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Hintze","publisher":"Elsevier","date_updated":"2025-09-22T09:42:11Z","ddc":["530"],"isi":1,"month":"12","acknowledgement":"C.H. acknowledges generous support from the ISTFELLOW program.","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","file":[{"file_size":171352,"date_updated":"2020-07-14T12:44:39Z","creator":"system","date_created":"2018-12-12T10:11:02Z","file_id":"4855","file_name":"IST-2017-798-v1+1_comment_adami.pdf","content_type":"application/pdf","relation":"main_file","checksum":"95e6dc78278334b99dacbf8822509364","access_level":"open_access"}],"oa_version":"Submitted Version","citation":{"chicago":"Hilbe, Christian, and Arne Traulsen. “Only the Combination of Mathematics and Agent Based Simulations Can Leverage the Full Potential of Evolutionary Modeling: Comment on ‘Evolutionary Game Theory Using Agent-Based Methods’ by C. Adami, J. Schossau and A. Hintze.” Physics of Life Reviews. Elsevier, 2016. https://doi.org/10.1016/j.plrev.2016.10.004.","mla":"Hilbe, Christian, and Arne Traulsen. “Only the Combination of Mathematics and Agent Based Simulations Can Leverage the Full Potential of Evolutionary Modeling: Comment on ‘Evolutionary Game Theory Using Agent-Based Methods’ by C. Adami, J. Schossau and A. Hintze.” Physics of Life Reviews, vol. 19, Elsevier, 2016, pp. 29–31, doi:10.1016/j.plrev.2016.10.004.","apa":"Hilbe, C., & Traulsen, A. (2016). Only the combination of mathematics and agent based simulations can leverage the full potential of evolutionary modeling: Comment on “Evolutionary game theory using agent-based methods” by C. Adami, J. Schossau and A. Hintze. Physics of Life Reviews. Elsevier. https://doi.org/10.1016/j.plrev.2016.10.004","ista":"Hilbe C, Traulsen A. 2016. Only the combination of mathematics and agent based simulations can leverage the full potential of evolutionary modeling: Comment on “Evolutionary game theory using agent-based methods” by C. Adami, J. Schossau and A. Hintze. Physics of Life Reviews. 19, 29–31.","short":"C. Hilbe, A. Traulsen, Physics of Life Reviews 19 (2016) 29–31.","ama":"Hilbe C, Traulsen A. Only the combination of mathematics and agent based simulations can leverage the full potential of evolutionary modeling: Comment on “Evolutionary game theory using agent-based methods” by C. Adami, J. Schossau and A. Hintze. Physics of Life Reviews. 2016;19:29-31. doi:10.1016/j.plrev.2016.10.004","ieee":"C. Hilbe and A. Traulsen, “Only the combination of mathematics and agent based simulations can leverage the full potential of evolutionary modeling: Comment on ‘Evolutionary game theory using agent-based methods’ by C. Adami, J. Schossau and A. Hintze,” Physics of Life Reviews, vol. 19. Elsevier, pp. 29–31, 2016."},"tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"oa":1,"year":"2016","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:40Z","quality_controlled":"1","project":[{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}],"file_date_updated":"2020-07-14T12:44:39Z","_id":"1200","author":[{"orcid":"0000-0001-5116-955X","last_name":"Hilbe","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","first_name":"Christian","full_name":"Hilbe, Christian"},{"last_name":"Traulsen","first_name":"Arne","full_name":"Traulsen, Arne"}],"department":[{"_id":"KrCh"}],"date_published":"2016-12-01T00:00:00Z","pubrep_id":"798","volume":19,"external_id":{"isi":["000390640200003"]}},{"date_updated":"2025-09-22T09:41:33Z","article_processing_charge":"No","intvolume":" 167","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publist_id":"6149","publisher":"Cell Press","title":"Formin’ a nuclear protection","doi":"10.1016/j.cell.2016.11.024","publication_status":"published","status":"public","day":"01","type":"journal_article","scopus_import":"1","page":"1448 - 1449","publication":"Cell","date_published":"2016-12-01T00:00:00Z","department":[{"_id":"MiSi"}],"volume":167,"external_id":{"isi":["000389470500007"]},"author":[{"full_name":"Renkawitz, Jörg","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg","orcid":"0000-0003-2856-3369","last_name":"Renkawitz"},{"last_name":"Sixt","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"_id":"1201","issue":"6","year":"2016","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:41Z","quality_controlled":"1","isi":1,"month":"12","oa_version":"None","abstract":[{"text":"In this issue of Cell, Skau et al. show that the formin FMN2 organizes a perinuclear actin cytoskeleton that protects the nucleus and its genomic content of migrating cells squeezing through small spaces.","lang":"eng"}],"citation":{"ieee":"J. Renkawitz and M. K. Sixt, “Formin’ a nuclear protection,” Cell, vol. 167, no. 6. Cell Press, pp. 1448–1449, 2016.","ama":"Renkawitz J, Sixt MK. Formin’ a nuclear protection. Cell. 2016;167(6):1448-1449. doi:10.1016/j.cell.2016.11.024","short":"J. Renkawitz, M.K. Sixt, Cell 167 (2016) 1448–1449.","chicago":"Renkawitz, Jörg, and Michael K Sixt. “Formin’ a Nuclear Protection.” Cell. Cell Press, 2016. https://doi.org/10.1016/j.cell.2016.11.024.","apa":"Renkawitz, J., & Sixt, M. K. (2016). Formin’ a nuclear protection. Cell. Cell Press. https://doi.org/10.1016/j.cell.2016.11.024","ista":"Renkawitz J, Sixt MK. 2016. Formin’ a nuclear protection. Cell. 167(6), 1448–1449.","mla":"Renkawitz, Jörg, and Michael K. Sixt. “Formin’ a Nuclear Protection.” Cell, vol. 167, no. 6, Cell Press, 2016, pp. 1448–49, doi:10.1016/j.cell.2016.11.024."}},{"_id":"1202","author":[{"orcid":"0000-0002-8214-4758","last_name":"Milutinovic","full_name":"Milutinovic, Barbara","first_name":"Barbara","id":"2CDC32B8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Peuß","full_name":"Peuß, Robert","first_name":"Robert"},{"last_name":"Ferro","first_name":"Kevin","full_name":"Ferro, Kevin"},{"first_name":"Joachim","full_name":"Kurtz, Joachim","last_name":"Kurtz"}],"volume":119,"external_id":{"isi":["000384958500003"]},"department":[{"_id":"SyCr"}],"date_published":"2016-08-01T00:00:00Z","citation":{"short":"B. Milutinovic, R. Peuß, K. Ferro, J. Kurtz, Zoology 119 (2016) 254–261.","ista":"Milutinovic B, Peuß R, Ferro K, Kurtz J. 2016. Immune priming in arthropods: an update focusing on the red flour beetle. Zoology . 119(4), 254–261.","apa":"Milutinovic, B., Peuß, R., Ferro, K., & Kurtz, J. (2016). Immune priming in arthropods: an update focusing on the red flour beetle. Zoology . Elsevier. https://doi.org/10.1016/j.zool.2016.03.006","mla":"Milutinovic, Barbara, et al. “Immune Priming in Arthropods: An Update Focusing on the Red Flour Beetle.” Zoology , vol. 119, no. 4, Elsevier, 2016, pp. 254–61, doi:10.1016/j.zool.2016.03.006.","chicago":"Milutinovic, Barbara, Robert Peuß, Kevin Ferro, and Joachim Kurtz. “Immune Priming in Arthropods: An Update Focusing on the Red Flour Beetle.” Zoology . Elsevier, 2016. https://doi.org/10.1016/j.zool.2016.03.006.","ieee":"B. Milutinovic, R. Peuß, K. Ferro, and J. Kurtz, “Immune priming in arthropods: an update focusing on the red flour beetle,” Zoology , vol. 119, no. 4. Elsevier, pp. 254–261, 2016.","ama":"Milutinovic B, Peuß R, Ferro K, Kurtz J. Immune priming in arthropods: an update focusing on the red flour beetle. Zoology . 2016;119(4):254-261. doi:10.1016/j.zool.2016.03.006"},"oa_version":"Published Version","file":[{"content_type":"application/pdf","checksum":"8396d5bd95f9c4295857162f902afabf","relation":"main_file","access_level":"open_access","file_id":"5885","file_name":"2016_Elsevier_Milutinovic.pdf","creator":"kschuh","date_created":"2019-01-25T13:00:20Z","file_size":1473211,"date_updated":"2020-07-14T12:44:39Z"}],"month":"08","acknowledgement":"The authors thank Sophie A.O. Armitage and Jan N. Offenborn for helpful comments on the figures, and two anonymous reviewers for their helpful comments. The project was funded by the Deutsche Forschungsgemeinschaft (DFG, KU 1929/4-2) within the priority programme SPP 1399 “Host–Parasite Coevolution”.","isi":1,"quality_controlled":"1","project":[{"name":"Host-Parasite Coevolution","grant_number":"CR-118/3-1","_id":"25DAF0B2-B435-11E9-9278-68D0E5697425"}],"file_date_updated":"2020-07-14T12:44:39Z","date_created":"2018-12-11T11:50:41Z","language":[{"iso":"eng"}],"tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"year":"2016","oa":1,"issue":"4","title":"Immune priming in arthropods: an update focusing on the red flour beetle","publisher":"Elsevier","publist_id":"6147","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","intvolume":" 119","article_processing_charge":"No","ddc":["570"],"date_updated":"2025-09-22T09:41:02Z","publication":"Zoology ","page":"254 - 261","scopus_import":"1","has_accepted_license":"1","type":"journal_article","status":"public","day":"01","publication_status":"published","doi":"10.1016/j.zool.2016.03.006"},{"_id":"1203","author":[{"last_name":"Hu","full_name":"Hu, Fang","first_name":"Fang"},{"full_name":"Rishishwar, Lavanya","first_name":"Lavanya","last_name":"Rishishwar"},{"first_name":"Ambily","full_name":"Sivadas, Ambily","last_name":"Sivadas"},{"last_name":"Mitchell","id":"315BCD80-F248-11E8-B48F-1D18A9856A87","first_name":"Gabriel","full_name":"Mitchell, Gabriel"},{"full_name":"King, Jordan","first_name":"Jordan","last_name":"King"},{"last_name":"Murphy","full_name":"Murphy, Timothy","first_name":"Timothy"},{"last_name":"Gilsdorf","first_name":"Janet","full_name":"Gilsdorf, Janet"},{"full_name":"Mayer, Leonard","first_name":"Leonard","last_name":"Mayer"},{"first_name":"Xin","full_name":"Wang, Xin","last_name":"Wang"}],"department":[{"_id":"GaTk"}],"date_published":"2016-12-01T00:00:00Z","external_id":{"isi":["000389209600026"]},"volume":54,"acknowledgement":"We are grateful to ABCs for providing strains and the Bacterial Meningitis Laboratory for technical support.","month":"12","isi":1,"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5121393/","open_access":"1"}],"citation":{"ama":"Hu F, Rishishwar L, Sivadas A, et al. Comparative genomic analysis of Haemophilus haemolyticus and nontypeable Haemophilus influenzae and a new testing scheme for their discrimination. Journal of Clinical Microbiology. 