinger, J. Otop, in:, M. Lohstroh, P. Derler, M. Sirjani (Eds.), Principles of Modeling, Springer, 2018, pp. 143–161.","mla":"Chatterjee, Krishnendu, et al. “Computing Average Response Time.” Principles of Modeling, edited by Marten Lohstroh et al., vol. 10760, Springer, 2018, pp. 143–61, doi:10.1007/978-3-319-95246-8_9.","ista":"Chatterjee K, Henzinger TA, Otop J. 2018.Computing average response time. In: Principles of Modeling. LNCS, vol. 10760, 143–161.","chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Computing Average Response Time.” In Principles of Modeling, edited by Marten Lohstroh, Patricia Derler, and Marjan Sirjani, 10760:143–61. Springer, 2018. https://doi.org/10.1007/978-3-319-95246-8_9."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee"},{"last_name":"Henzinger","orcid":"0000−0002−2985−7724","full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A"},{"first_name":"Jan","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87","full_name":"Otop, Jan","last_name":"Otop"}],"publist_id":"7968","title":"Computing average response time","editor":[{"last_name":"Lohstroh","full_name":"Lohstroh, Marten","first_name":"Marten"},{"full_name":"Derler, Patricia","last_name":"Derler","first_name":"Patricia"},{"first_name":"Marjan","full_name":"Sirjani, Marjan","last_name":"Sirjani"}],"acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23, S11407-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award), ERC Start grant (279307: Graph Games), Vienna Science and Technology Fund (WWTF) through project ICT15-003 and by the National Science Centre (NCN), Poland under grant 2014/15/D/ST6/04543.","oa":1,"quality_controlled":"1","publisher":"Springer","year":"2018","has_accepted_license":"1","publication":"Principles of Modeling","day":"20","page":"143 - 161","date_created":"2018-12-11T11:44:33Z","date_published":"2018-07-20T00:00:00Z","doi":"10.1007/978-3-319-95246-8_9"},{"citation":{"ista":"Aubret A, Youssef M, Sacanna S, Palacci JA. 2018. Targeted assembly and synchronization of self-spinning microgears. Nature Physics. 14(11), 1114–1118.","chicago":"Aubret, Antoine, Mena Youssef, Stefano Sacanna, and Jérémie A Palacci. “Targeted Assembly and Synchronization of Self-Spinning Microgears.” Nature Physics. Springer Nature, 2018. https://doi.org/10.1038/s41567-018-0227-4.","ieee":"A. Aubret, M. Youssef, S. Sacanna, and J. A. Palacci, “Targeted assembly and synchronization of self-spinning microgears,” Nature Physics, vol. 14, no. 11. Springer Nature, pp. 1114–1118, 2018.","short":"A. Aubret, M. Youssef, S. Sacanna, J.A. Palacci, Nature Physics 14 (2018) 1114–1118.","apa":"Aubret, A., Youssef, M., Sacanna, S., & Palacci, J. A. (2018). Targeted assembly and synchronization of self-spinning microgears. Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-018-0227-4","ama":"Aubret A, Youssef M, Sacanna S, Palacci JA. Targeted assembly and synchronization of self-spinning microgears. Nature Physics. 2018;14(11):1114-1118. doi:10.1038/s41567-018-0227-4","mla":"Aubret, Antoine, et al. “Targeted Assembly and Synchronization of Self-Spinning Microgears.” Nature Physics, vol. 14, no. 11, Springer Nature, 2018, pp. 1114–18, doi:10.1038/s41567-018-0227-4."},"user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","external_id":{"arxiv":["1810.01033"]},"article_processing_charge":"No","author":[{"last_name":"Aubret","full_name":"Aubret, Antoine","first_name":"Antoine"},{"first_name":"Mena","full_name":"Youssef, Mena","last_name":"Youssef"},{"first_name":"Stefano","last_name":"Sacanna","full_name":"Sacanna, Stefano"},{"id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","first_name":"Jérémie A","last_name":"Palacci","full_name":"Palacci, Jérémie A","orcid":"0000-0002-7253-9465"}],"title":"Targeted assembly and synchronization of self-spinning microgears","year":"2018","publication":"Nature Physics","day":"01","page":"1114-1118","date_created":"2021-02-02T13:52:49Z","date_published":"2018-11-01T00:00:00Z","doi":"10.1038/s41567-018-0227-4","oa":1,"quality_controlled":"1","publisher":"Springer Nature","date_updated":"2023-02-23T13:48:02Z","extern":"1","_id":"9062","type":"journal_article","article_type":"original","status":"public","publication_status":"published","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"language":[{"iso":"eng"}],"volume":14,"issue":"11","abstract":[{"lang":"eng","text":"Self-assembly is the autonomous organization of components into patterns or structures: an essential ingredient of biology and a desired route to complex organization1. At equilibrium, the structure is encoded through specific interactions2,3,4,5,6,7,8, at an unfavourable entropic cost for the system. An alternative approach, widely used by nature, uses energy input to bypass the entropy bottleneck and develop features otherwise impossible at equilibrium9. Dissipative building blocks that inject energy locally were made available by recent advances in colloidal science10,11 but have not been used to control self-assembly. Here we show the targeted formation of self-powered microgears from active particles and their autonomous synchronization into dynamical superstructures. We use a photoactive component that consumes fuel, haematite, to devise phototactic microswimmers that form self-spinning microgears following spatiotemporal light patterns. The gears are coupled via their chemical clouds by diffusiophoresis12 and constitute the elementary bricks of synchronized superstructures, which autonomously regulate their dynamics. The results are quantitatively rationalized on the basis of a stochastic description of diffusio-phoretic oscillators dynamically coupled by chemical gradients. Our findings harness non-equilibrium phoretic phenomena to program interactions and direct self-assembly with fidelity and specificity. It lays the groundwork for the autonomous construction of dynamical architectures and functional micro-machinery."}],"oa_version":"Preprint","main_file_link":[{"url":"https://arxiv.org/abs/1810.01033","open_access":"1"}],"scopus_import":"1","intvolume":" 14","month":"11"},{"doi":"10.20388/omp2018.00s1.001","date_published":"2018-06-30T00:00:00Z","date_created":"2021-03-07T23:01:25Z","page":"11","day":"30","publication":"Opera Medica et Physiologica","year":"2018","quality_controlled":"1","publisher":"Lobachevsky State University of Nizhny Novgorod","oa":1,"title":"Diffraction-unlimited optical imaging for synaptic physiology","author":[{"full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973","last_name":"Danzl","first_name":"Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","citation":{"ieee":"J. G. Danzl, “Diffraction-unlimited optical imaging for synaptic physiology,” Opera Medica et Physiologica, vol. 4, no. S1. Lobachevsky State University of Nizhny Novgorod, p. 11, 2018.","short":"J.G. Danzl, Opera Medica et Physiologica 4 (2018) 11.","apa":"Danzl, J. G. (2018). Diffraction-unlimited optical imaging for synaptic physiology. Opera Medica et Physiologica. Lobachevsky State University of Nizhny Novgorod. https://doi.org/10.20388/omp2018.00s1.001","ama":"Danzl JG. Diffraction-unlimited optical imaging for synaptic physiology. Opera Medica et Physiologica. 2018;4(S1):11. doi:10.20388/omp2018.00s1.001","mla":"Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.” Opera Medica et Physiologica, vol. 4, no. S1, Lobachevsky State University of Nizhny Novgorod, 2018, p. 11, doi:10.20388/omp2018.00s1.001.","ista":"Danzl JG. 2018. Diffraction-unlimited optical imaging for synaptic physiology. Opera Medica et Physiologica. 4(S1), 11.","chicago":"Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.” Opera Medica et Physiologica. Lobachevsky State University of Nizhny Novgorod, 2018. https://doi.org/10.20388/omp2018.00s1.001."},"issue":"S1","volume":4,"language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2500-2295"],"issn":["2500-2287"]},"publication_status":"published","month":"06","intvolume":" 4","scopus_import":"1","alternative_title":["Molecular and cellular neuroscience"],"main_file_link":[{"url":"http://operamedphys.org/content/molecular-and-cellular-neuroscience","open_access":"1"}],"oa_version":"Published Version","department":[{"_id":"JoDa"}],"date_updated":"2021-12-03T07:31:05Z","status":"public","article_type":"letter_note","type":"journal_article","_id":"9229"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Avni, Guy, Shibashis Guha, and Orna Kupferman. “Timed Network Games with Clocks,” Vol. 117. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPICS.MFCS.2018.23.","ista":"Avni G, Guha S, Kupferman O. 2018. Timed network games with clocks. MFCS: Mathematical Foundations of Computer Science, LIPIcs, vol. 117, 23.","mla":"Avni, Guy, et al. Timed Network Games with Clocks. Vol. 117, 23, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:10.4230/LIPICS.MFCS.2018.23.","short":"G. Avni, S. Guha, O. Kupferman, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018.","ieee":"G. Avni, S. Guha, and O. Kupferman, “Timed network games with clocks,” presented at the MFCS: Mathematical Foundations of Computer Science, Liverpool, United Kingdom, 2018, vol. 117.","ama":"Avni G, Guha S, Kupferman O. Timed network games with clocks. In: Vol 117. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:10.4230/LIPICS.MFCS.2018.23","apa":"Avni, G., Guha, S., & Kupferman, O. (2018). Timed network games with clocks (Vol. 117). Presented at the MFCS: Mathematical Foundations of Computer Science, Liverpool, United Kingdom: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPICS.MFCS.2018.23"},"title":"Timed network games with clocks","article_processing_charge":"No","author":[{"id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","first_name":"Guy","full_name":"Avni, Guy","orcid":"0000-0001-5588-8287","last_name":"Avni"},{"last_name":"Guha","full_name":"Guha, Shibashis","first_name":"Shibashis"},{"full_name":"Kupferman, Orna","last_name":"Kupferman","first_name":"Orna"}],"article_number":"23","project":[{"call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","grant_number":"S 11407_N23"},{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"The Wittgenstein Prize","grant_number":"Z211"},{"_id":"264B3912-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02369","name":"Formal Methods meets Algorithmic Game Theory"}],"day":"01","year":"2018","has_accepted_license":"1","date_created":"2019-02-14T14:12:09Z","date_published":"2018-08-01T00:00:00Z","doi":"10.4230/LIPICS.MFCS.2018.23","oa":1,"quality_controlled":"1","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","ddc":["000"],"date_updated":"2023-02-23T14:02:58Z","file_date_updated":"2020-07-14T12:47:15Z","department":[{"_id":"ToHe"}],"_id":"6005","status":"public","conference":{"name":"MFCS: Mathematical Foundations of Computer Science","start_date":"2018-08-27","location":"Liverpool, United Kingdom","end_date":"2018-08-31"},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"conference","language":[{"iso":"eng"}],"file":[{"content_type":"application/pdf","access_level":"open_access","relation":"main_file","file_id":"6007","checksum":"41ab2ae9b63f5eb49fa995250c0ba128","date_updated":"2020-07-14T12:47:15Z","file_size":542889,"creator":"dernst","date_created":"2019-02-14T14:22:04Z","file_name":"2018_LIPIcs_Avni.pdf"}],"publication_status":"published","publication_identifier":{"issn":["1868-8969"]},"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"963"}]},"volume":117,"oa_version":"Published Version","abstract":[{"lang":"eng","text":"Network games are widely used as a model for selfish resource-allocation problems. In the classicalmodel, each player selects a path connecting her source and target vertices. The cost of traversingan edge depends on theload; namely, number of players that traverse it. Thus, it abstracts the factthat different users may use a resource at different times and for different durations, which playsan important role in determining the costs of the users in reality. For example, when transmittingpackets in a communication network, routing traffic in a road network, or processing a task in aproduction system, actual sharing and congestion of resources crucially depends on time.In [13], we introducedtimed network games, which add a time component to network games.Each vertexvin the network is associated with a cost function, mapping the load onvto theprice that a player pays for staying invfor one time unit with this load. Each edge in thenetwork is guarded by the time intervals in which it can be traversed, which forces the players tospend time in the vertices. In this work we significantly extend the way time can be referred toin timed network games. In the model we study, the network is equipped withclocks, and, as intimed automata, edges are guarded by constraints on the values of the clocks, and their traversalmay involve a reset of some clocks. We argue that the stronger model captures many realisticnetworks. The addition of clocks breaks the techniques we developed in [13] and we developnew techniques in order to show that positive results on classic network games carry over to thestronger timed setting."