2016;54(12):3010-3017. doi:10.1128/JCM.01511-16","ieee":"F. Hu et al., “Comparative genomic analysis of Haemophilus haemolyticus and nontypeable Haemophilus influenzae and a new testing scheme for their discrimination,” Journal of Clinical Microbiology, vol. 54, no. 12. American Society for Microbiology, pp. 3010–3017, 2016.","chicago":"Hu, Fang, Lavanya Rishishwar, Ambily Sivadas, Gabriel Mitchell, Jordan King, Timothy Murphy, Janet Gilsdorf, Leonard Mayer, and Xin Wang. “Comparative Genomic Analysis of Haemophilus Haemolyticus and Nontypeable Haemophilus Influenzae and a New Testing Scheme for Their Discrimination.” Journal of Clinical Microbiology. American Society for Microbiology, 2016. https://doi.org/10.1128/JCM.01511-16.","apa":"Hu, F., Rishishwar, L., Sivadas, A., Mitchell, G., King, J., Murphy, T., … Wang, X. (2016). Comparative genomic analysis of Haemophilus haemolyticus and nontypeable Haemophilus influenzae and a new testing scheme for their discrimination. Journal of Clinical Microbiology. American Society for Microbiology. https://doi.org/10.1128/JCM.01511-16","mla":"Hu, Fang, et al. “Comparative Genomic Analysis of Haemophilus Haemolyticus and Nontypeable Haemophilus Influenzae and a New Testing Scheme for Their Discrimination.” Journal of Clinical Microbiology, vol. 54, no. 12, American Society for Microbiology, 2016, pp. 3010–17, doi:10.1128/JCM.01511-16.","ista":"Hu F, Rishishwar L, Sivadas A, Mitchell G, King J, Murphy T, Gilsdorf J, Mayer L, Wang X. 2016. Comparative genomic analysis of Haemophilus haemolyticus and nontypeable Haemophilus influenzae and a new testing scheme for their discrimination. Journal of Clinical Microbiology. 54(12), 3010–3017.","short":"F. Hu, L. Rishishwar, A. Sivadas, G. Mitchell, J. King, T. Murphy, J. Gilsdorf, L. Mayer, X. Wang, Journal of Clinical Microbiology 54 (2016) 3010–3017."},"abstract":[{"text":"Haemophilus haemolyticus has been recently discovered to have the potential to cause invasive disease. It is closely related to nontypeable Haemophilus influenzae (NT H. influenzae). NT H. influenzae and H. haemolyticus are often misidentified because none of the existing tests targeting the known phenotypes of H. haemolyticus are able to specifically identify H. haemolyticus. Through comparative genomic analysis of H. haemolyticus and NT H. influenzae, we identified genes unique to H. haemolyticus that can be used as targets for the identification of H. haemolyticus. A real-time PCR targeting purT (encoding phosphoribosylglycinamide formyltransferase 2 in the purine synthesis pathway) was developed and evaluated. The lower limit of detection was 40 genomes/PCR; the sensitivity and specificity in detecting H. haemolyticus were 98.9% and 97%, respectively. To improve the discrimination of H. haemolyticus and NT H. influenzae, a testing scheme combining two targets (H. haemolyticus purT and H. influenzae hpd, encoding protein D lipoprotein) was also evaluated and showed 96.7% sensitivity and 98.2% specificity for the identification of H. haemolyticus and 92.8% sensitivity and 100% specificity for the identification of H. influenzae, respectively. The dual-target testing scheme can be used for the diagnosis and surveillance of infection and disease caused by H. haemolyticus and NT H. influenzae.","lang":"eng"}],"oa_version":"Submitted Version","year":"2016","oa":1,"issue":"12","quality_controlled":"1","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:41Z","intvolume":" 54","article_processing_charge":"No","title":"Comparative genomic analysis of Haemophilus haemolyticus and nontypeable Haemophilus influenzae and a new testing scheme for their discrimination","publisher":"American Society for Microbiology","publist_id":"6146","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_updated":"2025-09-22T09:40:28Z","scopus_import":"1","type":"journal_article","publication":"Journal of Clinical Microbiology","page":"3010 - 3017","doi":"10.1128/JCM.01511-16","day":"01","status":"public","publication_status":"published"},{"date_created":"2018-12-11T11:50:42Z","language":[{"iso":"eng"}],"quality_controlled":"1","issue":"6","oa":1,"year":"2016","oa_version":"Preprint","abstract":[{"lang":"eng","text":"In science, as in life, "surprises" can be adequately appreciated only in the presence of a null model, what we expect a priori. In physics, theories sometimes express the values of dimensionless physical constants as combinations of mathematical constants like π or e. The inverse problem also arises, whereby the measured value of a physical constant admits a "surprisingly" simple approximation in terms of well-known mathematical constants. Can we estimate the probability for this to be a mere coincidence, rather than an inkling of some theory? We answer the question in the most naive form."}],"citation":{"ama":"Amir A, Lemeshko M, Tokieda T. Surprises in numerical expressions of physical constants. American Mathematical Monthly. 2016;123(6):609-612. doi:10.4169/amer.math.monthly.123.6.609","ieee":"A. Amir, M. Lemeshko, and T. Tokieda, “Surprises in numerical expressions of physical constants,” American Mathematical Monthly, vol. 123, no. 6. Mathematical Association of America, pp. 609–612, 2016.","apa":"Amir, A., Lemeshko, M., & Tokieda, T. (2016). Surprises in numerical expressions of physical constants. American Mathematical Monthly. Mathematical Association of America. https://doi.org/10.4169/amer.math.monthly.123.6.609","mla":"Amir, Ariel, et al. “Surprises in Numerical Expressions of Physical Constants.” American Mathematical Monthly, vol. 123, no. 6, Mathematical Association of America, 2016, pp. 609–12, doi:10.4169/amer.math.monthly.123.6.609.","ista":"Amir A, Lemeshko M, Tokieda T. 2016. Surprises in numerical expressions of physical constants. American Mathematical Monthly. 123(6), 609–612.","chicago":"Amir, Ariel, Mikhail Lemeshko, and Tadashi Tokieda. “Surprises in Numerical Expressions of Physical Constants.” American Mathematical Monthly. Mathematical Association of America, 2016. https://doi.org/10.4169/amer.math.monthly.123.6.609.","short":"A. Amir, M. Lemeshko, T. Tokieda, American Mathematical Monthly 123 (2016) 609–612."},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1603.00299"}],"isi":1,"month":"06","external_id":{"arxiv":["1603.00299"],"isi":["000381754900010"]},"volume":123,"department":[{"_id":"MiLe"}],"date_published":"2016-06-01T00:00:00Z","author":[{"first_name":"Ariel","full_name":"Amir, Ariel","last_name":"Amir"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","orcid":"0000-0002-6990-7802"},{"last_name":"Tokieda","full_name":"Tokieda, Tadashi","first_name":"Tadashi"}],"_id":"1204","day":"01","publication_status":"published","status":"public","doi":"10.4169/amer.math.monthly.123.6.609","page":"609 - 612","publication":"American Mathematical Monthly","type":"journal_article","scopus_import":"1","arxiv":1,"date_updated":"2025-09-22T09:39:09Z","publist_id":"6143","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Surprises in numerical expressions of physical constants","publisher":"Mathematical Association of America","article_processing_charge":"No","intvolume":" 123"},{"_id":"1205","author":[{"first_name":"Yu","full_name":"Jiang, Yu","last_name":"Jiang"},{"last_name":"Liu","full_name":"Liu, Han","first_name":"Han"},{"full_name":"Song, Houbing","first_name":"Houbing","last_name":"Song"},{"full_name":"Kong, Hui","first_name":"Hui","id":"3BDE25AA-F248-11E8-B48F-1D18A9856A87","last_name":"Kong","orcid":"0000-0002-3066-6941"},{"full_name":"Gu, Ming","first_name":"Ming","last_name":"Gu"},{"first_name":"Jiaguang","full_name":"Sun, Jiaguang","last_name":"Sun"},{"full_name":"Sha, Lui","first_name":"Lui","last_name":"Sha"}],"related_material":{"record":[{"status":"public","relation":"later_version","id":"434"}]},"department":[{"_id":"ToHe"}],"pubrep_id":"783","date_published":"2016-11-08T00:00:00Z","external_id":{"isi":["000389793300047"]},"volume":9995,"isi":1,"month":"11","acknowledgement":"This research is sponsored in part by NSFC Program (No. 91218302, No. 61527812), National Science and Technology Major Project (No. 2016ZX01038101), Tsinghua University Initiative Scientific Research Program (20131089331), MIIT IT funds (Research and application of TCN key technologies) of China, and the National Key Technology R&D Program (No. 2015BAG14B01-02), Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE) and Z211-N23.\r\n","oa_version":"Submitted Version","file":[{"creator":"system","date_created":"2018-12-12T10:08:13Z","file_size":281501,"date_updated":"2020-07-14T12:44:39Z","access_level":"open_access","relation":"main_file","checksum":"fea0b3fae9a2a42e8bfec59840e30d8c","content_type":"application/pdf","file_name":"IST-2017-783-v1+1_FM-Safety-Assured-Development-of-MVBC.pdf","file_id":"4673"}],"alternative_title":["LNCS"],"abstract":[{"text":"In this paper, we present a formal model-driven engineering approach to establishing a safety-assured implementation of Multifunction vehicle bus controller (MVBC) based on the generic reference models and requirements described in the International Electrotechnical Commission (IEC) standard IEC-61375. First, the generic models described in IEC-61375 are translated into a network of timed automata, and some safety requirements tested in IEC-61375 are formalized as timed computation tree logic (TCTL) formulas. With the help of Uppaal, we check and debug whether the timed automata satisfy the formulas or not. Within this step, several logic inconsistencies in the original standard are detected and corrected. Then, we apply the tool Times to generate C code from the verified model, which was later synthesized into a real MVBC chip. Finally, the runtime verification tool RMOR is applied to verify some safety requirements at the implementation level. We set up a real platform with worldwide mostly used MVBC D113, and verify the correctness and the scalability of the synthesized MVBC chip more comprehensively. The errors in the standard has been confirmed and the resulted MVBC has been deployed in real train communication network.","lang":"eng"}],"citation":{"short":"Y. Jiang, H. Liu, H. Song, H. Kong, M. Gu, J. Sun, L. Sha, in:, Springer, 2016, pp. 757–763.","apa":"Jiang, Y., Liu, H., Song, H., Kong, H., Gu, M., Sun, J., & Sha, L. (2016). Safety assured formal model driven design of the multifunction vehicle bus controller (Vol. 9995, pp. 757–763). Presented at the FM: Formal Methods, Limassol, Cyprus: Springer. https://doi.org/10.1007/978-3-319-48989-6_47","mla":"Jiang, Yu, et al. Safety Assured Formal Model Driven Design of the Multifunction Vehicle Bus Controller. Vol. 9995, Springer, 2016, pp. 757–63, doi:10.1007/978-3-319-48989-6_47.","ista":"Jiang Y, Liu H, Song H, Kong H, Gu M, Sun J, Sha L. 2016. Safety assured formal model driven design of the multifunction vehicle bus controller. FM: Formal Methods, LNCS, vol. 9995, 757–763.","chicago":"Jiang, Yu, Han Liu, Houbing Song, Hui Kong, Ming Gu, Jiaguang Sun, and Lui Sha. “Safety Assured Formal Model Driven Design of the Multifunction Vehicle Bus Controller,” 9995:757–63. Springer, 2016. https://doi.org/10.1007/978-3-319-48989-6_47.","ieee":"Y. Jiang et al., “Safety assured formal model driven design of the multifunction vehicle bus controller,” presented at