}],"intvolume":" 117","month":"08","alternative_title":["LIPIcs"],"scopus_import":"1"},{"volume":20,"issue":"45","language":[{"iso":"eng"}],"publication_identifier":{"issn":["1463-9076"],"eissn":["1463-9084"]},"publication_status":"published","month":"12","intvolume":" 20","scopus_import":"1","main_file_link":[{"url":"https://arxiv.org/abs/1807.05551","open_access":"1"}],"oa_version":"Preprint","pmid":1,"abstract":[{"text":"Estimating the homogeneous ice nucleation rate from undercooled liquid water is crucial for understanding many important physical phenomena and technological applications, and challenging for both experiments and theory. From a theoretical point of view, difficulties arise due to the long time scales required, as well as the numerous nucleation pathways involved to form ice nuclei with different stacking disorders. We computed the homogeneous ice nucleation rate at a physically relevant undercooling for a single-site water model, taking into account the diffuse nature of ice–water interfaces, stacking disorders in ice nuclei, and the addition rate of particles to the critical nucleus. We disentangled and investigated the relative importance of all the terms, including interfacial free energy, entropic contributions and the kinetic prefactor, that contribute to the overall nucleation rate. Breaking down the problem into pieces not only provides physical insights into ice nucleation, but also sheds light on the long-standing discrepancy between different theoretical predictions, as well as between theoretical and experimental determinations of the nucleation rate. Moreover, we pinpoint the main shortcomings and suggest strategies to systematically improve the existing simulation methods.","lang":"eng"}],"extern":"1","date_updated":"2021-08-09T12:36:47Z","status":"public","article_type":"original","type":"journal_article","_id":"9668","date_published":"2018-12-07T00:00:00Z","doi":"10.1039/c8cp04561e","date_created":"2021-07-15T12:51:44Z","page":"28732-28740","day":"07","publication":"Physical Chemistry Chemical Physics","year":"2018","quality_controlled":"1","publisher":"Royal Society of Chemistry","oa":1,"title":"Theoretical prediction of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics","author":[{"orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing"},{"first_name":"Christoph","full_name":"Dellago, Christoph","last_name":"Dellago"},{"first_name":"Michele","full_name":"Ceriotti, Michele","last_name":"Ceriotti"}],"article_processing_charge":"No","external_id":{"arxiv":["1807.05551"],"pmid":["30412211"]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"mla":"Cheng, Bingqing, et al. “Theoretical Prediction of the Homogeneous Ice Nucleation Rate: Disentangling Thermodynamics and Kinetics.” Physical Chemistry Chemical Physics, vol. 20, no. 45, Royal Society of Chemistry, 2018, pp. 28732–40, doi:10.1039/c8cp04561e.","apa":"Cheng, B., Dellago, C., & Ceriotti, M. (2018). Theoretical prediction of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics. Physical Chemistry Chemical Physics. Royal Society of Chemistry. https://doi.org/10.1039/c8cp04561e","ama":"Cheng B, Dellago C, Ceriotti M. Theoretical prediction of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics. Physical Chemistry Chemical Physics. 2018;20(45):28732-28740. doi:10.1039/c8cp04561e","ieee":"B. Cheng, C. Dellago, and M. Ceriotti, “Theoretical prediction of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics,” Physical Chemistry Chemical Physics, vol. 20, no. 45. Royal Society of Chemistry, pp. 28732–28740, 2018.","short":"B. Cheng, C. Dellago, M. Ceriotti, Physical Chemistry Chemical Physics 20 (2018) 28732–28740.","chicago":"Cheng, Bingqing, Christoph Dellago, and Michele Ceriotti. “Theoretical Prediction of the Homogeneous Ice Nucleation Rate: Disentangling Thermodynamics and Kinetics.” Physical Chemistry Chemical Physics. Royal Society of Chemistry, 2018. https://doi.org/10.1039/c8cp04561e.","ista":"Cheng B, Dellago C, Ceriotti M. 2018. Theoretical prediction of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics. Physical Chemistry Chemical Physics. 20(45), 28732–28740."}},{"article_number":"054102","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"chicago":"Cheng, Bingqing, and Michele Ceriotti. “Computing the Absolute Gibbs Free Energy in Atomistic Simulations: Applications to Defects in Solids.” Physical Review B. American Physical Society, 2018. https://doi.org/10.1103/physrevb.97.054102.","ista":"Cheng B, Ceriotti M. 2018. Computing the absolute Gibbs free energy in atomistic simulations: Applications to defects in solids. Physical Review B. 97(5), 054102.","mla":"Cheng, Bingqing, and Michele Ceriotti. “Computing the Absolute Gibbs Free Energy in Atomistic Simulations: Applications to Defects in Solids.” Physical Review B, vol. 97, no. 5, 054102, American Physical Society, 2018, doi:10.1103/physrevb.97.054102.","ieee":"B. Cheng and M. Ceriotti, “Computing the absolute Gibbs free energy in atomistic simulations: Applications to defects in solids,” Physical Review B, vol. 97, no. 5. American Physical Society, 2018.","short":"B. Cheng, M. Ceriotti, Physical Review B 97 (2018).","apa":"Cheng, B., & Ceriotti, M. (2018). Computing the absolute Gibbs free energy in atomistic simulations: Applications to defects in solids. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.97.054102","ama":"Cheng B, Ceriotti M. Computing the absolute Gibbs free energy in atomistic simulations: Applications to defects in solids. Physical Review B. 2018;97(5). doi:10.1103/physrevb.97.054102"},"title":"Computing the absolute Gibbs free energy in atomistic simulations: Applications to defects in solids","article_processing_charge":"No","external_id":{"arxiv":["1710.02815"]},"author":[{"id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing","orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing","last_name":"Cheng"},{"last_name":"Ceriotti","full_name":"Ceriotti, Michele","first_name":"Michele"}],"oa":1,"publisher":"American Physical Society","quality_controlled":"1","publication":"Physical Review B","day":"01","year":"2018","date_created":"2021-07-19T09:39:48Z","date_published":"2018-02-01T00:00:00Z","doi":"10.1103/physrevb.97.054102","_id":"9687","status":"public","type":"journal_article","article_type":"original","extern":"1","date_updated":"2021-08-09T12:38:26Z","oa_version":"Preprint","abstract":[{"text":"The Gibbs free energy is the fundamental thermodynamic potential underlying the relative stability of different states of matter under constant-pressure conditions. However, computing this quantity from atomic-scale simulations is far from trivial, so the potential energy of a system is often used as a proxy. In this paper, we use a combination of thermodynamic integration methods to accurately evaluate the Gibbs free energies associated with defects in crystals, including the vacancy formation energy in bcc iron, and the stacking fault energy in fcc nickel, iron, and cobalt. We quantify the importance of entropic and anharmonic effects in determining the free energies of defects at high temperatures, and show that the potential energy approximation as well as the harmonic approximation may produce inaccurate or even qualitatively wrong results. Our calculations manifest the necessity to employ accurate free energy methods such as thermodynamic integration to estimate the stability of crystallographic defects at high temperatures.","lang":"eng"}],"intvolume":" 97","month":"02","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1710.02815"}],"scopus_import":"1","language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"issue":"5","volume":97},{"abstract":[{"lang":"eng","text":"More than 100 years after Grigg’s influential analysis of species’ borders, the causes of limits to species’ ranges still represent a puzzle that has never been understood with clarity. The topic has become especially important recently as many scientists have become interested in the potential for species’ ranges to shift in response to climate change—and yet nearly all of those studies fail to recognise or incorporate evolutionary genetics in a way that relates to theoretical developments. I show that range margins can be understood based on just two measurable parameters: (i) the fitness cost of dispersal—a measure of environmental heterogeneity—and (ii) the strength of genetic drift, which reduces genetic diversity. Together, these two parameters define an ‘expansion threshold’: adaptation fails when genetic drift reduces genetic diversity below that required for adaptation to a heterogeneous environment. When the key parameters drop below this expansion threshold locally, a sharp range margin forms. When they drop below this threshold throughout the species’ range, adaptation collapses everywhere, resulting in either extinction or formation of a fragmented metapopulation. Because the effects of dispersal differ fundamentally with dimension, the second parameter—the strength of genetic drift—is qualitatively different compared to a linear habitat. In two-dimensional habitats, genetic drift becomes effectively independent of selection. It decreases with ‘neighbourhood size’—the number of individuals accessible by dispersal within one generation. Moreover, in contrast to earlier predictions, which neglected evolution of genetic variance and/or stochasticity in two dimensions, dispersal into small marginal populations aids adaptation. This is because the reduction of both genetic and demographic stochasticity has a stronger effect than the cost of dispersal through increased maladaptation. The expansion threshold thus provides a novel, theoretically justified, and testable prediction for formation of the range margin and collapse of the species’ range."}],"oa_version":"Published Version","scopus_import":1,"month":"06","intvolume":" 16","publication_identifier":{"issn":["15449173"]},"publication_status":"published","file":[{"date_created":"2019-01-22T08:30:03Z","file_name":"2017_PLOS_Polechova.pdf","date_updated":"2020-07-14T12:46:01Z","file_size":6968201,"creator":"dernst","checksum":"908c52751bba30c55ed36789e5e4c84d","file_id":"5870","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"language":[{"iso":"eng"}],"related_material":{"record":[{"relation":"research_data","status":"public","id":"9839"}]},"volume":16,"issue":"6","_id":"315","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"status":"public","date_updated":"2023-02-23T14:10:16Z","ddc":["576"],"file_date_updated":"2020-07-14T12:46:01Z","department":[{"_id":"NiBa"}],"quality_controlled":"1","publisher":"Public Library of Science","oa":1,"has_accepted_license":"1","year":"2018","day":"15","publication":"PLoS Biology","date_published":"2018-06-15T00:00:00Z","doi":"10.1371/journal.pbio.2005372","date_created":"2018-12-11T11:45:46Z","article_number":"e2005372","citation":{"chicago":"Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” PLoS Biology. Public Library of Science, 2018. https://doi.org/10.1371/journal.pbio.2005372.","ista":"Polechova J. 2018. Is the sky the limit? On the expansion threshold of a species’ range. PLoS Biology. 16(6), e2005372.","mla":"Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” PLoS Biology, vol. 16, no. 6, e2005372, Public Library of Science, 2018, doi:10.1371/journal.pbio.2005372.","apa":"Polechova, J. (2018). Is the sky the limit? On the expansion threshold of a species’ range. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.2005372","ama":"Polechova J. Is the sky the limit? On the expansion threshold of a species’ range. PLoS Biology. 2018;16(6). doi:10.1371/journal.pbio.2005372","ieee":"J. Polechova, “Is the sky the limit? On the expansion threshold of a species’ range,” PLoS Biology, vol. 16, no. 6. Public Library of Science, 2018.","short":"J. Polechova, PLoS Biology 16 (2018)."