the FM: Formal Methods, Limassol, Cyprus, 2016, vol. 9995, pp. 757–763.","ama":"Jiang Y, Liu H, Song H, et al. Safety assured formal model driven design of the multifunction vehicle bus controller. In: Vol 9995. Springer; 2016:757-763. doi:10.1007/978-3-319-48989-6_47"},"oa":1,"year":"2016","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:42Z","project":[{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF"},{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","call_identifier":"FWF"}],"quality_controlled":"1","file_date_updated":"2020-07-14T12:44:39Z","article_processing_charge":"No","intvolume":" 9995","publist_id":"6144","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Safety assured formal model driven design of the multifunction vehicle bus controller","publisher":"Springer","date_updated":"2025-09-22T09:39:55Z","ddc":["004"],"has_accepted_license":"1","type":"conference","scopus_import":"1","page":"757 - 763","doi":"10.1007/978-3-319-48989-6_47","day":"08","publication_status":"published","conference":{"location":"Limassol, Cyprus","start_date":"2016-11-09","end_date":"2016-11-11","name":"FM: Formal Methods"},"status":"public"},{"doi":"10.1002/cphc.201601042","publication_status":"published","day":"18","status":"public","type":"journal_article","scopus_import":"1","page":"3649 - 3654","ec_funded":1,"publication":"ChemPhysChem","date_updated":"2025-09-22T09:38:39Z","arxiv":1,"article_processing_charge":"No","intvolume":" 17","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publist_id":"6140","publisher":"Wiley-Blackwell","title":"Libration of strongly oriented polar molecules inside a superfluid","issue":"22","year":"2016","oa":1,"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:43Z","project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020"}],"quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1609.08161"}],"month":"09","oa_version":"Preprint","citation":{"apa":"Redchenko, E., & Lemeshko, M. (2016). Libration of strongly oriented polar molecules inside a superfluid. ChemPhysChem. Wiley-Blackwell. https://doi.org/10.1002/cphc.201601042","ista":"Redchenko E, Lemeshko M. 2016. Libration of strongly oriented polar molecules inside a superfluid. ChemPhysChem. 17(22), 3649–3654.","mla":"Redchenko, Elena, and Mikhail Lemeshko. “Libration of Strongly Oriented Polar Molecules inside a Superfluid.” ChemPhysChem, vol. 17, no. 22, Wiley-Blackwell, 2016, pp. 3649–54, doi:10.1002/cphc.201601042.","chicago":"Redchenko, Elena, and Mikhail Lemeshko. “Libration of Strongly Oriented Polar Molecules inside a Superfluid.” ChemPhysChem. Wiley-Blackwell, 2016. https://doi.org/10.1002/cphc.201601042.","short":"E. Redchenko, M. Lemeshko, ChemPhysChem 17 (2016) 3649–3654.","ama":"Redchenko E, Lemeshko M. Libration of strongly oriented polar molecules inside a superfluid. ChemPhysChem. 2016;17(22):3649-3654. doi:10.1002/cphc.201601042","ieee":"E. Redchenko and M. Lemeshko, “Libration of strongly oriented polar molecules inside a superfluid,” ChemPhysChem, vol. 17, no. 22. Wiley-Blackwell, pp. 3649–3654, 2016."},"abstract":[{"text":"We study a polar molecule immersed in a superfluid environment, such as a helium nanodroplet or a Bose–Einstein condensate, in the presence of a strong electrostatic field. We show that coupling of the molecular pendular motion, induced by the field, to the fluctuating bath leads to formation of pendulons—spherical harmonic librators dressed by a field of many-particle excitations. We study the behavior of the pendulon in a broad range of molecule–bath and molecule–field interaction strengths, and reveal that its spectrum features a series of instabilities which are absent in the field-free case of the angulon quasiparticle. Furthermore, we show that an external field allows to fine-tune the positions of these instabilities in the molecular rotational spectrum. This opens the door to detailed experimental studies of redistribution of orbital angular momentum in many-particle systems. © 2016 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim","lang":"eng"}],"date_published":"2016-09-18T00:00:00Z","department":[{"_id":"JoFi"},{"_id":"MiLe"}],"volume":17,"external_id":{"arxiv":["1609.08161"],"isi":["000388625000008"]},"_id":"1206","author":[{"last_name":"Redchenko","full_name":"Redchenko, Elena","id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87","first_name":"Elena"},{"full_name":"Lemeshko, Mikhail","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","orcid":"0000-0002-6990-7802"}]},{"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5114416/"}],"isi":1,"month":"11","acknowledgement":"J.A.S supported in part by a Medical Research D.G.Council UK Ph.D. fellowship.\r\nThis work was supported in part by European Union's 2020 Research and Innovation Program under Grant 701309. \r\n","oa_version":"Submitted Version","citation":{"ama":"Letts JA, Degliesposti G, Fiedorczuk K, Skehel M, Sazanov LA. Purification of ovine respiratory complex i results in a highly active and stable preparation. Journal of Biological Chemistry. 2016;291(47):24657-24675. doi:10.1074/jbc.M116.735142","ieee":"J. A. Letts, G. Degliesposti, K. Fiedorczuk, M. Skehel, and L. A. Sazanov, “Purification of ovine respiratory complex i results in a highly active and stable preparation,” Journal of Biological Chemistry, vol. 291, no. 47. American Society for Biochemistry and Molecular Biology, pp. 24657–24675, 2016.","chicago":"Letts, James A, Gianluca Degliesposti, Karol Fiedorczuk, Mark Skehel, and Leonid A Sazanov. “Purification of Ovine Respiratory Complex i Results in a Highly Active and Stable Preparation.” Journal of Biological Chemistry. American Society for Biochemistry and Molecular Biology, 2016. https://doi.org/10.1074/jbc.M116.735142.","apa":"Letts, J. A., Degliesposti, G., Fiedorczuk, K., Skehel, M., & Sazanov, L. A. (2016). Purification of ovine respiratory complex i results in a highly active and stable preparation. Journal of Biological Chemistry. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/jbc.M116.735142","ista":"Letts JA, Degliesposti G, Fiedorczuk K, Skehel M, Sazanov LA. 2016. Purification of ovine respiratory complex i results in a highly active and stable preparation. Journal of Biological Chemistry. 291(47), 24657–24675.","mla":"Letts, James A., et al. “Purification of Ovine Respiratory Complex i Results in a Highly Active and Stable Preparation.” Journal of Biological Chemistry, vol. 291, no. 47, American Society for Biochemistry and Molecular Biology, 2016, pp. 24657–75, doi:10.1074/jbc.M116.735142.","short":"J.A. Letts, G. Degliesposti, K. Fiedorczuk, M. Skehel, L.A. Sazanov, Journal of Biological Chemistry 291 (2016) 24657–24675."},"abstract":[{"text":"NADH-ubiquinone oxidoreductase (complex I) is the largest (∼1 MDa) and the least characterized complex of the mitochondrial electron transport chain. Because of the ease of sample availability, previous work has focused almost exclusively on bovine complex I. However, only medium resolution structural analyses of this complex have been reported. Working with other mammalian complex I homologues is a potential approach for overcoming these limitations. Due to the inherent difficulty of expressing large membrane protein complexes, screening of complex I homologues is limited to large mammals reared for human consumption. The high sequence identity among these available sources may preclude the benefits of screening. Here, we report the characterization of complex I purified from Ovis aries (ovine) heart mitochondria. All 44 unique subunits of the intact complex were identified by mass spectrometry. We identified differences in the subunit composition of subcomplexes of ovine complex I as compared with bovine, suggesting differential stability of inter-subunit interactions within the complex. Furthermore, the 42-kDa subunit, which is easily lost from the bovine enzyme, remains tightly bound to ovine complex I. Additionally, we developed a novel purification protocol for highly active and stable mitochondrial complex I using the branched-chain detergent lauryl maltose neopentyl glycol. Our data demonstrate that, although closely related, significant differences exist between the biochemical properties of complex I prepared from ovine and bovine mitochondria and that ovine complex I represents a suitable alternative target for further structural studies. ","lang":"eng"}],"issue":"47","year":"2016","oa":1,"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:44Z","project":[{"name":"Atomic-Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes","_id":"2593EBD6-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Atomic Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes","grant_number":"701309","_id":"2590DB08-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","_id":"1209","author":[{"orcid":"0000-0002-9864-3586","last_name":"Letts","full_name":"Letts, James A","id":"322DA418-F248-11E8-B48F-1D18A9856A87","first_name":"James A"},{"full_name":"Degliesposti, Gianluca","first_name":"Gianluca","last_name":"Degliesposti"},{"last_name":"Fiedorczuk","id":"5BFF67CE-02D1-11E9-B11A-A5A4D7DFFFD0","first_name":"Karol","full_name":"Fiedorczuk, Karol"},{"full_name":"Skehel, Mark","first_name":"Mark","last_name":"Skehel"},{"full_name":"Sazanov, Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","orcid":"0000-0002-0977-7989","last_name":"Sazanov"}],"date_published":"2016-11-18T00:00:00Z","department":[{"_id":"LeSa"}],"external_id":{"isi":["000388875500026"]},"volume":291,"type":"journal_article","scopus_import":"1","page":"24657 - 24675","publication":"Journal of Biological Chemistry","ec_funded":1,"doi":"10.1074/jbc.M116.735142","publication_status":"published","status":"public","day":"18","article_processing_charge":"No","intvolume":" 291","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publist_id":"6139","publisher":"American Society for Biochemistry and Molecular Biology","corr_author":"1","title":"Purification of ovine respiratory complex i results in a highly active and stable preparation","date_updated":"2025-09-22T09:38:04Z"},{"date_published":"2016-11-19T00:00:00Z","department":[{"_id":"EvBe"}],"date_updated":"2021-01-12T06:49:07Z","volume":1497,"author":[{"last_name":"Zhu","full_name":"Zhu, Qiang","id":"40A4B9E6-F248-11E8-B48F-1D18A9856A87","first_name":"Qiang"},{"last_name":"Žádníková","first_name":"Petra","full_name":"Žádníková, Petra"},{"full_name":"Smet, Dajo","first_name":"Dajo","last_name":"Smet"},{"full_name":"Van Der Straeten, Dominique","first_name":"Dominique","last_name":"Van Der Straeten"},{"last_name":"Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","full_name":"Benková, Eva"}],"_id":"1210","intvolume":" 