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"7550","author":[{"id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","first_name":"Jitka","last_name":"Polechova","full_name":"Polechova, Jitka","orcid":"0000-0003-0951-3112"}],"title":"Is the sky the limit? On the expansion threshold of a species’ range"},{"quality_controlled":"1","publisher":"Springer Nature","oa":1,"page":"334-392","date_published":"2018-03-18T00:00:00Z","doi":"10.1007/s00039-018-0440-4","date_created":"2020-09-17T10:42:30Z","year":"2018","day":"18","publication":"Geometric and Functional Analysis","author":[{"first_name":"Guan","last_name":"Huang","full_name":"Huang, Guan"},{"id":"FE553552-CDE8-11E9-B324-C0EBE5697425","first_name":"Vadim","last_name":"Kaloshin","orcid":"0000-0002-6051-2628","full_name":"Kaloshin, Vadim"},{"last_name":"Sorrentino","full_name":"Sorrentino, Alfonso","first_name":"Alfonso"}],"article_processing_charge":"No","external_id":{"arxiv":["1705.10601"]},"title":"Nearly circular domains which are integrable close to the boundary are ellipses","citation":{"mla":"Huang, Guan, et al. “Nearly Circular Domains Which Are Integrable Close to the Boundary Are Ellipses.” Geometric and Functional Analysis, vol. 28, no. 2, Springer Nature, 2018, pp. 334–92, doi:10.1007/s00039-018-0440-4.","ieee":"G. Huang, V. Kaloshin, and A. Sorrentino, “Nearly circular domains which are integrable close to the boundary are ellipses,” Geometric and Functional Analysis, vol. 28, no. 2. Springer Nature, pp. 334–392, 2018.","short":"G. Huang, V. Kaloshin, A. Sorrentino, Geometric and Functional Analysis 28 (2018) 334–392.","apa":"Huang, G., Kaloshin, V., & Sorrentino, A. (2018). Nearly circular domains which are integrable close to the boundary are ellipses. Geometric and Functional Analysis. Springer Nature. https://doi.org/10.1007/s00039-018-0440-4","ama":"Huang G, Kaloshin V, Sorrentino A. Nearly circular domains which are integrable close to the boundary are ellipses. Geometric and Functional Analysis. 2018;28(2):334-392. doi:10.1007/s00039-018-0440-4","chicago":"Huang, Guan, Vadim Kaloshin, and Alfonso Sorrentino. “Nearly Circular Domains Which Are Integrable Close to the Boundary Are Ellipses.” Geometric and Functional Analysis. Springer Nature, 2018. https://doi.org/10.1007/s00039-018-0440-4.","ista":"Huang G, Kaloshin V, Sorrentino A. 2018. Nearly circular domains which are integrable close to the boundary are ellipses. Geometric and Functional Analysis. 28(2), 334–392."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1705.10601"}],"month":"03","intvolume":" 28","abstract":[{"lang":"eng","text":"The Birkhoff conjecture says that the boundary of a strictly convex integrable billiard table is necessarily an ellipse. In this article, we consider a stronger notion of integrability, namely integrability close to the boundary, and prove a local version of this conjecture: a small perturbation of an ellipse of small eccentricity which preserves integrability near the boundary, is itself an ellipse. This extends the result in Avila et al. (Ann Math 184:527–558, ADK16), where integrability was assumed on a larger set. In particular, it shows that (local) integrability near the boundary implies global integrability. One of the crucial ideas in the proof consists in analyzing Taylor expansion of the corresponding action-angle coordinates with respect to the eccentricity parameter, deriving and studying higher order conditions for the preservation of integrable rational caustics."}],"oa_version":"Preprint","volume":28,"issue":"2","publication_identifier":{"issn":["1016-443X","1420-8970"]},"publication_status":"published","language":[{"iso":"eng"}],"type":"journal_article","article_type":"original","status":"public","keyword":["Geometry and Topology","Analysis"],"_id":"8422","date_updated":"2021-01-12T08:19:11Z","extern":"1"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"short":"V. Kaloshin, A. Sorrentino, Annals of Mathematics 188 (2018) 315–380.","ieee":"V. Kaloshin and A. Sorrentino, “On the local Birkhoff conjecture for convex billiards,” Annals of Mathematics, vol. 188, no. 1. Annals of Mathematics, Princeton U, pp. 315–380, 2018.","apa":"Kaloshin, V., & Sorrentino, A. (2018). On the local Birkhoff conjecture for convex billiards. Annals of Mathematics. Annals of Mathematics, Princeton U. https://doi.org/10.4007/annals.2018.188.1.6","ama":"Kaloshin V, Sorrentino A. On the local Birkhoff conjecture for convex billiards. Annals of Mathematics. 2018;188(1):315-380. doi:10.4007/annals.2018.188.1.6","mla":"Kaloshin, Vadim, and Alfonso Sorrentino. “On the Local Birkhoff Conjecture for Convex Billiards.” Annals of Mathematics, vol. 188, no. 1, Annals of Mathematics, Princeton U, 2018, pp. 315–80, doi:10.4007/annals.2018.188.1.6.","ista":"Kaloshin V, Sorrentino A. 2018. On the local Birkhoff conjecture for convex billiards. Annals of Mathematics. 188(1), 315–380.","chicago":"Kaloshin, Vadim, and Alfonso Sorrentino. “On the Local Birkhoff Conjecture for Convex Billiards.” Annals of Mathematics. Annals of Mathematics, Princeton U, 2018. https://doi.org/10.4007/annals.2018.188.1.6."},"title":"On the local Birkhoff conjecture for convex billiards","author":[{"first_name":"Vadim","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","last_name":"Kaloshin","full_name":"Kaloshin, Vadim","orcid":"0000-0002-6051-2628"},{"last_name":"Sorrentino","full_name":"Sorrentino, Alfonso","first_name":"Alfonso"}],"external_id":{"arxiv":["1612.09194"]},"article_processing_charge":"No","day":"01","publication":"Annals of Mathematics","year":"2018","date_published":"2018-07-01T00:00:00Z","doi":"10.4007/annals.2018.188.1.6","date_created":"2020-09-17T10:42:22Z","page":"315-380","publisher":"Annals of Mathematics, Princeton U","quality_controlled":"1","oa":1,"extern":"1","date_updated":"2021-01-12T08:19:10Z","_id":"8421","status":"public","keyword":["Statistics","Probability and Uncertainty","Statistics and Probability"],"article_type":"original","type":"journal_article","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0003-486X"]},"publication_status":"published","issue":"1","volume":188,"oa_version":"Preprint","abstract":[{"text":"The classical Birkhoff conjecture claims that the boundary of a strictly convex integrable billiard table is necessarily an ellipse (or a circle as a special case). In this article we prove a complete local version of this conjecture: a small integrable perturbation of an ellipse must be an ellipse. This extends and completes the result in Avila-De Simoi-Kaloshin, where nearly circular domains were considered. One of the crucial ideas in the proof is to extend action-angle coordinates for elliptic billiards into complex domains (with respect to the angle), and to thoroughly analyze the nature of their complex singularities. As an application, we are able to prove some spectral rigidity results for elliptic domains.","lang":"eng"}],"month":"07","intvolume":" 188","main_file_link":[{"url":"https://arxiv.org/abs/1612.09194","open_access":"1"}]},{"_id":"8420","status":"public","keyword":["Mathematical Physics","General Physics and Astronomy","Applied Mathematics","Statistical and Nonlinear Physics"],"article_type":"original","type":"journal_article","extern":"1","date_updated":"2021-01-12T08:19:10Z","oa_version":"Preprint","abstract":[{"lang":"eng","text":"We show that in the space of all convex billiard boundaries, the set of boundaries with rational caustics is dense. More precisely, the set of billiard boundaries with caustics of rotation number 1/q is polynomially sense in the smooth case, and exponentially dense in the analytic case."}],"month":"10","intvolume":" 31","main_file_link":[{"url":"https://arxiv.org/abs/1706.07968","open_access":"1"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["0951-7715","1361-6544"]},"publication_status":"published","volume":31,"issue":"11","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Kaloshin V, Zhang K. 2018. Density of convex billiards with rational caustics. Nonlinearity. 31(11), 5214–5234.","chicago":"Kaloshin, Vadim, and Ke Zhang. “Density of Convex Billiards with Rational Caustics.” Nonlinearity. IOP Publishing, 2018. https://doi.org/10.1088/1361-6544/aadc12.","short":"V. Kaloshin, K. Zhang, Nonlinearity 31 (2018) 5214–5234.","ieee":"V. Kaloshin and K. Zhang, “Density of convex billiards with rational caustics,” Nonlinearity, vol. 31, no. 11. IOP Publishing, pp. 5214–5234, 2018.","apa":"Kaloshin, V., & Zhang, K. (2018). Density of convex billiards with rational caustics. Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/aadc12","ama":"Kaloshin V, Zhang K. Density of convex billiards with rational caustics. Nonlinearity. 2018;31(11):5214-5234. doi:10.1088/1361-6544/aadc12","mla":"Kaloshin, Vadim, and Ke Zhang. “Density of Convex Billiards with Rational Caustics.” Nonlinearity, vol. 31, no. 11, IOP Publishing, 2018, pp. 5214–34, doi:10.1088/1361-6544/aadc12."},"title":"Density of convex billiards with rational caustics","author":[{"full_name":"Kaloshin, Vadim","orcid":"0000-0002-6051-2628","last_name":"Kaloshin","first_name":"Vadim","id":"FE553552-CDE8-11E9-B324-C0EBE5697425"},{"first_name":"Ke","last_name":"Zhang","full_name":"Zhang, Ke"}],"article_processing_charge":"No","external_id":{"arxiv":["1706.07968"]},"quality_controlled":"1","publisher":"IOP Publishing","oa":1,"day":"15","publication":"Nonlinearity","year":"2018","date_published":"2018-10-15T00:00:00Z","doi":"10.1088/1361-6544/aadc12","date_created":"2020-09-17T10:42:09Z","page":"5214-5234"},{"_id":"8426","status":"public","article_type":"original","type":"journal_article","extern":"1","date_updated":"2021-01-12T08:19:11Z","oa_version":"Preprint","abstract":[{"text":"For any strictly convex planar domain Ω ⊂ R2 with a C∞ boundary one can associate an infinite sequence of spectral invariants introduced by Marvizi–Merlose [5]. These invariants can generically be determined using the spectrum of the Dirichlet problem of the Laplace operator. A natural question asks if this collection is sufficient to determine Ω up to isometry. In this paper we give a counterexample, namely, we present two nonisometric domains Ω and Ω¯ with the same collection of Marvizi–Melrose invariants. Moreover, each domain has countably many periodic orbits {Sn}n≥1 (resp. {S¯n}n⩾1) of period going to infinity such that Sn and S¯n have the same period and perimeter for each n.","lang":"eng"}],"month":"02","intvolume":" 23","main_file_link":[{"url":"https://arxiv.org/abs/1801.00952","open_access":"1"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["1560-3547","1468-4845"]},"publication_status":"published","volume":23,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Buhovsky L, Kaloshin V. 2018. Nonisometric domains with the same Marvizi-Melrose invariants. Regular and Chaotic Dynamics. 23, 54–59.","chicago":"Buhovsky, Lev, and Vadim Kaloshin. “Nonisometric Domains with the Same Marvizi-Melrose Invariants.” Regular and Chaotic Dynamics. Springer Nature, 2018. https://doi.org/10.1134/s1560354718010057.","short":"L. Buhovsky, V. Kaloshin, Regular and Chaotic Dynamics 23 (2018) 54–59.","ieee":"L. Buhovsky and V. Kaloshin, “Nonisometric domains with the same Marvizi-Melrose invariants,” Regular and Chaotic Dynamics, vol. 23. Springer Nature, pp. 54–59, 2018.","ama":"Buhovsky L, Kaloshin V. Nonisometric domains with the same Marvizi-Melrose invariants. Regular and Chaotic Dynamics. 2018;23:54-59. doi:10.1134/s1560354718010057","apa":"Buhovsky, L., & Kaloshin, V. (2018). Nonisometric domains with the same Marvizi-Melrose invariants. Regular and Chaotic Dynamics. Springer Nature. https://doi.org/10.1134/s1560354718010057","mla":"Buhovsky, Lev, and Vadim Kaloshin. “Nonisometric Domains with the Same Marvizi-Melrose Invariants.” Regular and Chaotic Dynamics, vol. 23, Springer Nature, 2018, pp. 54–59, doi:10.1134/s1560354718010057."},"title":"Nonisometric domains with the same Marvizi-Melrose invariants","author":[{"first_name":"Lev","full_name":"Buhovsky, Lev","last_name":"Buhovsky"},{"orcid":"0000-0002-6051-2628","full_name":"Kaloshin, Vadim","last_name":"Kaloshin","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","first_name":"Vadim"}],"article_processing_charge":"No","external_id":{"arxiv":["1801.00952"]},"quality_controlled":"1","publisher":"Springer Nature","oa":1,"day":"05","publication":"Regular and Chaotic Dynamics","year":"2018","date_published":"2018-02-05T00:00:00Z","doi":"10.1134/s1560354718010057","date_created":"2020-09-17T10:43:21Z","page":"54-59"},{"scopus_import":"1","main_file_link":[{"url":"https://arxiv.org/abs/1909.11121","open_access":"1"}],"month":"12","intvolume":" 14","abstract":[{"text":"The development of strategies to assemble microscopic machines from dissipative building blocks are essential on the route to novel active materials. We recently demonstrated the hierarchical self-assembly of phoretic microswimmers into self-spinning microgears and their synchronization by diffusiophoretic interactions [Aubret et al., Nat. Phys., 2018]. In this paper, we adopt a pedagogical approach and expose our strategy to control self-assembly and build machines using phoretic phenomena. We notably introduce Highly Inclined Laminated Optical sheets microscopy (HILO) to image and characterize anisotropic and dynamic diffusiophoretic interactions, which cannot be performed by conventional fluorescence microscopy. The dynamics of a (haematite) photocatalytic material immersed in (hydrogen peroxide) fuel under various illumination patterns is first described and quantitatively rationalized by a model of diffusiophoresis, the migration of a colloidal particle in a concentration gradient. It is further exploited to design phototactic microswimmers that direct towards the high intensity of light, as a result of the reorientation of the haematite in a light gradient. We finally show the assembly of self-spinning microgears from colloidal microswimmers and carefully characterize the interactions using HILO techniques. The results are compared with analytical and numerical predictions and agree quantitatively, stressing the important role played by concentration gradients induced by chemical activity to control and design interactions. Because the approach described hereby is generic, this works paves the way for the rational design of machines by controlling phoretic phenomena.","lang":"eng"}],"pmid":1,"oa_version":"Preprint","volume":14,"issue":"47","publication_identifier":{"eissn":["1744-6848"],"issn":["1744-683X"]},"publication_status":"published","language":[{"iso":"eng"}],"article_type":"original","type":"journal_article","status":"public","keyword":["General Chemistry","Condensed Matter Physics"],"_id":"9053","date_updated":"2023-02-23T13:47:43Z","extern":"1","quality_controlled":"1","publisher":"Royal Society of Chemistry ","oa":1,"page":"9577-9588","doi":"10.1039/c8sm01760c","date_published":"2018-12-21T00:00:00Z","date_created":"2021-02-01T13:44:41Z","year":"2018","day":"21","publication":"Soft Matter","author":[{"last_name":"Aubret","full_name":"Aubret, Antoine","first_name":"Antoine"},{"id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","first_name":"Jérémie A","orcid":"0000-0002-7253-9465","full_name":"Palacci, Jérémie A","last_name":"Palacci"}],"article_processing_charge":"No","external_id":{"arxiv":["1909.11121"],"pmid":["30456407"]},"title":"Diffusiophoretic design of self-spinning microgears from colloidal microswimmers","citation":{"ista":"Aubret A, Palacci JA. 2018. Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. Soft Matter. 14(47), 9577–9588.","chicago":"Aubret, Antoine, and Jérémie A Palacci. “Diffusiophoretic Design of Self-Spinning Microgears from Colloidal Microswimmers.” Soft Matter. Royal Society of Chemistry , 2018. https://doi.org/10.1039/c8sm01760c.","ama":"Aubret A, Palacci JA. Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. Soft Matter. 2018;14(47):9577-9588. doi:10.1039/c8sm01760c","apa":"Aubret, A., & Palacci, J. A. (2018). Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. Soft Matter. Royal Society of Chemistry . https://doi.org/10.1039/c8sm01760c","ieee":"A. Aubret and J. A. Palacci, “Diffusiophoretic design of self-spinning microgears from colloidal microswimmers,” Soft Matter, vol. 14, no. 47. Royal Society of Chemistry , pp. 9577–9588, 2018.","short":"A. Aubret, J.A. Palacci, Soft Matter 14 (2018) 9577–9588.","mla":"Aubret, Antoine, and Jérémie A. Palacci. “Diffusiophoretic Design of Self-Spinning Microgears from Colloidal Microswimmers.” Soft Matter, vol. 14, no. 47, Royal Society of Chemistry , 2018, pp. 9577–88, doi:10.1039/c8sm01760c."},"user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425"},{"publication_identifier":{"issn":["0930-7575","1432-0894"]},"publication_status":"published","language":[{"iso":"eng"}],"volume":51,"issue":"3","abstract":[{"lang":"eng","text":"In this study we investigate the scaling of precipitation extremes with temperature in the Mediterranean region by assessing against observations the present day and future regional climate simulations performed in the frame of the HyMeX and MED-CORDEX programs. Over the 1979–2008 period, despite differences in quantitative precipitation simulation across the various models, the change in precipitation extremes with respect to temperature is robust and consistent. The spatial variability of the temperature–precipitation extremes relationship displays a hook shape across the Mediterranean, with negative slope at high temperatures and a slope following Clausius–Clapeyron (CC)-scaling at low temperatures. The temperature at which the slope of the temperature–precipitation extreme relation sharply changes (or temperature break), ranges from about 20 °C in the western Mediterranean to <10 °C in Greece. In addition, this slope is always negative in the arid regions of the Mediterranean. The scaling of the simulated precipitation extremes is insensitive to ocean–atmosphere coupling, while it depends very weakly on the resolution at high temperatures for short precipitation accumulation times. In future climate scenario simulations covering the 2070–2100 period, the temperature break shifts to higher temperatures by a value which is on average the mean regional temperature change due to global warming. The slope of the simulated future temperature–precipitation extremes relationship is close to CC-scaling at temperatures below the temperature break, while at high temperatures, the negative slope is close, but somewhat flatter or steeper, than in the current climate depending on the model. Overall, models predict more intense precipitation extremes in the future. Adjusting the temperature–precipitation extremes relationship in the present climate using the CC law and the temperature shift in the future allows the recovery of the temperature–precipitation extremes relationship in the future climate. This implies negligible regional changes of relative humidity in the future despite the large warming and drying over the Mediterranean. This suggests that the Mediterranean Sea is the primary source of moisture which counteracts the drying and warming impacts on relative humidity in parts of the Mediterranean region."}],"oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1007/s00382-016-3083-x"}],"month":"08","intvolume":" 51","date_updated":"2022-01-24T12:40:40Z","extern":"1","_id":"9136","article_type":"original","type":"journal_article","status":"public","keyword":["Atmospheric Science"],"year":"2018","day":"01","publication":"Climate Dynamics","page":"1237-1257","date_published":"2018-08-01T00:00:00Z","doi":"10.1007/s00382-016-3083-x","date_created":"2021-02-15T14:18:53Z","publisher":"Springer Nature","quality_controlled":"1","oa":1,"citation":{"apa":"Drobinski, P., Silva, N. D., Panthou, G., Bastin, S., Muller, C. J., Ahrens, B., … Torma, C. Z. (2018). Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. Climate Dynamics. Springer Nature. https://doi.org/10.1007/s00382-016-3083-x","ama":"Drobinski P, Silva ND, Panthou G, et al. Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. Climate Dynamics. 2018;51(3):1237-1257. doi:10.1007/s00382-016-3083-x","short":"P. Drobinski, N.D. Silva, G. Panthou, S. Bastin, C.J. Muller, B. Ahrens, M. Borga, D. Conte, G. Fosser, F. Giorgi, I. Güttler, V. Kotroni, L. Li, E. Morin, B. Önol, P. Quintana-Segui, R. Romera, C.Z. Torma, Climate Dynamics 51 (2018) 1237–1257.","ieee":"P. Drobinski et al., “Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios,” Climate Dynamics, vol. 51, no. 3. Springer Nature, pp. 1237–1257, 2018.","mla":"Drobinski, Philippe, et al. “Scaling Precipitation Extremes with Temperature in the Mediterranean: Past Climate Assessment and Projection in Anthropogenic Scenarios.” Climate Dynamics, vol. 51, no. 3, Springer Nature, 2018, pp. 1237–57, doi:10.1007/s00382-016-3083-x.","ista":"Drobinski P, Silva ND, Panthou G, Bastin S, Muller CJ, Ahrens B, Borga M, Conte D, Fosser G, Giorgi F, Güttler I, Kotroni V, Li L, Morin E, Önol B, Quintana-Segui P, Romera R, Torma CZ. 2018. Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. Climate Dynamics. 51(3), 1237–1257.","chicago":"Drobinski, Philippe, Nicolas Da Silva, Gérémy Panthou, Sophie Bastin, Caroline J Muller, Bodo Ahrens, Marco Borga, et al. “Scaling Precipitation Extremes with Temperature in the Mediterranean: Past Climate Assessment and Projection in Anthropogenic Scenarios.” Climate Dynamics. Springer Nature, 2018. https://doi.org/10.1007/s00382-016-3083-x."},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","author":[{"last_name":"Drobinski","full_name":"Drobinski, Philippe","first_name":"Philippe"},{"first_name":"Nicolas Da","full_name":"Silva, Nicolas Da","last_name":"Silva"},{"first_name":"Gérémy","last_name":"Panthou","full_name":"Panthou, Gérémy"},{"first_name":"Sophie","last_name":"Bastin","full_name":"Bastin, Sophie"},{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350","last_name":"Muller"},{"first_name":"Bodo","full_name":"Ahrens, Bodo","last_name":"Ahrens"},{"first_name":"Marco","full_name":"Borga, Marco","last_name":"Borga"},{"last_name":"Conte","full_name":"Conte, Dario","first_name":"Dario"},{"last_name":"Fosser","full_name":"Fosser, Giorgia","first_name":"Giorgia"},{"full_name":"Giorgi, Filippo","last_name":"Giorgi","first_name":"Filippo"},{"full_name":"Güttler, Ivan","last_name":"Güttler","first_name":"Ivan"},{"first_name":"Vassiliki","full_name":"Kotroni, Vassiliki","last_name":"Kotroni"},{"last_name":"Li","full_name":"Li, Laurent","first_name":"Laurent"},{"first_name":"Efrat","last_name":"Morin","full_name":"Morin, Efrat"},{"full_name":"Önol, Bariş","last_name":"Önol","first_name":"Bariş"},{"full_name":"Quintana-Segui, Pere","last_name":"Quintana-Segui","first_name":"Pere"},{"first_name":"Raquel","last_name":"Romera","full_name":"Romera, Raquel"},{"first_name":"Csaba Zsolt","full_name":"Torma, Csaba Zsolt","last_name":"Torma"}],"article_processing_charge":"No","title":"Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios"},{"_id":"9134","status":"public","article_type":"original","type":"journal_article","extern":"1","date_updated":"2022-01-24T12:39:03Z","oa_version":"Published Version","abstract":[{"text":"Several studies have shown the existence of a critical latitude where the dissipation of internal tides is strongly enhanced. Internal tides are internal waves generated by barotropic tidal currents impinging rough topography at the seafloor. Their dissipation and concomitant diapycnal mixing are believed to be important for water masses and the large‐scale ocean circulation. The purpose of this study is to clarify the physical processes at the origin of this strong latitudinal dependence of tidal energy dissipation. We find that different mechanisms are involved equatorward and poleward of the critical latitude. Triadic resonant instabilities are responsible for the dissipation of internal tides equatorward of the critical latitude. In particular, a dominant triad involving the primary internal tide and near‐inertial waves is key. At the critical latitude, the peak of energy dissipation is explained by both increased instability growth rates, and smaller scales of secondary waves thus more prone to break and dissipate their energy. Surprisingly, poleward of the critical latitude, the generation of evanescent waves appears to be crucial. Triadic instabilities have been widely studied, but the transfer of energy to evanescent waves has received comparatively little attention. Our work suggests that the nonlinear transfer of energy from the internal tide to evanescent waves (corresponding to the 2f‐pump mechanism described by Young et al., 2008, https://doi.org/10.1017/S0022112008001742) is an efficient mechanism to dissipate internal tide energy near and poleward of the critical latitude. The theoretical results are confirmed in idealized high‐resolution numerical simulations of a barotropic M2 tide impinging sinusoidal topography in a linearly stratified fluid.","lang":"eng"}],"intvolume":" 123","month":"09","main_file_link":[{"url":"https://doi.org/10.1029/2017JC013591","open_access":"1"}],"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["2169-9275"]},"issue":"9","volume":123,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","citation":{"chicago":"Richet, O., J.