1497","publisher":"Humana Press","title":"Real time analysis of the apical hook development","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publist_id":"6135","year":"2016","doi":"10.1007/978-1-4939-6469-7_1","quality_controlled":"1","publication_status":"published","status":"public","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:44Z","day":"19","month":"11","acknowledgement":"We thank Herman \r\nHöfte \r\n, Todor Asenov, Robert Hauschield, and \r\nMarcal Gallemi for help with the establishment of the real-time \r\nimaging platform and technical support. This work was supported \r\nby the Czech Science Foundation (GA13-39982S) to Eva Benková. \r\nDominique Van Der Straeten acknowledges the Research \r\nFoundation Flanders for fi\r\n nancial support (G.0656.13N). Dajo \r\nSmet holds a PhD fellowship of the Research Foundation Flanders. ","scopus_import":1,"type":"book_chapter","abstract":[{"lang":"eng","text":"Mechanisms for cell protection are essential for survival of multicellular organisms. In plants, the apical hook, which is transiently formed in darkness when the germinating seedling penetrates towards the soil surface, plays such protective role and shields the vitally important shoot apical meristem and cotyledons from damage. The apical hook is formed by bending of the upper hypocotyl soon after germination, and it is maintained in a closed stage while the hypocotyl continues to penetrate through the soil and rapidly opens when exposed to light in proximity of the soil surface. To uncover the complex molecular network orchestrating this spatiotemporally tightly coordinated process, monitoring of the apical hook development in real time is indispensable. Here we describe an imaging platform that enables high-resolution kinetic analysis of this dynamic developmental process. © Springer Science+Business Media New York 2017."}],"citation":{"ieee":"Q. Zhu, P. Žádníková, D. Smet, D. Van Der Straeten, and E. Benková, “Real time analysis of the apical hook development,” in Plant Hormones, vol. 1497, Humana Press, 2016, pp. 1–8.","ama":"Zhu Q, Žádníková P, Smet D, Van Der Straeten D, Benková E. Real time analysis of the apical hook development. In: Plant Hormones. Vol 1497. Humana Press; 2016:1-8. doi:10.1007/978-1-4939-6469-7_1","short":"Q. Zhu, P. Žádníková, D. Smet, D. Van Der Straeten, E. Benková, in:, Plant Hormones, Humana Press, 2016, pp. 1–8.","chicago":"Zhu, Qiang, Petra Žádníková, Dajo Smet, Dominique Van Der Straeten, and Eva Benková. “Real Time Analysis of the Apical Hook Development.” In Plant Hormones, 1497:1–8. Humana Press, 2016. https://doi.org/10.1007/978-1-4939-6469-7_1.","ista":"Zhu Q, Žádníková P, Smet D, Van Der Straeten D, Benková E. 2016.Real time analysis of the apical hook development. In: Plant Hormones. Methods in Molecular Biology, vol. 1497, 1–8.","apa":"Zhu, Q., Žádníková, P., Smet, D., Van Der Straeten, D., & Benková, E. (2016). Real time analysis of the apical hook development. In Plant Hormones (Vol. 1497, pp. 1–8). Humana Press. https://doi.org/10.1007/978-1-4939-6469-7_1","mla":"Zhu, Qiang, et al. “Real Time Analysis of the Apical Hook Development.” Plant Hormones, vol. 1497, Humana Press, 2016, pp. 1–8, doi:10.1007/978-1-4939-6469-7_1."},"alternative_title":["Methods in Molecular Biology"],"publication":"Plant Hormones","page":"1 - 8","oa_version":"None"},{"volume":26,"external_id":{"isi":["000388545900020"]},"department":[{"_id":"JiFr"}],"date_published":"2016-11-21T00:00:00Z","pubrep_id":"1008","author":[{"last_name":"Rakusová","first_name":"Hana","full_name":"Rakusová, Hana"},{"first_name":"Mohamad","id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","full_name":"Abbas, Mohamad","last_name":"Abbas"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin","full_name":"Han, Huibin","last_name":"Han"},{"last_name":"Song","first_name":"Siyuan","full_name":"Song, Siyuan"},{"last_name":"Robert","first_name":"Hélène","full_name":"Robert, Hélène"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","full_name":"Friml, Jirí"}],"_id":"1212","quality_controlled":"1","project":[{"grant_number":"282300","name":"Polarity and subcellular dynamics in plants","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"file_date_updated":"2020-07-14T12:44:39Z","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:44Z","oa":1,"year":"2016","issue":"22","citation":{"ieee":"H. Rakusová, M. Abbas, H. Han, S. Song, H. Robert, and J. Friml, “Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity,” Current Biology, vol. 26, no. 22. Cell Press, pp. 3026–3032, 2016.","ama":"Rakusová H, Abbas M, Han H, Song S, Robert H, Friml J. Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. 2016;26(22):3026-3032. doi:10.1016/j.cub.2016.08.067","short":"H. Rakusová, M. Abbas, H. Han, S. Song, H. Robert, J. Friml, Current Biology 26 (2016) 3026–3032.","ista":"Rakusová H, Abbas M, Han H, Song S, Robert H, Friml J. 2016. Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. 26(22), 3026–3032.","apa":"Rakusová, H., Abbas, M., Han, H., Song, S., Robert, H., & Friml, J. (2016). Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2016.08.067","mla":"Rakusová, Hana, et al. “Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity.” Current Biology, vol. 26, no. 22, Cell Press, 2016, pp. 3026–32, doi:10.1016/j.cub.2016.08.067.","chicago":"Rakusová, Hana, Mohamad Abbas, Huibin Han, Siyuan Song, Hélène Robert, and Jiří Friml. “Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity.” Current Biology. Cell Press, 2016. https://doi.org/10.1016/j.cub.2016.08.067."},"abstract":[{"text":"Plants adjust their growth according to gravity. Gravitropism involves gravity perception, signal transduction, and asymmetric growth response, with organ bending as a consequence [1]. Asymmetric growth results from the asymmetric distribution of the plant-specific signaling molecule auxin [2] that is generated by lateral transport, mediated in the hypocotyl predominantly by the auxin transporter PIN-FORMED3 (PIN3) [3–5]. Gravity stimulation polarizes PIN3 to the bottom sides of endodermal cells, correlating with increased auxin accumulation in adjacent tissues at the lower side of the stimulated organ, where auxin induces cell elongation and, hence, organ bending. A curvature response allows the hypocotyl to resume straight growth at a defined angle [6], implying that at some point auxin symmetry is restored to prevent overbending. Here, we present initial insights into cellular and molecular mechanisms that lead to the termination of the tropic response. We identified an auxin feedback on PIN3 polarization as underlying mechanism that restores symmetry of the PIN3-dependent auxin flow. Thus, two mechanistically distinct PIN3 polarization events redirect auxin fluxes at different time points of the gravity response: first, gravity-mediated redirection of PIN3-mediated auxin flow toward the lower hypocotyl side, where auxin gradually accumulates and promotes growth, and later PIN3 polarization to the opposite cell side, depleting this auxin maximum to end the bending. Accordingly, genetic or pharmacological interference with the late PIN3 polarization prevents termination of the response and leads to hypocotyl overbending. This observation reveals a role of auxin feedback on PIN polarity in the termination of the tropic response. © 2016 Elsevier Ltd","lang":"eng"}],"file":[{"date_created":"2018-12-12T10:09:33Z","creator":"system","date_updated":"2020-07-14T12:44:39Z","file_size":5391923,"content_type":"application/pdf","relation":"main_file","access_level":"open_access","checksum":"79ed2498185a027cf51a8f88100379e6","file_id":"4757","file_name":"IST-2018-1008-v1+1_Rakusova_CurrBiol_2016_proof.pdf"}],"oa_version":"Submitted Version","month":"11","acknowledgement":"We thank Dr. Jie Li (Key Laboratory of Plant Molecular Physiology, Chinese Academy of Science, China) for the pPIN3::PIN3-GFP/DII::VENUS line and Martine De Cock for help in preparing the manuscript. This work was supported by the European Research Council (project ERC-2011-StG-20101109-PSDP), by the Czech Science Foundation GAČR (GA13-40637S) to J.F., and by the Ministry of Education, Youth and Sports of the Czech Republic under the project CEITEC 2020 (LQ1601) to H.S.R. H.R. is indebted to the Agency for Innovation by Science and Technology (IWT) for a predoctoral fellowship.\r\n","isi":1,"ddc":["581"],"date_updated":"2025-09-22T09:37:31Z","title":"Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity","publisher":"Cell Press","publist_id":"6138","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","intvolume":" 26","article_processing_charge":"No","status":"public","publication_status":"published","day":"21","doi":"10.1016/j.cub.2016.08.067","ec_funded":1,"publication":"Current Biology","page":"3026 - 3032","scopus_import":"1","has_accepted_license":"1","type":"journal_article"},{"scopus_import":1,"acknowledgement":"RD thanks for the hospitality at the Max-Planck-Institute and for helpful discussions with Nihat Ay and Keyan Zahedi.","month":"11","type":"conference","citation":{"chicago":"Martius, Georg S, Raphael Hostettler, Alois Knoll, and Ralf Der. “Compliant Control for Soft Robots: Emergent Behavior of a Tendon Driven Anthropomorphic Arm,” Vol. 2016–November. IEEE, 2016. https://doi.org/10.1109/IROS.2016.7759138.","ista":"Martius GS, Hostettler R, Knoll A, Der R. 2016. Compliant control for soft robots: Emergent behavior of a tendon driven anthropomorphic arm. IEEE RSJ International Conference on Intelligent Robots and Systems IROS vol. 2016–November, 7759138.","apa":"Martius, G. S., Hostettler, R., Knoll, A., & Der, R. (2016). Compliant control for soft robots: Emergent behavior of a tendon driven anthropomorphic arm (Vol. 2016–November). Presented at the IEEE RSJ International Conference on Intelligent Robots and Systems IROS , Daejeon, Korea: IEEE. https://doi.org/10.1109/IROS.2016.7759138","mla":"Martius, Georg S., et al. Compliant Control for Soft Robots: Emergent Behavior of a Tendon Driven Anthropomorphic Arm. Vol. 2016–November, 7759138, IEEE, 2016, doi:10.1109/IROS.2016.7759138.","short":"G.S. Martius, R. Hostettler, A. Knoll, R. Der, in:, IEEE, 2016.","ama":"Martius GS, Hostettler R, Knoll A, Der R. Compliant control for soft robots: Emergent behavior of a tendon driven anthropomorphic arm. In: Vol 2016-November. IEEE; 2016. doi:10.1109/IROS.2016.7759138","ieee":"G. S. Martius, R. Hostettler, A. Knoll, and R. Der, “Compliant control for soft robots: Emergent behavior of a tendon driven anthropomorphic arm,” presented at the IEEE RSJ International Conference on Intelligent Robots and Systems IROS , Daejeon, Korea, 2016, vol. 2016–November."