-M. Chomaz, and Caroline J Muller. “Internal Tide Dissipation at Topography: Triadic Resonant Instability Equatorward and Evanescent Waves Poleward of the Critical Latitude.” Journal of Geophysical Research: Oceans. American Geophysical Union, 2018. https://doi.org/10.1029/2017jc013591.","ista":"Richet O, Chomaz J-M, Muller CJ. 2018. Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. Journal of Geophysical Research: Oceans. 123(9), 6136–6155.","mla":"Richet, O., et al. “Internal Tide Dissipation at Topography: Triadic Resonant Instability Equatorward and Evanescent Waves Poleward of the Critical Latitude.” Journal of Geophysical Research: Oceans, vol. 123, no. 9, American Geophysical Union, 2018, pp. 6136–55, doi:10.1029/2017jc013591.","short":"O. Richet, J.-M. Chomaz, C.J. Muller, Journal of Geophysical Research: Oceans 123 (2018) 6136–6155.","ieee":"O. Richet, J.-M. Chomaz, and C. J. Muller, “Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude,” Journal of Geophysical Research: Oceans, vol. 123, no. 9. American Geophysical Union, pp. 6136–6155, 2018.","ama":"Richet O, Chomaz J-M, Muller CJ. Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. Journal of Geophysical Research: Oceans. 2018;123(9):6136-6155. doi:10.1029/2017jc013591","apa":"Richet, O., Chomaz, J.-M., & Muller, C. J. (2018). Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. Journal of Geophysical Research: Oceans. American Geophysical Union. https://doi.org/10.1029/2017jc013591"},"title":"Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude","article_processing_charge":"No","author":[{"full_name":"Richet, O.","last_name":"Richet","first_name":"O."},{"first_name":"J.-M.","full_name":"Chomaz, J.-M.","last_name":"Chomaz"},{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350","last_name":"Muller"}],"oa":1,"quality_controlled":"1","publisher":"American Geophysical Union","publication":"Journal of Geophysical Research: Oceans","day":"01","year":"2018","date_created":"2021-02-15T14:17:25Z","doi":"10.1029/2017jc013591","date_published":"2018-09-01T00:00:00Z","page":"6136-6155"},{"volume":115,"issue":"12","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0027-8424","1091-6490"]},"publication_status":"published","month":"03","intvolume":" 115","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1719967115","open_access":"1"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"Idealized simulations of tropical moist convection have revealed that clouds can spontaneously clump together in a process called self-aggregation. This results in a state where a moist cloudy region with intense deep convection is surrounded by extremely dry subsiding air devoid of deep convection. Because of the idealized settings of the simulations where it was discovered, the relevance of self-aggregation to the real world is still debated. Here, we show that self-aggregation feedbacks play a leading-order role in the spontaneous genesis of tropical cyclones in cloud-resolving simulations. Those feedbacks accelerate the cyclogenesis process by a factor of 2, and the feedbacks contributing to the cyclone formation show qualitative and quantitative agreement with the self-aggregation process. Once the cyclone is formed, wind-induced surface heat exchange (WISHE) effects dominate, although we find that self-aggregation feedbacks have a small but nonnegligible contribution to the maintenance of the mature cyclone. Our results suggest that self-aggregation, and the framework developed for its study, can help shed more light into the physical processes leading to cyclogenesis and cyclone intensification. In particular, our results point out the importance of the longwave radiative cooling outside the cyclone."}],"extern":"1","date_updated":"2022-01-24T12:39:49Z","status":"public","keyword":["Multidisciplinary"],"type":"journal_article","article_type":"original","_id":"9135","doi":"10.1073/pnas.1719967115","date_published":"2018-03-20T00:00:00Z","date_created":"2021-02-15T14:18:16Z","page":"2930-2935","day":"20","publication":"Proceedings of the National Academy of Sciences","year":"2018","publisher":"Proceedings of the National Academy of Sciences","quality_controlled":"1","oa":1,"title":"Acceleration of tropical cyclogenesis by self-aggregation feedbacks","author":[{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350","last_name":"Muller"},{"first_name":"David M.","last_name":"Romps","full_name":"Romps, David M."}],"article_processing_charge":"No","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","citation":{"chicago":"Muller, Caroline J, and David M. Romps. “Acceleration of Tropical Cyclogenesis by Self-Aggregation Feedbacks.” Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1719967115.","ista":"Muller CJ, Romps DM. 2018. Acceleration of tropical cyclogenesis by self-aggregation feedbacks. Proceedings of the National Academy of Sciences. 115(12), 2930–2935.","mla":"Muller, Caroline J., and David M. Romps. “Acceleration of Tropical Cyclogenesis by Self-Aggregation Feedbacks.” Proceedings of the National Academy of Sciences, vol. 115, no. 12, Proceedings of the National Academy of Sciences, 2018, pp. 2930–35, doi:10.1073/pnas.1719967115.","apa":"Muller, C. J., & Romps, D. M. (2018). Acceleration of tropical cyclogenesis by self-aggregation feedbacks. Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1719967115","ama":"Muller CJ, Romps DM. Acceleration of tropical cyclogenesis by self-aggregation feedbacks. Proceedings of the National Academy of Sciences. 2018;115(12):2930-2935. doi:10.1073/pnas.1719967115","ieee":"C. J. Muller and D. M. Romps, “Acceleration of tropical cyclogenesis by self-aggregation feedbacks,” Proceedings of the National Academy of Sciences, vol. 115, no. 12. Proceedings of the National Academy of Sciences, pp. 2930–2935, 2018.","short":"C.J. Muller, D.M. Romps, Proceedings of the National Academy of Sciences 115 (2018) 2930–2935."}},{"abstract":[{"text":"The DEMETER (DME) DNA glycosylase catalyzes genome-wide DNA demethylation and is required for endosperm genomic imprinting and embryo viability. Targets of DME-mediated DNA demethylation reside in small, euchromatic, AT-rich transposons and at the boundaries of large transposons, but how DME interacts with these diverse chromatin states is unknown. The STRUCTURE SPECIFIC RECOGNITION PROTEIN 1 (SSRP1) subunit of the chromatin remodeler FACT (facilitates chromatin transactions), was previously shown to be involved in the DME-dependent regulation of genomic imprinting in Arabidopsis endosperm. Therefore, to investigate the interaction between DME and chromatin, we focused on the activity of the two FACT subunits, SSRP1 and SUPPRESSOR of TY16 (SPT16), during reproduction in Arabidopsis. We found that FACT colocalizes with nuclear DME in vivo, and that DME has two classes of target sites, the first being euchromatic and accessible to DME, but the second, representing over half of DME targets, requiring the action of FACT for DME-mediated DNA demethylation genome-wide. Our results show that the FACT-dependent DME targets are GC-rich heterochromatin domains with high nucleosome occupancy enriched with H3K9me2 and H3K27me1. Further, we demonstrate that heterochromatin-associated linker histone H1 specifically mediates the requirement for FACT at a subset of DME-target loci. Overall, our results demonstrate that FACT is required for DME targeting by facilitating its access to heterochromatin.","lang":"eng"}],"pmid":1,"oa_version":"Published Version","scopus_import":"1","intvolume":" 115","month":"05","publication_status":"published","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"language":[{"iso":"eng"}],"file":[{"date_created":"2021-06-07T06:16:38Z","file_name":"2018_PNAS_Frost.pdf","date_updated":"2021-06-07T06:16:38Z","file_size":3045260,"creator":"asandaue","checksum":"810260dc0e3cc3033e15c19ad0dc123e","file_id":"9472","success":1,"content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"volume":115,"related_material":{"link":[{"relation":"earlier_version","url":"https://doi.org/10.1101/187674 "}]},"issue":"20","_id":"9471","tmp":{"short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png"},"type":"journal_article","article_type":"original","keyword":["Multidisciplinary"],"status":"public","date_updated":"2021-12-14T07:53:40Z","ddc":["580"],"extern":"1","file_date_updated":"2021-06-07T06:16:38Z","department":[{"_id":"DaZi"}],"oa":1,"publisher":"National Academy of Sciences","quality_controlled":"1","year":"2018","has_accepted_license":"1","publication":"Proceedings of the National Academy of Sciences","day":"15","page":"E4720-E4729","date_created":"2021-06-07T06:11:28Z","doi":"10.1073/pnas.1713333115","date_published":"2018-05-15T00:00:00Z","citation":{"ista":"Frost JM, Kim MY, Park GT, Hsieh P-H, Nakamura M, Lin SJH, Yoo H, Choi J, Ikeda Y, Kinoshita T, Choi Y, Zilberman D, Fischer RL. 2018. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. 115(20), E4720–E4729.","chicago":"Frost, Jennifer M., M. Yvonne Kim, Guen Tae Park, Ping-Hung Hsieh, Miyuki Nakamura, Samuel J. H. Lin, Hyunjin Yoo, et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1713333115.","short":"J.M. Frost, M.Y. Kim, G.T. Park, P.-H. Hsieh, M. Nakamura, S.J.H. Lin, H. Yoo, J. Choi, Y. Ikeda, T. Kinoshita, Y. Choi, D. Zilberman, R.L. Fischer, Proceedings of the National Academy of Sciences 115 (2018) E4720–E4729.","ieee":"J. M. Frost et al., “FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis,” Proceedings of the National Academy of Sciences, vol. 115, no. 20. National Academy of Sciences, pp. E4720–E4729, 2018.","apa":"Frost, J. M., Kim, M. Y., Park, G. T., Hsieh, P.-H., Nakamura, M., Lin, S. J. H., … Fischer, R. L. (2018). FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1713333115","ama":"Frost JM, Kim MY, Park GT, et al. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. 2018;115(20):E4720-E4729. doi:10.1073/pnas.1713333115","mla":"Frost, Jennifer M., et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” Proceedings of the National Academy of Sciences, vol. 115, no. 20, National Academy of Sciences, 2018, pp. E4720–29, doi:10.1073/pnas.1713333115."},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","article_processing_charge":"No","external_id":{"pmid":["29712855"]},"author":[{"first_name":"Jennifer M.","full_name":"Frost, Jennifer M.","last_name":"Frost"},{"first_name":"M. Yvonne","last_name":"Kim","full_name":"Kim, M. Yvonne"},{"full_name":"Park, Guen Tae","last_name":"Park","first_name":"Guen Tae"},{"full_name":"Hsieh, Ping-Hung","last_name":"Hsieh","first_name":"Ping-Hung"},{"last_name":"Nakamura","full_name":"Nakamura, Miyuki","first_name":"Miyuki"},{"full_name":"Lin, Samuel J. H.","last_name":"Lin","first_name":"Samuel J. H."},{"full_name":"Yoo, Hyunjin","last_name":"Yoo","first_name":"Hyunjin"},{"first_name":"Jaemyung","full_name":"Choi, Jaemyung","last_name":"Choi"},{"first_name":"Yoko","last_name":"Ikeda","full_name":"Ikeda, Yoko"},{"first_name":"Tetsu","last_name":"Kinoshita","full_name":"Kinoshita, Tetsu"},{"last_name":"Choi","full_name":"Choi, Yeonhee","first_name":"Yeonhee"},{"full_name":"Zilberman, Daniel","orcid":"0000-0002-0123-8649","last_name":"Zilberman","first_name":"Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"},{"first_name":"Robert L.","last_name":"Fischer","full_name":"Fischer, Robert L."