},"abstract":[{"lang":"eng","text":"With the accelerated development of robot technologies, optimal control becomes one of the central themes of research. In traditional approaches, the controller, by its internal functionality, finds appropriate actions on the basis of the history of sensor values, guided by the goals, intentions, objectives, learning schemes, and so forth. While very successful with classical robots, these methods run into severe difficulties when applied to soft robots, a new field of robotics with large interest for human-robot interaction. We claim that a novel controller paradigm opens new perspective for this field. This paper applies a recently developed neuro controller with differential extrinsic synaptic plasticity to a muscle-tendon driven arm-shoulder system from the Myorobotics toolkit. In the experiments, we observe a vast variety of self-organized behavior patterns: when left alone, the arm realizes pseudo-random sequences of different poses. By applying physical forces, the system can be entrained into definite motion patterns like wiping a table. Most interestingly, after attaching an object, the controller gets in a functional resonance with the object's internal dynamics, starting to shake spontaneously bottles half-filled with water or sensitively driving an attached pendulum into a circular mode. When attached to the crank of a wheel the neural system independently develops to rotate it. In this way, the robot discovers affordances of objects its body is interacting with."}],"oa_version":"None","year":"2016","doi":"10.1109/IROS.2016.7759138","quality_controlled":"1","date_created":"2018-12-11T11:50:45Z","day":"28","publication_status":"published","conference":{"name":"IEEE RSJ International Conference on Intelligent Robots and Systems IROS ","end_date":"2016-09-14","start_date":"2016-09-09","location":"Daejeon, Korea"},"language":[{"iso":"eng"}],"status":"public","author":[{"first_name":"Georg S","id":"3A276B68-F248-11E8-B48F-1D18A9856A87","full_name":"Martius, Georg S","last_name":"Martius"},{"full_name":"Hostettler, Raphael","first_name":"Raphael","last_name":"Hostettler"},{"full_name":"Knoll, Alois","first_name":"Alois","last_name":"Knoll"},{"last_name":"Der","full_name":"Der, Ralf","first_name":"Ralf"}],"_id":"1214","title":"Compliant control for soft robots: Emergent behavior of a tendon driven anthropomorphic arm","publisher":"IEEE","publist_id":"6121","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ChLa"},{"_id":"GaTk"}],"date_published":"2016-11-28T00:00:00Z","date_updated":"2021-01-12T06:49:08Z","volume":"2016-November","article_number":"7759138"},{"title":"Acceleration feature points of unsteady shear flows","publisher":"Polish Academy of Sciences Publishing House","publist_id":"6118","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","intvolume":" 68","_id":"1216","author":[{"last_name":"Kasten","first_name":"Jens","full_name":"Kasten, Jens"},{"first_name":"Jan","id":"4505473A-F248-11E8-B48F-1D18A9856A87","full_name":"Reininghaus, Jan","last_name":"Reininghaus"},{"last_name":"Hotz","full_name":"Hotz, Ingrid","first_name":"Ingrid"},{"last_name":"Hege","first_name":"Hans","full_name":"Hege, Hans"},{"last_name":"Noack","first_name":"Bernd","full_name":"Noack, Bernd"},{"first_name":"Guillaume","full_name":"Daviller, Guillaume","last_name":"Daviller"},{"last_name":"Morzyński","full_name":"Morzyński, Marek","first_name":"Marek"}],"volume":68,"department":[{"_id":"HeEd"}],"date_published":"2016-01-01T00:00:00Z","date_updated":"2021-01-12T06:49:09Z","publication":"Archives of Mechanics","citation":{"ieee":"J. Kasten et al., “Acceleration feature points of unsteady shear flows,” Archives of Mechanics, vol. 68, no. 1. Polish Academy of Sciences Publishing House, pp. 55–80, 2016.","ama":"Kasten J, Reininghaus J, Hotz I, et al. Acceleration feature points of unsteady shear flows. Archives of Mechanics. 2016;68(1):55-80.","short":"J. Kasten, J. Reininghaus, I. Hotz, H. Hege, B. Noack, G. Daviller, M. Morzyński, Archives of Mechanics 68 (2016) 55–80.","mla":"Kasten, Jens, et al. “Acceleration Feature Points of Unsteady Shear Flows.” Archives of Mechanics, vol. 68, no. 1, Polish Academy of Sciences Publishing House, 2016, pp. 55–80.","ista":"Kasten J, Reininghaus J, Hotz I, Hege H, Noack B, Daviller G, Morzyński M. 2016. Acceleration feature points of unsteady shear flows. Archives of Mechanics. 68(1), 55–80.","apa":"Kasten, J., Reininghaus, J., Hotz, I., Hege, H., Noack, B., Daviller, G., & Morzyński, M. (2016). Acceleration feature points of unsteady shear flows. Archives of Mechanics. Polish Academy of Sciences Publishing House.","chicago":"Kasten, Jens, Jan Reininghaus, Ingrid Hotz, Hans Hege, Bernd Noack, Guillaume Daviller, and Marek Morzyński. “Acceleration Feature Points of Unsteady Shear Flows.” Archives of Mechanics. Polish Academy of Sciences Publishing House, 2016."},"abstract":[{"lang":"eng","text":"A framework fo r extracting features in 2D transient flows, based on the acceleration field to ensure Galilean invariance is proposed in this paper. The minima of the acceleration magnitude (a superset of acceleration zeros) are extracted and discriminated into vortices and saddle points, based on the spectral properties of the velocity Jacobian. The extraction of topological features is performed with purely combinatorial algorithms from discrete computational topology. The feature points are prioritized with persistence, as a physically meaningful importance measure. These feature points are tracked in time with a robust algorithm for tracking features. Thus, a space-time hierarchy of the minima is built and vortex merging events are detected. We apply the acceleration feature extraction strategy to three two-dimensional shear flows: (1) an incompressible periodic cylinder wake, (2) an incompressible planar mixing layer and (3) a weakly compressible planar jet. The vortex-like acceleration feature points are shown to be well aligned with acceleration zeros, maxima of the vorticity magnitude, minima of the pressure field and minima of λ2."}],"oa_version":"Published Version","page":"55 - 80","scopus_import":1,"acknowledgement":"The authors acknowledge funding of the German Re-\r\nsearch Foundation (DFG) via the Collaborative Re-\r\nsearch Center (SFB 557) \\Control of Complex Turbu-\r\nlent Shear Flows\" and the Emmy Noether Program.\r\nFurther funding was provided by the Zuse Institute\r\nBerlin (ZIB), the DFG-CNRS research group \\Noise\r\nGeneration in Turbulent Flows\" (2003{2010), the Chaire\r\nd'Excellence 'Closed-loop control of turbulent shear ows\r\nusing reduced-order models' (TUCOROM) of the French\r\nAgence Nationale de la Recherche (ANR), and the Eu-\r\nropean Social Fund (ESF App. No. 100098251). We\r\nthank the Ambrosys Ltd. Society for Complex Sys-\r\ntems Management and the Bernd R. Noack Cybernet-\r\nics Foundation for additional support. A part of this\r\nwork was performed using HPC resources from GENCI-[CCRT/CINES/IDRIS] supported by the Grant 2011-\r\n[x2011020912","month":"01","main_file_link":[{"url":"http://am.ippt.pan.pl/am/article/viewFile/v68p55/pdf","open_access":"1"}],"type":"journal_article","quality_controlled":"1","day":"01","status":"public","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:46Z","publication_status":"published","year":"2016","oa":1,"issue":"1"},{"publication":"Immunology and Cell Biology","page":"39 - 51","scopus_import":"1","type":"journal_article","day":"01","publication_status":"published","status":"public","doi":"10.1038/icb.2015.62","publisher":"Nature Publishing Group","title":"Efficient T-cell priming and activation requires signaling through prostaglandin E2 (EP) receptors","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publist_id":"6116","intvolume":" 94","article_processing_charge":"No","date_updated":"2025-09-22T09:34:26Z","citation":{"ama":"Sreeramkumar V, Hons M, Punzón C, et al. Efficient T-cell priming and activation requires signaling through prostaglandin E2 (EP) receptors. Immunology and Cell Biology. 2016;94(1):39-51. doi:10.1038/icb.2015.62","ieee":"V. Sreeramkumar et al., “Efficient T-cell priming and activation requires signaling through prostaglandin E2 (EP) receptors,” Immunology and Cell Biology, vol. 94, no. 1. Nature Publishing Group, pp. 39–51, 2016.","chicago":"Sreeramkumar, Vinatha, Miroslav Hons, Carmen Punzón, Jens Stein, David Sancho, Manuel Fresno Forcelledo, and Natalia Cuesta. “Efficient T-Cell Priming and Activation Requires Signaling through Prostaglandin E2 (EP) Receptors.” Immunology and Cell Biology. Nature Publishing Group, 2016. https://doi.org/10.1038/icb.2015.62.","ista":"Sreeramkumar V, Hons M, Punzón C, Stein J, Sancho D, Fresno Forcelledo M, Cuesta N. 2016. Efficient T-cell priming and activation requires signaling through prostaglandin E2 (EP) receptors. Immunology and Cell Biology. 94(1), 39–51.","apa":"Sreeramkumar, V., Hons, M., Punzón, C., Stein, J., Sancho, D., Fresno Forcelledo, M., & Cuesta, N. (2016). Efficient T-cell priming and activation requires signaling through prostaglandin E2 (EP) receptors. Immunology and Cell Biology. Nature Publishing Group. https://doi.org/10.1038/icb.2015.62","mla":"Sreeramkumar, Vinatha, et al. “Efficient T-Cell Priming and Activation Requires Signaling through Prostaglandin E2 (EP) Receptors.” Immunology and Cell Biology, vol. 94, no. 1, Nature Publishing Group, 2016, pp. 39–51, doi:10.1038/icb.2015.62.","short":"V. Sreeramkumar, M. Hons, C. Punzón, J. Stein, D. Sancho, M. Fresno Forcelledo, N. Cuesta, Immunology and Cell Biology 94 (2016) 39–51."},"abstract":[{"text":"Understanding the regulation of T-cell responses during inflammation and auto-immunity is fundamental for designing efficient therapeutic strategies against immune diseases. In this regard, prostaglandin E 2 (PGE 2) is mostly considered a myeloid-derived immunosuppressive molecule. We describe for the first time that T cells secrete PGE 2 during T-cell receptor stimulation. In addition, we show that autocrine PGE 2 signaling through EP receptors is essential for optimal CD4 + T-cell activation in vitro and in vivo, and for T helper 1 (Th1) and regulatory T cell differentiation. PGE 2 was found to provide additive co-stimulatory signaling through AKT activation. Intravital multiphoton microscopy showed that triggering EP receptors in T cells is also essential for the stability of T cell-dendritic cell (DC) interactions and Th-cell accumulation in draining lymph nodes (LNs) during inflammation. We further demonstrated that blocking EP receptors in T cells during the initial phase of collagen-induced arthritis in mice resulted in a reduction of clinical arthritis. This could be attributable to defective T-cell activation, accompanied by a decline in activated and interferon-γ-producing CD4 + Th1 cells in draining LNs. In conclusion, we prove that T lymphocytes secret picomolar concentrations of PGE 2, which in turn provide additive co-stimulatory signaling, enabling T cells to attain a favorable activation threshold. PGE 2 signaling in T cells is also required for maintaining long and stable interactions with DCs within LNs. Blockade of EP receptors in vivo impairs T-cell activation and development of T cell-mediated inflammatory responses. This may have implications in various pathophysiological settings.","lang":"eng"}],"oa_version":"None","month":"01","acknowledgement":"This manuscript has been supported by grants SAF2007-61716 and S-SAL-0159/2006 awarded by the Spanish Ministry of Science and Education and the Community of Madrid to Dr M Fresno.","isi":1,"quality_controlled":"1","date_created":"2018-12-11T11:50:46Z","language":[{"iso":"eng"}],"year":"2016","issue":"1","_id":"1217","author":[{"last_name":"Sreeramkumar","full_name":"Sreeramkumar, Vinatha","first_name":"Vinatha"},{"orcid":"0000-0002-6625-3348","last_name":"Hons","first_name":"Miroslav","id":"4167FE56-F248-11E8-B48F-1D18A9856A87","full_name":"Hons, Miroslav"},{"last_name":"Punzón","full_name":"Punzón, Carmen","first_name":"Carmen"},{"first_name":"Jens","full_name":"Stein, Jens","last_name":"Stein"},{"first_name":"David","full_name":"Sancho, David","last_name":"Sancho"},{"first_name":"Manuel","full_name":"Fresno Forcelledo, Manuel","last_name":"Fresno Forcelledo"},{"last_name":"Cuesta","first_name":"Natalia","full_name":"Cuesta, Natalia"}],"external_id":{"isi":["000367628600005"]},"volume":94,"date_published":"2016-01-01T00:00:00Z","department":[{"_id":"MiSi"}]},{"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:46Z","quality_controlled":"1","issue":"14","year":"2016","oa":1,"oa_version":"Submitted Version","citation":{"ieee":"A. Angermayr et al., “Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance costs,” Applied and Environmental Microbiology, vol. 82, no. 14. American Society for Microbiology, pp. 4180–4189, 2016.","ama":"Angermayr A, Van Alphen P, Hasdemir D, et al. Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance costs. Applied and Environmental Microbiology. 2016;82(14):4180-4189. doi:10.1128/AEM.00256-16","short":"A. Angermayr, P. Van Alphen, D. Hasdemir, G. Kramer, M. Iqbal, W. Van Grondelle, H. Hoefsloot, Y. Choi, K. Hellingwerf, Applied and Environmental Microbiology 82 (2016) 4180–4189.","chicago":"Angermayr, Andreas, Pascal Van Alphen, Dicle Hasdemir, Gertjan Kramer, Muzamal Iqbal, Wilmar Van Grondelle, Huub Hoefsloot, Younghae Choi, and Klaas Hellingwerf. “Culturing Synechocystis Sp. Strain Pcc 6803 with N2 and CO2 in a Diel Regime Reveals Multiphase Glycogen Dynamics with Low Maintenance Costs.” Applied and Environmental Microbiology. American Society for Microbiology, 2016. https://doi.org/10.1128/AEM.00256-16.","apa":"Angermayr, A., Van Alphen, P., Hasdemir, D., Kramer, G., Iqbal, M., Van Grondelle, W., … Hellingwerf, K. (2016). Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance costs. Applied and Environmental Microbiology. American Society for Microbiology. https://doi.org/10.1128/AEM.00256-16","mla":"Angermayr, Andreas, et al. “Culturing Synechocystis Sp. Strain Pcc 6803 with N2 and CO2 in a Diel Regime Reveals Multiphase Glycogen Dynamics with Low Maintenance Costs.” Applied and Environmental Microbiology, vol. 82, no. 14, American Society for Microbiology, 2016, pp. 4180–89, doi:10.1128/AEM.00256-16.","ista":"Angermayr A, Van Alphen P, Hasdemir D, Kramer G, Iqbal M, Van Grondelle W, Hoefsloot H, Choi Y, Hellingwerf K. 2016. Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance costs. Applied and Environmental Microbiology. 82(14), 4180–4189."},"abstract":[{"lang":"eng","text":"Investigating the physiology of cyanobacteria cultured under a diel light regime is relevant for a better understanding of the resulting growth characteristics and for specific biotechnological applications that are foreseen for these photosynthetic organisms. Here, we present the results of a multiomics study of the model cyanobacterium Synechocystis sp. strain PCC 6803, cultured in a lab-scale photobioreactor in physiological conditions relevant for large-scale culturing. The culture was sparged withN2 andCO2, leading to an anoxic environment during the dark period. Growth followed the availability of light. Metabolite analysis performed with 1Hnuclear magnetic resonance analysis showed that amino acids involved in nitrogen and sulfur assimilation showed elevated levels in the light. Most protein levels, analyzed through mass spectrometry, remained rather stable. However, several high-light-response proteins and stress-response proteins showed distinct changes at the onset of the light period. Microarray-based transcript analysis found common patterns of~56% of the transcriptome following the diel regime. These oscillating transcripts could be grouped coarsely into genes that were upregulated and downregulated in the dark period. The accumulated glycogen was degraded in the anaerobic environment in the dark. A small part was degraded gradually, reflecting basic maintenance requirements of the cells in darkness. Surprisingly, the largest part was degraded rapidly in a short time span at the end of the dark period. This degradation could allow rapid formation of metabolic intermediates at the end of the dark period, preparing the cells for the resumption of growth at the start of the light period."}],"isi":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4959195/"}],"month":"07","acknowledgement":"Dutch Ministry of Economic Affairs, Agriculture, and Innovation through the program BioSolar CellsS. Andreas Angermayr,Pascal van Alphen, Klaas J. Hellingwerf\r\nWe thank Naira Quintana (presently at Rousselot, Belgium) for the ini-\r\ntiative at the 10th Cyanobacterial Molecular Biology Workshop\r\n(CMBW), June 2010, Lake Arrowhead, Los Angeles, CA, USA, to start the\r\ncollaborative endeavor reported here. We thank Timo Maarleveld from\r\nCWI/VU (Amsterdam) for a custom-made Python script handling the output from the NMR analysis and for evaluating and visualizing the\r\nseparate metabolites for their evaluation. We thank Rob Verpoorte from\r\nLeiden University (metabolome analysis) and Hans Aerts from the AMC\r\n(proteome analysis) for lab space and equipment. We thank Robert Leh-\r\nmann (Humboldt University Berlin) and Ilka Axmann (University of\r\nDüsseldorf) for sharing the R-code for the LOS transformation of the\r\ntranscript data. We thank Hans C. P. Matthijs from IBED for inspiring\r\ndialogues and insightful thoughts on continuous culturing of cyanobac-\r\nteria. We thank Sandra Waaijenborg for performing the transcript nor-\r\nmalization and Johan Westerhuis from BDA, Jeroen van der Steen and\r\nFilipe Branco dos Santos from MMP, and Lucas Stal from IBED/NIOZ for\r\nhelpful discussions. We thank Milou Schuurmans from MMP for help\r\nwith sampling and glycogen determination. We thank the members of the\r\nRNA Biology & Applied Bioinformatics group at SILS, in particular Selina\r\nvan Leeuwen, Elisa Hoekstra, and Martijs Jonker, for the microarray anal-\r\nysis. We thank the reviewers of this work for their insightful comments\r\nwhich improved the quality of the manuscript. This work, including the efforts of S. Andreas Angermayr, Pascal van\r\nAlphen, and Klaas J. Hellingwerf, was funded by Dutch Ministry of Eco-\r\nnomic Affairs, Agriculture, and Innovation through the program BioSolar\r\nCells.","volume":82,"external_id":{"isi":["000379345100012"]},"department":[{"_id":"ToBo"}],"date_published":"2016-07-01T00:00:00Z","_id":"1218","author":[{"orcid":"0000-0001-8619-2223","last_name":"Angermayr","first_name":"Andreas","id":"4677C796-F248-11E8-B48F-1D18A9856A87","full_name":"Angermayr, Andreas"},{"full_name":"Van Alphen, Pascal","first_name":"Pascal","last_name":"Van Alphen"},{"full_name":"Hasdemir, Dicle","first_name":"Dicle","last_name":"Hasdemir"},{"last_name":"Kramer","first_name":"Gertjan","full_name":"Kramer, Gertjan"},{"full_name":"Iqbal, Muzamal","first_name":"Muzamal","last_name":"Iqbal"},{"last_name":"Van Grondelle","full_name":"Van Grondelle, Wilmar","first_name":"Wilmar"},{"last_name":"Hoefsloot","full_name":"Hoefsloot, Huub","first_name":"Huub"},{"last_name":"Choi","first_name":"Younghae","full_name":"Choi, Younghae"},{"first_name":"Klaas","full_name":"Hellingwerf, Klaas","last_name":"Hellingwerf"}],"publication_status":"published","status":"public","day":"01","doi":"10.1128/AEM.00256-16","page":"4180 - 4189","publication":"Applied and Environmental Microbiology","type":"journal_article","scopus_import":"1","date_updated":"2025-09-22T09:35:22Z","publist_id":"6117","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance costs","publisher":"American Society for Microbiology","article_processing_charge":"No","intvolume":" 82"},{"department":[{"_id":"LaEr"}],"date_published":"2016-01-01T00:00:00Z","external_id":{"isi":["000376180700016"],"arxiv":["1405.6634"]},"volume":44,"_id":"1219","author":[{"first_name":"Jioon","full_name":"Lee, Jioon","last_name":"Lee"},{"id":"434AD0AE-F248-11E8-B48F-1D18A9856A87","first_name":"Kevin","full_name":"Schnelli, Kevin","orcid":"0000-0003-0954-3231","last_name":"Schnelli"},{"last_name":"Stetler","first_name":"Ben","full_name":"Stetler, Ben"},{"full_name":"Yau, Horngtzer","first_name":"Horngtzer","last_name":"Yau"}],"issue":"3","year":"2016","oa":1,"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:47Z","project":[{"grant_number":"338804","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1405.6634","open_access":"1"}],"isi":1,"acknowledgement":"J.C. was supported in part by National Research Foundation of Korea Grant 2011-0013474 and TJ Park Junior Faculty Fellowship.\r\nK.S. was supported by ERC Advanced Grant RANMAT, No. 338804, and the \"Fund for Math.\"\r\nB.S. was supported by NSF GRFP Fellowship DGE-1144152.\r\nH.Y. was supported in part by NSF Grant DMS-13-07444 and Simons investigator fellowship. We thank Paul Bourgade, László Erd ̋os and Antti Knowles for helpful comments. We are grateful to the Taida Institute for Mathematical\r\nSciences and National Taiwan Universality for their hospitality during part of this\r\nresearch. We thank Thomas Spencer and the Institute for Advanced Study for their\r\nhospitality during the academic year 2013–2014. ","month":"01","oa_version":"Preprint","abstract":[{"text":"We consider N×N random matrices of the form H = W + V where W is a real symmetric or complex Hermitian Wigner matrix and V is a random or deterministic, real, diagonal matrix whose entries are independent of W. We assume subexponential decay for the matrix entries of W, and we choose V so that the eigenvalues ofW and V are typically of the same order. For a large class of diagonal matrices V , we show that the local statistics in the bulk of the spectrum are universal in the limit of large N.","lang":"eng"}],"citation":{"ama":"Lee J, Schnelli K, Stetler B, Yau H. Bulk universality for deformed wigner matrices. Annals of Probability. 