}],"title":"FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis"},{"month":"03","intvolume":" 2","publisher":"American Physical Society","quality_controlled":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1801.09278"}],"oa_version":"Preprint","abstract":[{"text":"Electrostatic charging of insulating fine particles can be responsible for numerous phenomena ranging from lightning in volcanic plumes to dust explosions. However, even basic aspects of how fine particles become charged are still unclear. Studying particle charging is challenging because it usually involves the complexities associated with many-particle collisions. To address these issues, we introduce a method based on acoustic levitation, which makes it possible to initiate sequences of repeated collisions of a single submillimeter particle with a flat plate, and to precisely measure the particle charge in situ after each collision. We show that collisional charge transfer between insulators is dependent on the hydrophobicity of the contacting surfaces. We use glass, which we modify by attaching nonpolar molecules to the particle, the plate, or both. We find that hydrophilic surfaces develop significant positive charges after contacting hydrophobic surfaces. Moreover, we demonstrate that charging between a hydrophilic and a hydrophobic surface is suppressed in an acidic environment and enhanced in a basic one. Application of an electric field during each collision is found to modify the charge transfer, again depending on surface hydrophobicity. We discuss these results within the context of contact charging due to ion transfer, and we show that they lend strong support to OH− ions as the charge carriers.","lang":"eng"}],"date_published":"2018-03-29T00:00:00Z","doi":"10.1103/PhysRevMaterials.2.035602","issue":"3","volume":2,"date_created":"2018-12-11T11:44:36Z","day":"29","publication":"Physical Review Materials","language":[{"iso":"eng"}],"year":"2018","publication_status":"published","status":"public","type":"journal_article","article_number":"035602","_id":"95","title":"Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer","publist_id":"7959","author":[{"full_name":"Lee, Victor","last_name":"Lee","first_name":"Victor"},{"first_name":"Nicole","last_name":"James","full_name":"James, Nicole"},{"id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","first_name":"Scott R","last_name":"Waitukaitis","orcid":"0000-0002-2299-3176","full_name":"Waitukaitis, Scott R"},{"full_name":"Jaeger, Heinrich","last_name":"Jaeger","first_name":"Heinrich"}],"external_id":{"arxiv":["1801.09278"]},"extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:22:09Z","citation":{"short":"V. Lee, N. James, S.R. Waitukaitis, H. Jaeger, Physical Review Materials 2 (2018).","ieee":"V. Lee, N. James, S. R. Waitukaitis, and H. Jaeger, “Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer,” Physical Review Materials, vol. 2, no. 3. American Physical Society, 2018.","ama":"Lee V, James N, Waitukaitis SR, Jaeger H. Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. Physical Review Materials. 2018;2(3). doi:10.1103/PhysRevMaterials.2.035602","apa":"Lee, V., James, N., Waitukaitis, S. R., & Jaeger, H. (2018). Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. Physical Review Materials. American Physical Society. https://doi.org/10.1103/PhysRevMaterials.2.035602","mla":"Lee, Victor, et al. “Collisional Charging of Individual Submillimeter Particles: Using Ultrasonic Levitation to Initiate and Track Charge Transfer.” Physical Review Materials, vol. 2, no. 3, 035602, American Physical Society, 2018, doi:10.1103/PhysRevMaterials.2.035602.","ista":"Lee V, James N, Waitukaitis SR, Jaeger H. 2018. Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. Physical Review Materials. 2(3), 035602.","chicago":"Lee, Victor, Nicole James, Scott R Waitukaitis, and Heinrich Jaeger. “Collisional Charging of Individual Submillimeter Particles: Using Ultrasonic Levitation to Initiate and Track Charge Transfer.” Physical Review Materials. American Physical Society, 2018. https://doi.org/10.1103/PhysRevMaterials.2.035602."}},{"page":"692-716","doi":"10.1002/rsa.20814","date_published":"2018-12-01T00:00:00Z","date_created":"2021-06-18T12:37:40Z","year":"2018","day":"01","publication":"Random Structures and Algorithms","quality_controlled":"1","publisher":"Wiley","oa":1,"author":[{"full_name":"Krivelevich, Michael","last_name":"Krivelevich","first_name":"Michael"},{"first_name":"Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","last_name":"Kwan","full_name":"Kwan, Matthew Alan","orcid":"0000-0002-4003-7567"},{"first_name":"Po‐Shen","full_name":"Loh, Po‐Shen","last_name":"Loh"},{"last_name":"Sudakov","full_name":"Sudakov, Benny","first_name":"Benny"}],"article_processing_charge":"No","external_id":{"arxiv":["1708.01054"]},"title":"The random k‐matching‐free process","citation":{"mla":"Krivelevich, Michael, et al. “The Random K‐matching‐free Process.” Random Structures and Algorithms, vol. 53, no. 4, Wiley, 2018, pp. 692–716, doi:10.1002/rsa.20814.","apa":"Krivelevich, M., Kwan, M. A., Loh, P., & Sudakov, B. (2018). The random k‐matching‐free process. Random Structures and Algorithms. Wiley. https://doi.org/10.1002/rsa.20814","ama":"Krivelevich M, Kwan MA, Loh P, Sudakov B. The random k‐matching‐free process. Random Structures and Algorithms. 2018;53(4):692-716. doi:10.1002/rsa.20814","short":"M. Krivelevich, M.A. Kwan, P. Loh, B. Sudakov, Random Structures and Algorithms 53 (2018) 692–716.","ieee":"M. Krivelevich, M. A. Kwan, P. Loh, and B. Sudakov, “The random k‐matching‐free process,” Random Structures and Algorithms, vol. 53, no. 4. Wiley, pp. 692–716, 2018.","chicago":"Krivelevich, Michael, Matthew Alan Kwan, Po‐Shen Loh, and Benny Sudakov. “The Random K‐matching‐free Process.” Random Structures and Algorithms. Wiley, 2018. https://doi.org/10.1002/rsa.20814.","ista":"Krivelevich M, Kwan MA, Loh P, Sudakov B. 2018. The random k‐matching‐free process. Random Structures and Algorithms. 53(4), 692–716."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","volume":53,"issue":"4","publication_identifier":{"eissn":["1098-2418"],"issn":["1042-9832"]},"publication_status":"published","language":[{"iso":"eng"}],"scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1708.01054"}],"month":"12","intvolume":" 53","abstract":[{"lang":"eng","text":"Let P be a graph property which is preserved by removal of edges, and consider the random graph process that starts with the empty n-vertex graph and then adds edges one-by-one, each chosen uniformly at random subject to the constraint that P is not violated. These types of random processes have been the subject of extensive research over the last 20 years, having striking applications in extremal combinatorics, and leading to the discovery of important probabilistic tools. In this paper we consider the k-matching-free process, where P is the property of not containing a matching of size k. We are able to analyse the behaviour of this process for a wide range of values of k; in particular we prove that if k=o(n) or if n−2k=o(n−−√/logn) then this process is likely to terminate in a k-matching-free graph with the maximum possible number of edges, as characterised by Erdős and Gallai. We also show that these bounds on k are essentially best possible, and we make a first step towards understanding the behaviour of the process in the intermediate regime."}],"oa_version":"Preprint","date_updated":"2023-02-23T14:01:07Z","extern":"1","article_type":"original","type":"journal_article","status":"public","_id":"9567"},{"day":"01","publication":"Random Structures and Algorithms","year":"2018","doi":"10.1002/rsa.20815","date_published":"2018-12-01T00:00:00Z","date_created":"2021-06-18T12:06:28Z","page":"592-603","publisher":"Wiley","quality_controlled":"1","oa":1,"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"ista":"Ferber A, Kwan MA, Sudakov B. 2018. Counting Hamilton cycles in sparse random directed graphs. Random Structures and Algorithms. 53(4), 592–603.","chicago":"Ferber, Asaf, Matthew Alan Kwan, and Benny Sudakov. “Counting Hamilton Cycles in Sparse Random Directed Graphs.” Random Structures and Algorithms. Wiley, 2018. https://doi.org/10.1002/rsa.20815.","apa":"Ferber, A., Kwan, M. A., & Sudakov, B. (2018). Counting Hamilton cycles in sparse random directed graphs. Random Structures and Algorithms. Wiley. https://doi.org/10.1002/rsa.20815","ama":"Ferber A, Kwan MA, Sudakov B. Counting Hamilton cycles in sparse random directed graphs. Random Structures and Algorithms. 2018;53(4):592-603. doi:10.1002/rsa.20815","ieee":"A. Ferber, M. A. Kwan, and B. Sudakov, “Counting Hamilton cycles in sparse random directed graphs,” Random Structures and Algorithms, vol. 53, no. 4. Wiley, pp. 592–603, 2018.","short":"A. Ferber, M.A. Kwan, B. Sudakov, Random Structures and Algorithms 53 (2018) 592–603.","mla":"Ferber, Asaf, et al. “Counting Hamilton Cycles in Sparse Random Directed Graphs.” Random Structures and Algorithms, vol. 53, no. 4, Wiley, 2018, pp. 592–603, doi:10.1002/rsa.20815."},"title":"Counting Hamilton cycles in sparse random directed graphs","author":[{"last_name":"Ferber","full_name":"Ferber, Asaf","first_name":"Asaf"},{"first_name":"Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","full_name":"Kwan, Matthew Alan","orcid":"0000-0002-4003-7567","last_name":"Kwan"},{"first_name":"Benny","full_name":"Sudakov, Benny","last_name":"Sudakov"}],"external_id":{"arxiv":["1708.07746"]},"article_processing_charge":"No","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1098-2418"],"issn":["1042-9832"]},"publication_status":"published","issue":"4","volume":53,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"Let D(n,p) be the random directed graph on n vertices where each of the n(n-1) possible arcs is present independently with probability p. A celebrated result of Frieze shows that if p≥(logn+ω(1))/n then D(n,p) typically has a directed Hamilton cycle, and this is best possible. In this paper, we obtain a strengthening of this result, showing that under the same condition, the number of directed Hamilton cycles in D(n,p) is typically n!(p(1+o(1)))n. We also prove a hitting-time version of this statement, showing that in the random directed graph process, as soon as every vertex has in-/out-degrees at least 1, there are typically n!(logn/n(1+o(1)))n directed Hamilton cycles."}],"month":"12","intvolume":" 53","scopus_import":"1","main_file_link":[{"url":"https://arxiv.org/abs/1708.07746","open_access":"1"}],"extern":"1","date_updated":"2023-02-23T14:01:03Z","_id":"9565","status":"public","type":"journal_article","article_type":"original"},{"oa":1,"publisher":"Wiley","quality_controlled":"1","publication":"Random Structures and Algorithms","day":"01","year":"2018","date_created":"2021-06-18T12:47:25Z","date_published":"2018-03-01T00:00:00Z","doi":"10.1002/rsa.20742","page":"181-196","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"mla":"Kwan, Matthew Alan, and Benny Sudakov. “Intercalates and Discrepancy in Random Latin Squares.” Random Structures and Algorithms, vol. 52, no. 2, Wiley, 2018, pp. 181–96, doi:10.1002/rsa.20742.","ieee":"M. A. Kwan and B. Sudakov, “Intercalates and discrepancy in random Latin squares,” Random Structures and Algorithms, vol. 52, no. 2. Wiley, pp. 181–196, 2018.","short":"M.A. Kwan, B. Sudakov, Random Structures and Algorithms 52 (2018) 181–196.","ama":"Kwan MA, Sudakov B. Intercalates and discrepancy in random Latin squares. Random Structures and Algorithms. 2018;52(2):181-196. doi:10.1002/rsa.20742","apa":"Kwan, M. A., & Sudakov, B. (2018). Intercalates and discrepancy in random Latin squares. Random Structures and Algorithms. Wiley. https://doi.org/10.1002/rsa.20742","chicago":"Kwan, Matthew Alan, and Benny Sudakov. “Intercalates and Discrepancy in Random Latin Squares.” Random Structures and Algorithms. Wiley, 2018. https://doi.org/10.1002/rsa.20742.","ista":"Kwan MA, Sudakov B. 2018. Intercalates and discrepancy in random Latin squares. Random Structures and Algorithms. 52(2), 181–196."},"title":"Intercalates and discrepancy in random Latin squares","article_processing_charge":"No","external_id":{"arxiv":["1607.04981"]},"author":[{"first_name":"Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","last_name":"Kwan","orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan"},{"first_name":"Benny","last_name":"Sudakov","full_name":"Sudakov, Benny"}],"oa_version":"Preprint","abstract":[{"lang":"eng","text":"An intercalate in a Latin square is a 2×2 Latin subsquare. Let N be the number of intercalates in a uniformly random n×n Latin square. We prove that asymptotically almost surely N≥(1−o(1))n2/4, and that EN≤(1+o(1))n2/2 (therefore asymptotically almost surely N≤fn2 for any f→∞). This significantly improves the previous best lower and upper bounds. We also give an upper tail bound for the number of intercalates in two fixed rows of a random Latin square. In addition, we discuss a problem of Linial and Luria on low-discrepancy Latin squares."}],"intvolume":" 52","month":"03","main_file_link":[{"url":"https://arxiv.org/abs/1607.04981","open_access":"1"}],"scopus_import":"1","language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["1042-9832"],"eissn":["1098-2418"]},"issue":"2","volume":52,"_id":"9568","status":"public","type":"journal_article","article_type":"original","extern":"1","date_updated":"2023-02-23T14:01:09Z"},{"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["0097-3165"]},"volume":156,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We say a family of sets is intersecting if any two of its sets intersect, and we say it is trivially intersecting if there is an element which appears in every set of the family. In this paper we study the maximum size of a non-trivially intersecting family in a natural “multi-part” setting. Here the ground set is divided into parts, and one considers families of sets whose intersection with each part is of a prescribed size. Our work is motivated by classical results in the single-part setting due to Erdős, Ko and Rado, and Hilton and Milner, and by a theorem of Frankl concerning intersecting families in this multi-part setting. In the case where the part sizes are sufficiently large we determine the maximum size of a non-trivially intersecting multi-part family, disproving a conjecture of Alon and Katona."}],"intvolume":" 156","month":"05","main_file_link":[{"url":"https://arxiv.org/abs/1703.09946","open_access":"1"}],"scopus_import":"1","extern":"1","date_updated":"2023-02-23T14:01:55Z","_id":"9587","status":"public","type":"journal_article","article_type":"original","publication":"Journal of Combinatorial Theory Series A","day":"01","year":"2018","date_created":"2021-06-22T11:42:48Z","doi":"10.1016/j.jcta.2017.12.001","date_published":"2018-05-01T00:00:00Z","page":"44-60","oa":1,"publisher":"Elsevier","quality_controlled":"1","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"short":"M.A. Kwan, B. Sudakov, P. Vieira, Journal of Combinatorial Theory Series A 156 (2018) 44–60.","ieee":"M. A. Kwan, B. Sudakov, and P. Vieira, “Non-trivially intersecting multi-part families,” Journal of Combinatorial Theory Series A, vol. 156. Elsevier, pp. 44–60, 2018.","apa":"Kwan, M. A., Sudakov, B., & Vieira, P. (2018). Non-trivially intersecting multi-part families. Journal of Combinatorial Theory Series A. Elsevier. https://doi.org/10.1016/j.jcta.2017.12.001","ama":"Kwan MA, Sudakov B, Vieira P. Non-trivially intersecting multi-part families. Journal of Combinatorial Theory Series A. 2018;156:44-60. doi:10.1016/j.jcta.2017.12.001","mla":"Kwan, Matthew Alan, et al. “Non-Trivially Intersecting Multi-Part Families.” Journal of Combinatorial Theory Series A, vol. 156, Elsevier, 2018, pp. 44–60, doi:10.1016/j.jcta.2017.12.001.","ista":"Kwan MA, Sudakov B, Vieira P. 2018. Non-trivially intersecting multi-part families. Journal of Combinatorial Theory Series A. 156, 44–60.","chicago":"Kwan, Matthew Alan, Benny Sudakov, and Pedro Vieira. “Non-Trivially Intersecting Multi-Part Families.” Journal of Combinatorial Theory Series A. Elsevier, 2018. https://doi.org/10.1016/j.jcta.2017.12.001."},"title":"Non-trivially intersecting multi-part families","external_id":{"arxiv":["1703.09946"]},"article_processing_charge":"No","author":[{"id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","first_name":"Matthew Alan","orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan","last_name":"Kwan"},{"first_name":"Benny","last_name":"Sudakov","full_name":"Sudakov, Benny"},{"first_name":"Pedro","last_name":"Vieira","full_name":"Vieira, Pedro"}]},{"issue":"22","volume":120,"publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"publication_status":"published","language":[{"iso":"eng"}],"scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1803.00600"}],"month":"06","intvolume":" 120","abstract":[{"lang":"eng","text":"We investigate the thermodynamics and kinetics of a hydrogen interstitial in magnetic α-iron, taking account of the quantum fluctuations of the proton as well as the anharmonicities of lattice vibrations and hydrogen hopping. We show that the diffusivity of hydrogen in the lattice of bcc iron deviates strongly from an Arrhenius behavior at and below room temperature. We compare a quantum transition state theory to explicit ring polymer molecular dynamics in the calculation of diffusivity. We then address the trapping of hydrogen by a vacancy as a prototype lattice defect. By a sequence of steps in a thought experiment, each involving a thermodynamic integration, we are able to separate out the binding free energy of a proton to a defect into harmonic and anharmonic, and classical and quantum contributions. We find that about 30% of a typical binding free energy of hydrogen to a lattice defect in iron is accounted for by finite temperature effects, and about half of these arise from quantum proton fluctuations. This has huge implications for the comparison between thermal desorption and permeation experiments and standard electronic structure theory. The implications are even greater for the interpretation of muon spin resonance experiments."}],"pmid":1,"oa_version":"Preprint","date_updated":"2021-08-09T12:36:22Z","extern":"1","article_type":"review","type":"journal_article","status":"public","_id":"9665","date_published":"2018-06-01T00:00:00Z","doi":"10.1103/physrevlett.120.225901","date_created":"2021-07-15T12:22:41Z","year":"2018","day":"01","publication":"Physical Review Letters","quality_controlled":"1","publisher":"American Physical Society","oa":1,"author":[{"orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing","last_name":"Cheng","first_name":"Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9"},{"first_name":"Anthony T.","last_name":"Paxton","full_name":"Paxton, Anthony T."},{"first_name":"Michele","last_name":"Ceriotti","full_name":"Ceriotti, Michele"}],"external_id":{"arxiv":["1803.00600"],"pmid":["29906144"]},"article_processing_charge":"No","title":"Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic fluctuations","citation":{"ama":"Cheng B, Paxton AT, Ceriotti M. Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic fluctuations. Physical Review Letters. 2018;120(22). doi:10.1103/physrevlett.120.225901","apa":"Cheng, B., Paxton, A. T., & Ceriotti, M. (2018). Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic fluctuations. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.120.225901","short":"B. Cheng, A.T. Paxton, M. Ceriotti, Physical Review Letters 120 (2018).","ieee":"B. Cheng, A. T. Paxton, and M. Ceriotti, “Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic fluctuations,” Physical Review Letters, vol. 120, no. 22. American Physical Society, 2018.","mla":"Cheng, Bingqing, et al. “Hydrogen Diffusion and Trapping in α-Iron: The Role of Quantum and Anharmonic Fluctuations.” Physical Review Letters, vol. 120, no. 22, 225901, American Physical Society, 2018, doi:10.1103/physrevlett.120.225901.","ista":"Cheng B, Paxton AT, Ceriotti M. 2018. Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic fluctuations. Physical Review Letters. 120(22), 225901.","chicago":"Cheng, Bingqing, Anthony T. Paxton, and Michele Ceriotti. “Hydrogen Diffusion and Trapping in α-Iron: The Role of Quantum and Anharmonic Fluctuations.” Physical Review Letters. American Physical Society, 2018. https://doi.org/10.1103/physrevlett.120.225901."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","article_number":"225901"},{"date_updated":"2023-02-23T14:03:57Z","extern":"1","_id":"9659","article_type":"original","type":"journal_article","status":"public","publication_status":"published","publication_identifier":{"issn":["0021-9606"],"eissn":["1089-7690"]},"language":[{"iso":"eng"}],"volume":148,"issue":"23","abstract":[{"text":"The curvature dependence of interfacial free energy, which is crucial in quantitatively predicting nucleation kinetics and the stability of bubbles and droplets, is quantified by the Tolman length δ. For solid-liquid interfaces, however, δ has never been computed directly due to various theoretical and practical challenges. Here we perform a direct evaluation of the Tolman length from atomistic simulations of a solid-liquid planar interface in out-of-equilibrium conditions, by first computing the surface tension from the amplitude of thermal capillary fluctuations of a localized version of the Gibbs dividing surface and by then calculating how much the surface energy changes when it is defined relative to the equimolar dividing surface. We computed δ for a model potential, and found a good agreement with the values indirectly inferred from nucleation simulations. The agreement not only validates our approach but also suggests that the nucleation free energy of the system can be perfectly described using classical nucleation theory if the Tolman length is taken into account.","lang":"eng"}],"pmid":1,"oa_version":"Submitted Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1063/1.5038396"}],"scopus_import":"1","intvolume":" 148","month":"06","citation":{"mla":"Cheng, Bingqing, and Michele Ceriotti. “Communication: Computing the Tolman Length for Solid-Liquid Interfaces.” The Journal of Chemical Physics, vol. 148, no. 23, 231102, AIP Publishing, 2018, doi:10.1063/1.5038396.","short":"B. Cheng, M. Ceriotti, The Journal of Chemical Physics 148 (2018).","ieee":"B. Cheng and M. Ceriotti, “Communication: Computing the Tolman length for solid-liquid interfaces,” The Journal of Chemical Physics, vol. 148, no. 23. AIP Publishing, 2018.","ama":"Cheng B, Ceriotti M. Communication: Computing the Tolman length for solid-liquid interfaces. The Journal of Chemical Physics. 2018;148(23). doi:10.1063/1.5038396","apa":"Cheng, B., & Ceriotti, M. (2018). Communication: Computing the Tolman length for solid-liquid interfaces. The Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/1.5038396","chicago":"Cheng, Bingqing, and Michele Ceriotti. “Communication: Computing the Tolman Length for Solid-Liquid Interfaces.” The Journal of Chemical Physics. AIP Publishing, 2018. https://doi.org/10.1063/1.5038396.","ista":"Cheng B, Ceriotti M. 2018. Communication: Computing the Tolman length for solid-liquid interfaces. The Journal of Chemical Physics. 148(23), 231102."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","article_processing_charge":"No","external_id":{"arxiv":["1803.09140"],"pmid":["29935495"]},"author":[{"last_name":"Cheng","orcid":"0000-0002-3584-9632","full_name":"Cheng, Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing"},{"last_name":"Ceriotti","full_name":"Ceriotti, Michele","first_name":"Michele"}],"title":"Communication: Computing the Tolman length for solid-liquid interfaces","article_number":"231102","year":"2018","publication":"The Journal of Chemical Physics","day":"21","date_created":"2021-07-15T07:51:42Z","date_published":"2018-06-21T00:00:00Z","doi":"10.1063/1.5038396","oa":1,"quality_controlled":"1","publisher":"AIP Publishing"},{"oa":1,"quality_controlled":"1","publisher":"Wiley","date_created":"2023-02-20T08:13:14Z","date_published":"2018-11-26T00:00:00Z","doi":"10.1002/hyp.13354","page":"214-229","publication":"Hydrological Processes","day":"26","year":"2018","title":"Interannual variability in glacier contribution to runoff from a high‐elevation Andean catchment: Understanding the role of debris cover in glacier hydrology","article_processing_charge":"No","author":[{"first_name":"Flavia","last_name":"Burger","full_name":"Burger, Flavia"},{"full_name":"Ayala, Alvaro","last_name":"Ayala","first_name":"Alvaro"},{"full_name":"Farias, David","last_name":"Farias","first_name":"David"},{"last_name":"Shaw","full_name":"Shaw, Thomas E.","first_name":"Thomas E."},{"first_name":"Shelley","last_name":"MacDonell","full_name":"MacDonell, Shelley"},{"first_name":"Ben","full_name":"Brock, Ben","last_name":"Brock"},{"full_name":"McPhee, James","last_name":"McPhee","first_name":"James"},{"full_name":"Pellicciotti, Francesca","last_name":"Pellicciotti","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Burger, Flavia, et al. “Interannual Variability in Glacier Contribution to Runoff from a High‐elevation Andean Catchment: Understanding the Role of Debris Cover in Glacier Hydrology.” Hydrological Processes, vol. 33, no. 2, Wiley, 2018, pp. 214–29, doi:10.1002/hyp.13354.","short":"F. Burger, A. Ayala, D. Farias, T.E. Shaw, S. MacDonell, B. Brock, J. McPhee, F. Pellicciotti, Hydrological Processes 33 (2018) 214–229.","ieee":"F. Burger et al., “Interannual variability in glacier contribution to runoff from a high‐elevation Andean catchment: Understanding the role of debris cover in glacier hydrology,” Hydrological Processes, vol. 33, no. 2. Wiley, pp. 214–229, 2018.","ama":"Burger F, Ayala A, Farias D, et al. Interannual variability in glacier contribution to runoff from a high‐elevation Andean catchment: Understanding the role of debris cover in glacier hydrology. Hydrological Processes. 