2016;44(3):2349-2425. doi:10.1214/15-AOP1023","ieee":"J. Lee, K. Schnelli, B. Stetler, and H. Yau, “Bulk universality for deformed wigner matrices,” Annals of Probability, vol. 44, no. 3. Institute of Mathematical Statistics, pp. 2349–2425, 2016.","mla":"Lee, Jioon, et al. “Bulk Universality for Deformed Wigner Matrices.” Annals of Probability, vol. 44, no. 3, Institute of Mathematical Statistics, 2016, pp. 2349–425, doi:10.1214/15-AOP1023.","apa":"Lee, J., Schnelli, K., Stetler, B., & Yau, H. (2016). Bulk universality for deformed wigner matrices. Annals of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/15-AOP1023","ista":"Lee J, Schnelli K, Stetler B, Yau H. 2016. Bulk universality for deformed wigner matrices. Annals of Probability. 44(3), 2349–2425.","chicago":"Lee, Jioon, Kevin Schnelli, Ben Stetler, and Horngtzer Yau. “Bulk Universality for Deformed Wigner Matrices.” Annals of Probability. Institute of Mathematical Statistics, 2016. https://doi.org/10.1214/15-AOP1023.","short":"J. Lee, K. Schnelli, B. Stetler, H. Yau, Annals of Probability 44 (2016) 2349–2425."},"date_updated":"2025-09-22T09:33:43Z","arxiv":1,"article_processing_charge":"No","intvolume":" 44","publist_id":"6115","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Bulk universality for deformed wigner matrices","publisher":"Institute of Mathematical Statistics","doi":"10.1214/15-AOP1023","publication_status":"published","status":"public","day":"01","type":"journal_article","scopus_import":"1","page":"2349 - 2425","ec_funded":1,"publication":"Annals of Probability"},{"citation":{"ama":"Waitukaitis SR, Van Hecke M. Origami building blocks: Generic and special four-vertices. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 2016;93(2). doi:10.1103/PhysRevE.93.023003","ieee":"S. R. Waitukaitis and M. Van Hecke, “Origami building blocks: Generic and special four-vertices,” Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, vol. 93, no. 2. American Physiological Society, 2016.","apa":"Waitukaitis, S. R., & Van Hecke, M. (2016). Origami building blocks: Generic and special four-vertices. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. American Physiological Society. https://doi.org/10.1103/PhysRevE.93.023003","mla":"Waitukaitis, Scott R., and Martin Van Hecke. “Origami Building Blocks: Generic and Special Four-Vertices.” Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, vol. 93, no. 2, 023003, American Physiological Society, 2016, doi:10.1103/PhysRevE.93.023003.","ista":"Waitukaitis SR, Van Hecke M. 2016. Origami building blocks: Generic and special four-vertices. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 93(2), 023003.","chicago":"Waitukaitis, Scott R, and Martin Van Hecke. “Origami Building Blocks: Generic and Special Four-Vertices.” Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. American Physiological Society, 2016. https://doi.org/10.1103/PhysRevE.93.023003.","short":"S.R. Waitukaitis, M. Van Hecke, Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 93 (2016)."},"abstract":[{"text":"Four rigid panels connected by hinges that meet at a point form a four-vertex, the fundamental building block of origami metamaterials. Most materials designed so far are based on the same four-vertex geometry, and little is known regarding how different geometries affect folding behavior. Here we systematically categorize and analyze the geometries and resulting folding motions of Euclidean four-vertices. Comparing the relative sizes of sector angles, we identify three types of generic vertices and two accompanying subtypes. We determine which folds can fully close and the possible mountain-valley assignments. Next, we consider what occurs when sector angles or sums thereof are set equal, which results in 16 special vertex types. One of these, flat-foldable vertices, has been studied extensively, but we show that a wide variety of qualitatively different folding motions exist for the other 15 special and 3 generic types. Our work establishes a straightforward set of rules for understanding the folding motion of both generic and special four-vertices and serves as a roadmap for designing origami metamaterials.","lang":"eng"}],"oa_version":"Preprint","acknowledgement":"This work is part of the research programme of the Foundation for Fundamental Research on Matter (FOM), which is part of the Netherlands Organisation for Scientific Research (NWO).","month":"02","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1507.08442"}],"quality_controlled":"1","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:44:44Z","extern":"1","oa":1,"year":"2016","issue":"2","author":[{"first_name":"Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","full_name":"Waitukaitis, Scott R","orcid":"0000-0002-2299-3176","last_name":"Waitukaitis"},{"last_name":"Van Hecke","first_name":"Martin","full_name":"Van Hecke, Martin"}],"_id":"122","external_id":{"arxiv":["1507.08442"]},"volume":93,"article_number":"023003","date_published":"2016-02-03T00:00:00Z","publication":"Physical Review E - Statistical, Nonlinear, and Soft Matter Physics","type":"journal_article","status":"public","publication_status":"published","day":"03","doi":"10.1103/PhysRevE.93.023003","publisher":"American Physiological Society","title":"Origami building blocks: Generic and special four-vertices","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publist_id":"7932","intvolume":" 93","arxiv":1,"date_updated":"2021-01-12T06:49:10Z"},{"author":[{"last_name":"Mikić","first_name":"Gregor","full_name":"Mikić, Gregor"},{"first_name":"Alex","full_name":"Stoll, Alex","last_name":"Stoll"},{"last_name":"Bevirt","full_name":"Bevirt, Joe","first_name":"Joe"},{"orcid":"0000-0003-2539-3560","last_name":"Grah","full_name":"Grah, Rok","first_name":"Rok","id":"483E70DE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Moore","first_name":"Mark","full_name":"Moore, Mark"}],"_id":"1220","publist_id":"6114","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency","publisher":"AIAA","date_updated":"2023-02-21T10:17:50Z","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"date_published":"2016-06-01T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://ntrs.nasa.gov/search.jsp?R=20160010167&hterms=Fuselage+boundary+layer+ingestion+propulsion+applied+thin+haul+commuter+aircraft+optimal+efficiency&qs=N%3D0%26Ntk%3DAll%26Ntt%3DFuselage%2520boundary%2520layer%2520ingestion%2520propulsion%2520applied%2520to%2520a%2520thin%2520haul%2520commuter%2520aircraft%2520for%2520optimal%2520efficiency%26Ntx%3Dmode%2520matchallpartial%26Nm%3D123%7CCollection%7CNASA%2520STI%7C%7C17%7CCollection%7CNACA"}],"type":"conference","scopus_import":1,"month":"06","page":"1 - 19","oa_version":"Preprint","citation":{"ieee":"G. Mikić, A. Stoll, J. Bevirt, R. Grah, and M. Moore, “Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency,” presented at the AIAA: Aviation Technology, Integration, and Operations Conference, Washington, D.C., USA, 2016, pp. 1–19.","ama":"Mikić G, Stoll A, Bevirt J, Grah R, Moore M. Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency. In: AIAA; 2016:1-19. doi:10.2514/6.2016-3764","short":"G. Mikić, A. Stoll, J. Bevirt, R. Grah, M. Moore, in:, AIAA, 2016, pp. 1–19.","chicago":"Mikić, Gregor, Alex Stoll, Joe Bevirt, Rok Grah, and Mark Moore. “Fuselage Boundary Layer Ingestion Propulsion Applied to a Thin Haul Commuter Aircraft for Optimal Efficiency,” 1–19. AIAA, 2016. https://doi.org/10.2514/6.2016-3764.","ista":"Mikić G, Stoll A, Bevirt J, Grah R, Moore M. 2016. Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency. AIAA: Aviation Technology, Integration, and Operations Conference, 1–19.","mla":"Mikić, Gregor, et al. Fuselage Boundary Layer Ingestion Propulsion Applied to a Thin Haul Commuter Aircraft for Optimal Efficiency. AIAA, 2016, pp. 1–19, doi:10.2514/6.2016-3764.","apa":"Mikić, G., Stoll, A., Bevirt, J., Grah, R., & Moore, M. (2016). Fuselage boundary layer ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency (pp. 1–19). Presented at the AIAA: Aviation Technology, Integration, and Operations Conference, Washington, D.C., USA: AIAA. https://doi.org/10.2514/6.2016-3764"},"abstract":[{"text":"Theoretical and numerical aspects of aerodynamic efficiency of propulsion systems coupled to the boundary layer of a fuselage are studied. We discuss the effects of local flow fields, which are affected both by conservative flow acceleration as well as total pressure losses, on the efficiency of boundary layer immersed propulsion devices. We introduce the concept of a boundary layer retardation turbine that helps reduce skin friction over the fuselage. We numerically investigate efficiency gains offered by boundary layer and wake interacting devices. We discuss the results in terms of a total energy consumption framework and show that efficiency gains of any device depend on all the other elements of the propulsion system.","lang":"eng"}],"doi":"10.2514/6.2016-3764","year":"2016","oa":1,"day":"01","conference":{"location":"Washington, D.C., USA","start_date":"2016-06-13","end_date":"2016-06-17","name":"AIAA: Aviation Technology, Integration, and Operations Conference"},"publication_status":"published","date_created":"2018-12-11T11:50:47Z","status":"public","language":[{"iso":"eng"}],"quality_controlled":"1"},{"department":[{"_id":"JiFr"}],"date_published":"2016-01-20T00:00:00Z","pubrep_id":"711","article_number":"86","volume":5,"author":[{"last_name":"Michalko","id":"483727CA-F248-11E8-B48F-1D18A9856A87","first_name":"Jaroslav","full_name":"Michalko, Jaroslav"},{"full_name":"Glanc, Matous","first_name":"Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","last_name":"Glanc","orcid":"0000-0003-0619-7783"},{"first_name":"Catherine","full_name":"Perrot Rechenmann, Catherine","last_name":"Perrot Rechenmann"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"}],"_id":"1221","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"year":"2016","oa":1,"date_created":"2018-12-11T11:50:47Z","language":[{"iso":"eng"}],"quality_controlled":"1","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants","grant_number":"282300","call_identifier":"FP7"}],"file_date_updated":"2020-07-14T12:44:39Z","acknowledgement":"This work was supported by ERC Independent Research grant (ERC-2011-StG-20101109-PSDP to JF). JM internship was supported by the grant “Action Austria – Slovakia”. MG was supported by the scholarship \"Stipendien der Stipendienstiftung der Republik Österreich\". Work by EH and CPR were supported by ANR blanc ANR-14-CE11-0018. We would like to thank Mark Estelle and Yunde Zhao for provid\r\n-\r\ning \r\nabp1-c1\r\n, \r\nabp1-TD1 \r\nand \r\nabp1-WTc1 \r\nseeds. We thank Emeline \r\nHuault for technical assistance.","month":"01","license":"https://creativecommons.org/licenses/by/4.0/","oa_version":"Published Version","file":[{"file_name":"IST-2016-711-v1+1_770cf1e0-612f-4e85-a500-54b6349fbbab_7654_-_jaroslav_michalko.pdf","file_id":"5154","checksum":"c9e50bb6096a7ba4a832969935820f19","access_level":"open_access","relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:44:39Z","file_size":2990459,"date_created":"2018-12-12T10:15:33Z","creator":"system"}],"citation":{"short":"J. Michalko, M. Glanc, C. Perrot Rechenmann, J. Friml, F1000 Research 5 (2016).","ista":"Michalko J, Glanc M, Perrot Rechenmann C, Friml J. 2016. Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . 5, 86.","apa":"Michalko, J., Glanc, M., Perrot Rechenmann, C., & Friml, J. (2016). Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . F1000 Research. https://doi.org/10.12688/f1000research.7654.1","mla":"Michalko, Jaroslav, et al. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” F1000 Research , vol. 5, 86, F1000 Research, 2016, doi:10.12688/f1000research.7654.1.","chicago":"Michalko, Jaroslav, Matous Glanc, Catherine Perrot Rechenmann, and Jiří Friml. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” F1000 Research . F1000 Research, 2016. https://doi.org/10.12688/f1000research.7654.1.","ieee":"J. Michalko, M. Glanc, C. Perrot Rechenmann, and J. Friml, “Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein,” F1000 Research , vol. 5. F1000 Research, 2016.","ama":"Michalko J, Glanc M, Perrot Rechenmann C, Friml J. Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . 2016;5. doi:10.12688/f1000research.7654.1"},"abstract":[{"lang":"eng","text":"The Auxin Binding Protein 1 (ABP1) is one of the most studied proteins in plants. Since decades ago, it has been the prime receptor candidate for the plant hormone auxin with a plethora of described functions in auxin signaling and development. The developmental importance of ABP1 has recently been questioned by identification of Arabidopsis thaliana abp1 knock-out alleles that show no obvious phenotypes under normal growth conditions. In this study, we examined the contradiction between the normal growth and development of the abp1 knock-outs and the strong morphological defects observed in three different ethanol-inducible abp1 knock-down mutants ( abp1-AS, SS12K, SS12S). By analyzing segregating populations of abp1 knock-out vs. abp1 knock-down crosses we show that the strong morphological defects that were believed to be the result of conditional down-regulation of ABP1 can be reproduced also in the absence of the functional ABP1 protein. This data suggests that the phenotypes in abp1 knock-down lines are due to the off-target effects and asks for further reflections on the biological function of ABP1 or alternative explanations for the missing phenotypic defects in the abp1 loss-of-function alleles."}],"date_updated":"2025-04-15T07:48:02Z","article_type":"original","ddc":["581"],"article_processing_charge":"No","intvolume":" 5","publist_id":"6113","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein","publisher":"F1000 Research","doi":"10.12688/f1000research.7654.1","publication_status":"published","day":"20","status":"public","has_accepted_license":"1","type":"journal_article","scopus_import":"1","publication":"F1000 Research ","ec_funded":1},{"date_created":"2018-12-11T11:50:48Z","language":[{"iso":"eng"}],"quality_controlled":"1","issue":"1","oa":1,"year":"2016","oa_version":"Preprint","citation":{"chicago":"Musin, Oleg, and Anton Nikitenko. “Optimal Packings of Congruent Circles on a Square Flat Torus.” Discrete & Computational Geometry. Springer, 2016. https://doi.org/10.1007/s00454-015-9742-6.","mla":"Musin, Oleg, and Anton Nikitenko. “Optimal Packings of Congruent Circles on a Square Flat Torus.” Discrete & Computational Geometry, vol. 55, no. 1, Springer, 2016, pp. 1–20, doi:10.1007/s00454-015-9742-6.","apa":"Musin, O., & Nikitenko, A. (2016). Optimal packings of congruent circles on a square flat torus. Discrete & Computational Geometry. Springer. https://doi.org/10.1007/s00454-015-9742-6","ista":"Musin O, Nikitenko A. 2016. Optimal packings of congruent circles on a square flat torus. Discrete & Computational Geometry. 55(1), 1–20.","short":"O. Musin, A. Nikitenko, Discrete & Computational Geometry 55 (2016) 1–20.","ama":"Musin O, Nikitenko A. Optimal packings of congruent circles on a square flat torus. Discrete & Computational Geometry. 2016;55(1):1-20. doi:10.1007/s00454-015-9742-6","ieee":"O. Musin and A. Nikitenko, “Optimal packings of congruent circles on a square flat torus,” Discrete & Computational Geometry, vol. 55, no. 1. Springer, pp. 1–20, 2016."},"abstract":[{"text":"We consider packings of congruent circles on a square flat torus, i.e., periodic (w.r.t. a square lattice) planar circle packings, with the maximal circle radius. This problem is interesting due to a practical reason—the problem of “super resolution of images.” We have found optimal arrangements for N=6, 7 and 8 circles. Surprisingly, for the case N=7 there are three different optimal arrangements. Our proof is based on a computer enumeration of toroidal irreducible contact graphs.","lang":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1212.0649","open_access":"1"}],"isi":1,"month":"01","acknowledgement":"We wish to thank Alexey Tarasov, Vladislav Volkov and Brittany Fasy for some useful comments and remarks, and especially Thom Sulanke for modifying surftri to suit our purposes. Oleg R. Musin was partially supported by the NSF Grant DMS-1400876 and by the RFBR Grant 15-01-99563. Anton V. Nikitenko was supported by the Chebyshev Laboratory (Department of Mathematics and Mechanics, St. Petersburg State University) under RF Government Grant 11.G34.31.0026.","external_id":{"isi":["000367625500001"],"arxiv":["1212.0649"]},"volume":55,"date_published":"2016-01-01T00:00:00Z","department":[{"_id":"HeEd"}],"author":[{"full_name":"Musin, Oleg","first_name":"Oleg","last_name":"Musin"},{"full_name":"Nikitenko, Anton","first_name":"Anton","id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87","last_name":"Nikitenko","orcid":"0000-0002-0659-3201"}],"_id":"1222","publication_status":"published","day":"01","status":"public","doi":"10.1007/s00454-015-9742-6","page":"1 - 20","publication":"Discrete & Computational Geometry","type":"journal_article","scopus_import":"1","arxiv":1,"date_updated":"2025-09-22T09:32:23Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publist_id":"6111","publisher":"Springer","title":"Optimal packings of congruent circles on a square flat torus","article_processing_charge":"No","intvolume":" 55"},{"type":"journal_article","scopus_import":"1","page":"557 - 600","publication":"Journal of Spectral Theory","doi":"10.4171/JST/132","day":"01","status":"public","publication_status":"published","article_processing_charge":"No","intvolume":" 6","publist_id":"6112","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Localization for transversally periodic random potentials on binary trees","publisher":"European Mathematical Society","date_updated":"2025-09-22T09:32:55Z","arxiv":1,"isi":1,"main_file_link":[{"url":"https://arxiv.org/abs/1408.3961","open_access":"1"}],"month":"01","oa_version":"Preprint","abstract":[{"text":"We consider a random Schrödinger operator on the binary tree with a random potential which is the sum of a random radially symmetric potential, Qr, and a random transversally periodic potential, κQt, with coupling constant κ. Using a new one-dimensional dynamical systems approach combined with Jensen's inequality in hyperbolic space (our key estimate) we obtain a fractional moment estimate proving localization for small and large κ. Together with a previous result we therefore obtain a model with two Anderson transitions, from localization to delocalization and back to localization, when increasing κ. As a by-product we also have a partially new proof of one-dimensional Anderson localization at any disorder.","lang":"eng"}],"citation":{"mla":"Froese, Richard, et al. “Localization for Transversally Periodic Random Potentials on Binary Trees.” Journal of Spectral Theory, vol. 6, no. 3, European Mathematical Society, 2016, pp. 557–600, doi:10.4171/JST/132.","ista":"Froese R, Lee D, Sadel C, Spitzer W, Stolz G. 2016. Localization for transversally periodic random potentials on binary trees. Journal of Spectral Theory. 6(3), 557–600.","apa":"Froese, R., Lee, D., Sadel, C., Spitzer, W., & Stolz, G. (2016). Localization for transversally periodic random potentials on binary trees. Journal of Spectral Theory. European Mathematical Society. https://doi.org/10.4171/JST/132","chicago":"Froese, Richard, Darrick Lee, Christian Sadel, Wolfgang Spitzer, and Günter Stolz. “Localization for Transversally Periodic Random Potentials on Binary Trees.” Journal of Spectral Theory. European Mathematical Society, 2016. https://doi.org/10.4171/JST/132.","short":"R. Froese, D. Lee, C. Sadel, W. Spitzer, G. Stolz, Journal of Spectral Theory 6 (2016) 557–600.","ama":"Froese R, Lee D, Sadel C, Spitzer W, Stolz G. Localization for transversally periodic random potentials on binary trees. Journal of Spectral Theory. 2016;6(3):557-600. doi:10.4171/JST/132","ieee":"R. Froese, D. Lee, C. Sadel, W. Spitzer, and G. Stolz, “Localization for transversally periodic random potentials on binary trees,” Journal of Spectral Theory, vol. 6, no. 3. European Mathematical Society, pp. 557–600, 2016."},"issue":"3","oa":1,"year":"2016","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:50:48Z","quality_controlled":"1","author":[{"full_name":"Froese, Richard","first_name":"Richard","last_name":"Froese"},{"first_name":"Darrick","full_name":"Lee, Darrick","last_name":"Lee"},{"first_name":"Christian","id":"4760E9F8-F248-11E8-B48F-1D18A9856A87","full_name":"Sadel, Christian","last_name":"Sadel","orcid":"0000-0001-8255-3968"},{"last_name":"Spitzer","full_name":"Spitzer, Wolfgang","first_name":"Wolfgang"},{"last_name":"Stolz","full_name":"Stolz, Günter","first_name":"Günter"}],"_id":"1223","department":[{"_id":"LaEr"}],"date_published":"2016-01-01T00:00:00Z","external_id":{"isi":["000388627000004"],"arxiv":["1408.3961"]},"volume":6}]