2018;33(2):214-229. doi:10.1002/hyp.13354","apa":"Burger, F., Ayala, A., Farias, D., Shaw, T. E., MacDonell, S., Brock, B., … Pellicciotti, F. (2018). Interannual variability in glacier contribution to runoff from a high‐elevation Andean catchment: Understanding the role of debris cover in glacier hydrology. Hydrological Processes. Wiley. https://doi.org/10.1002/hyp.13354","chicago":"Burger, Flavia, Alvaro Ayala, David Farias, Thomas E. Shaw, Shelley MacDonell, Ben Brock, James McPhee, and Francesca Pellicciotti. “Interannual Variability in Glacier Contribution to Runoff from a High‐elevation Andean Catchment: Understanding the Role of Debris Cover in Glacier Hydrology.” Hydrological Processes. Wiley, 2018. https://doi.org/10.1002/hyp.13354.","ista":"Burger F, Ayala A, Farias D, Shaw TE, MacDonell S, Brock B, McPhee J, Pellicciotti F. 2018. Interannual variability in glacier contribution to runoff from a high‐elevation Andean catchment: Understanding the role of debris cover in glacier hydrology. Hydrological Processes. 33(2), 214–229."},"intvolume":" 33","month":"11","main_file_link":[{"url":"https://doi.org/10.1002/hyp.13354","open_access":"1"}],"scopus_import":"1","oa_version":"Published Version","abstract":[{"lang":"eng","text":"We present a field-data rich modelling analysis to reconstruct the climatic forcing, glacier response, and runoff generation from a high-elevation catchment in central Chile over the period 2000–2015 to provide insights into the differing contributions of debris-covered and debris-free glaciers under current and future changing climatic conditions. Model simulations with the physically based glacio-hydrological model TOPKAPI-ETH reveal a period of neutral or slightly positive mass balance between 2000 and 2010, followed by a transition to increasingly large annual mass losses, associated with a recent mega drought. Mass losses commence earlier, and are more severe, for a heavily debris-covered glacier, most likely due to its strong dependence on snow avalanche accumulation, which has declined in recent years. Catchment runoff shows a marked decreasing trend over the study period, but with high interannual variability directly linked to winter snow accumulation, and high contribution from ice melt in dry periods and drought conditions. The study demonstrates the importance of incorporating local-scale processes such as snow avalanche accumulation and spatially variable debris thickness, in understanding the responses of different glacier types to climate change. We highlight the increased dependency of runoff from high Andean catchments on the diminishing resource of glacier ice during dry years."}],"volume":33,"issue":"2","language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["0885-6087"],"eissn":["1099-1085"]},"keyword":["Water Science and Technology"],"status":"public","article_type":"original","type":"journal_article","_id":"12603","extern":"1","date_updated":"2023-02-28T11:49:36Z"},{"oa_version":"Published Version","abstract":[{"lang":"eng","text":"Snow depth patterns over glaciers are controlled by precipitation, snow redistribution due to wind and avalanches, and the exchange of energy with the atmosphere that determines snow ablation. While many studies have advanced the understanding of ablation processes, less is known about winter snow patterns and their variability over glaciers. We analyze snow depth on Haut Glacier d'Arolla, Switzerland, in the two winter seasons 2006–2007 and 2010–2011 to (1) understand whether snow depth over an alpine glacier at the end of the accumulation season exhibits a behavior similar to the one observed on single slopes and vegetated areas; and (2) investigate the snow pattern consistency over the two accumulation seasons. We perform this analysis on a data set of high-resolution lidar-derived snow depth using variograms and fractal parameters. Our first main result is that snow depth patterns on the glacier exhibit a multiscale behavior, with a scale break around 20 m after which the fractal dimension increases, indicating more autocorrelated structure before the scale break than after. Second, this behavior is consistent over the two years, with fractal parameters and their spatial variability almost constant in the two seasons. We also show that snow depth patterns exhibit a distinct behavior in the glacier tongue and the upper catchment, with longer correlation distances on the tongue in the direction of the main winds, suggesting spatial distinctions that are likely induced by different processes and that should be taken into account when extrapolating snow depth from limited samples."}],"month":"06","intvolume":" 54","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1029/2017WR021606"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["0043-1397"],"eissn":["1944-7973"]},"publication_status":"published","issue":"10","volume":54,"_id":"12605","status":"public","keyword":["Water Science and Technology"],"type":"journal_article","article_type":"original","extern":"1","date_updated":"2023-02-28T11:42:40Z","publisher":"American Geophysical Union","quality_controlled":"1","oa":1,"day":"07","publication":"Water Resources Research","year":"2018","date_published":"2018-06-07T00:00:00Z","doi":"10.1029/2017wr021606","date_created":"2023-02-20T08:13:31Z","page":"7929-7945","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Clemenzi, I., Francesca Pellicciotti, and P. Burlando. “Snow Depth Structure, Fractal Behavior, and Interannual Consistency over Haut Glacier d’Arolla, Switzerland.” Water Resources Research. American Geophysical Union, 2018. https://doi.org/10.1029/2017wr021606.","ista":"Clemenzi I, Pellicciotti F, Burlando P. 2018. Snow depth structure, fractal behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland. Water Resources Research. 54(10), 7929–7945.","mla":"Clemenzi, I., et al. “Snow Depth Structure, Fractal Behavior, and Interannual Consistency over Haut Glacier d’Arolla, Switzerland.” Water Resources Research, vol. 54, no. 10, American Geophysical Union, 2018, pp. 7929–45, doi:10.1029/2017wr021606.","ama":"Clemenzi I, Pellicciotti F, Burlando P. Snow depth structure, fractal behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland. Water Resources Research. 2018;54(10):7929-7945. doi:10.1029/2017wr021606","apa":"Clemenzi, I., Pellicciotti, F., & Burlando, P. (2018). Snow depth structure, fractal behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland. Water Resources Research. American Geophysical Union. https://doi.org/10.1029/2017wr021606","ieee":"I. Clemenzi, F. Pellicciotti, and P. Burlando, “Snow depth structure, fractal behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland,” Water Resources Research, vol. 54, no. 10. American Geophysical Union, pp. 7929–7945, 2018.","short":"I. Clemenzi, F. Pellicciotti, P. Burlando, Water Resources Research 54 (2018) 7929–7945."},"title":"Snow depth structure, fractal behavior, and interannual consistency over Haut Glacier d'Arolla, Switzerland","author":[{"last_name":"Clemenzi","full_name":"Clemenzi, I.","first_name":"I."},{"last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca"},{"first_name":"P.","full_name":"Burlando, P.","last_name":"Burlando"}],"article_processing_charge":"No"},{"oa_version":"Published Version","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."}],"month":"10","intvolume":" 45","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1029/2018GL079678"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"publication_status":"published","issue":"19","volume":45,"_id":"12604","status":"public","keyword":["General Earth and Planetary Sciences","Geophysics"],"article_type":"letter_note","type":"journal_article","extern":"1","date_updated":"2023-02-28T11:46:48Z","quality_controlled":"1","publisher":"American Geophysical Union","oa":1,"day":"18","publication":"Geophysical Research Letters","year":"2018","doi":"10.1029/2018gl079678","date_published":"2018-10-18T00:00:00Z","date_created":"2023-02-20T08:13:18Z","page":"10464-10473","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"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.","short":"E.S. Miles, I. Willis, P. Buri, J.F. Steiner, N.S. Arnold, F. Pellicciotti, Geophysical Research Letters 45 (2018) 10464–10473.","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."},"title":"Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total catchment ice loss","author":[{"full_name":"Miles, Evan S.","last_name":"Miles","first_name":"Evan S."},{"first_name":"Ian","full_name":"Willis, Ian","last_name":"Willis"},{"full_name":"Buri, Pascal","last_name":"Buri","first_name":"Pascal"},{"first_name":"Jakob F.","last_name":"Steiner","full_name":"Steiner, Jakob F."},{"full_name":"Arnold, Neil S.","last_name":"Arnold","first_name":"Neil S."},{"first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","full_name":"Pellicciotti, Francesca","last_name":"Pellicciotti"}],"article_processing_charge":"No"},{"intvolume":" 115","month":"04","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1713892115"}],"scopus_import":"1","oa_version":"Published Version","abstract":[{"text":"Supraglacial ice cliffs exist on debris-covered glaciers worldwide, but despite their importance as melt hot spots, their life cycle is little understood. Early field observations had advanced a hypothesis of survival of north-facing and disappearance of south-facing cliffs, which is central for predicting the contribution of cliffs to total glacier mass losses. Their role as windows of energy transfer suggests they may explain the anomalously high mass losses of debris-covered glaciers in High Mountain Asia (HMA) despite the insulating debris, currently at the center of a debated controversy. We use a 3D model of cliff evolution coupled to very high-resolution topographic data to demonstrate that ice cliffs facing south (in the Northern Hemisphere) disappear within a few months due to enhanced solar radiation receipts and that aspect is the key control on cliffs evolution. We reproduce continuous flattening of south-facing cliffs, a result of their vertical gradient of incoming solar radiation and sky view factor. Our results establish that only north-facing cliffs are recurrent features and thus stable contributors to the melting of debris-covered glaciers. Satellite observations and mass balance modeling confirms that few south-facing cliffs of small size exist on the glaciers of Langtang, and their contribution to the glacier volume losses is very small (∼1%). This has major implications for the mass balance of HMA debris-covered glaciers as it provides the basis for new parameterizations of cliff evolution and distribution to constrain volume losses in a region where glaciers are highly relevant as water sources for millions of people.","lang":"eng"}],"issue":"17","volume":115,"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"status":"public","article_type":"original","type":"journal_article","_id":"12607","extern":"1","date_updated":"2023-02-28T11:35:18Z","oa":1,"publisher":"Proceedings of the National Academy of Sciences","quality_controlled":"1","date_created":"2023-02-20T08:13:41Z","date_published":"2018-04-09T00:00:00Z","doi":"10.1073/pnas.1713892115","page":"4369-4374","publication":"PNAS","day":"09","year":"2018","title":"Aspect controls the survival of ice cliffs on debris-covered glaciers","article_processing_charge":"No","author":[{"last_name":"Buri","full_name":"Buri, Pascal","first_name":"Pascal"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival of Ice Cliffs on Debris-Covered Glaciers.” PNAS, vol. 115, no. 17, Proceedings of the National Academy of Sciences, 2018, pp. 4369–74, doi:10.1073/pnas.1713892115.","ama":"Buri P, Pellicciotti F. Aspect controls the survival of ice cliffs on debris-covered glaciers. PNAS. 2018;115(17):4369-4374. doi:10.1073/pnas.1713892115","apa":"Buri, P., & Pellicciotti, F. (2018). Aspect controls the survival of ice cliffs on debris-covered glaciers. PNAS. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1713892115","short":"P. Buri, F. Pellicciotti, PNAS 115 (2018) 4369–4374.","ieee":"P. Buri and F. Pellicciotti, “Aspect controls the survival of ice cliffs on debris-covered glaciers,” PNAS, vol. 115, no. 17. Proceedings of the National Academy of Sciences, pp. 4369–4374, 2018.","chicago":"Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival of Ice Cliffs on Debris-Covered Glaciers.” PNAS. Proceedings of the National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1713892115.","ista":"Buri P, Pellicciotti F. 2018. Aspect controls the survival of ice cliffs on debris-covered glaciers. PNAS. 115(17), 4369–4374."}}]