[{"quality_controlled":"1","publication_status":"published","type":"journal_article","department":[{"_id":"MiLe"}],"publisher":"American Physical Society","publication":"Physical Review B","day":"13","isi":1,"citation":{"mla":"Ghazaryan, Areg, et al. “Effect of Zeeman Coupling on the Majorana Vortex Modes in Iron-Based Topological Superconductors.” <i>Physical Review B</i>, vol. 101, no. 2, 020504, American Physical Society, 2020, doi:<a href=\"https://doi.org/10.1103/PhysRevB.101.020504\">10.1103/PhysRevB.101.020504</a>.","ama":"Ghazaryan A, Lopes PLS, Hosur P, Gilbert MJ, Ghaemi P. Effect of Zeeman coupling on the Majorana vortex modes in iron-based topological superconductors. <i>Physical Review B</i>. 2020;101(2). doi:<a href=\"https://doi.org/10.1103/PhysRevB.101.020504\">10.1103/PhysRevB.101.020504</a>","apa":"Ghazaryan, A., Lopes, P. L. S., Hosur, P., Gilbert, M. J., &#38; Ghaemi, P. (2020). Effect of Zeeman coupling on the Majorana vortex modes in iron-based topological superconductors. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.101.020504\">https://doi.org/10.1103/PhysRevB.101.020504</a>","ista":"Ghazaryan A, Lopes PLS, Hosur P, Gilbert MJ, Ghaemi P. 2020. Effect of Zeeman coupling on the Majorana vortex modes in iron-based topological superconductors. Physical Review B. 101(2), 020504.","chicago":"Ghazaryan, Areg, P. L.S. Lopes, Pavan Hosur, Matthew J. Gilbert, and Pouyan Ghaemi. “Effect of Zeeman Coupling on the Majorana Vortex Modes in Iron-Based Topological Superconductors.” <i>Physical Review B</i>. American Physical Society, 2020. <a href=\"https://doi.org/10.1103/PhysRevB.101.020504\">https://doi.org/10.1103/PhysRevB.101.020504</a>.","ieee":"A. Ghazaryan, P. L. S. Lopes, P. Hosur, M. J. Gilbert, and P. Ghaemi, “Effect of Zeeman coupling on the Majorana vortex modes in iron-based topological superconductors,” <i>Physical Review B</i>, vol. 101, no. 2. American Physical Society, 2020.","short":"A. Ghazaryan, P.L.S. Lopes, P. Hosur, M.J. Gilbert, P. Ghaemi, Physical Review B 101 (2020)."},"main_file_link":[{"url":"https://arxiv.org/abs/1907.02077","open_access":"1"}],"doi":"10.1103/PhysRevB.101.020504","issue":"2","article_number":"020504","date_created":"2020-02-02T23:01:01Z","author":[{"full_name":"Ghazaryan, Areg","orcid":"0000-0001-9666-3543","last_name":"Ghazaryan","first_name":"Areg","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Lopes, P. L.S.","last_name":"Lopes","first_name":"P. L.S."},{"last_name":"Hosur","first_name":"Pavan","full_name":"Hosur, Pavan"},{"full_name":"Gilbert, Matthew J.","last_name":"Gilbert","first_name":"Matthew J."},{"full_name":"Ghaemi, Pouyan","last_name":"Ghaemi","first_name":"Pouyan"}],"date_updated":"2025-07-10T11:54:37Z","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"oa":1,"volume":101,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"arxiv":["1907.02077"],"isi":["000506843500001"]},"arxiv":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"In the superconducting regime of FeTe(1−x)Sex, there exist two types of vortices which are distinguished by the presence or absence of zero-energy states in their core. To understand their origin, we examine the interplay of Zeeman coupling and superconducting pairings in three-dimensional metals with band inversion. Weak Zeeman fields are found to suppress intraorbital spin-singlet pairing, known to localize the states at the ends of the vortices on the surface. On the other hand, an orbital-triplet pairing is shown to be stable against Zeeman interactions, but leads to delocalized zero-energy Majorana modes which extend through the vortex. In contrast, the finite-energy vortex modes remain localized at the vortex ends even when the pairing is of orbital-triplet form. Phenomenologically, this manifests as an observed disappearance of zero-bias peaks within the cores of topological vortices upon an increase of the applied magnetic field. The presence of magnetic impurities in FeTe(1−x)Sex, which are attracted to the vortices, would lead to such Zeeman-induced delocalization of Majorana modes in a fraction of vortices that capture a large enough number of magnetic impurities. Our results provide an explanation for the dichotomy between topological and nontopological vortices recently observed in FeTe(1−x)Sex."}],"status":"public","article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"_id":"7428","year":"2020","intvolume":"       101","month":"01","scopus_import":"1","title":"Effect of Zeeman coupling on the Majorana vortex modes in iron-based topological superconductors","date_published":"2020-01-13T00:00:00Z"},{"status":"public","article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"year":"2020","_id":"7464","intvolume":"        16","scopus_import":"1","month":"01","title":"Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly","date_published":"2020-01-27T00:00:00Z","date_created":"2020-02-06T18:47:17Z","author":[{"full_name":"Dick, Robert A.","first_name":"Robert A.","last_name":"Dick"},{"first_name":"Chaoyi","last_name":"Xu","full_name":"Xu, Chaoyi"},{"full_name":"Morado, Dustin R.","last_name":"Morado","first_name":"Dustin R."},{"orcid":"0000-0001-9523-9089","full_name":"Kravchuk, Vladyslav","id":"4D62F2A6-F248-11E8-B48F-1D18A9856A87","first_name":"Vladyslav","last_name":"Kravchuk"},{"last_name":"Ricana","first_name":"Clifton L.","full_name":"Ricana, Clifton L."},{"full_name":"Lyddon, Terri D.","first_name":"Terri D.","last_name":"Lyddon"},{"first_name":"Arianna M.","last_name":"Broad","full_name":"Broad, Arianna M."},{"first_name":"J. Ryan","last_name":"Feathers","full_name":"Feathers, J. Ryan"},{"last_name":"Johnson","first_name":"Marc C.","full_name":"Johnson, Marc C."},{"full_name":"Vogt, Volker M.","first_name":"Volker M.","last_name":"Vogt"},{"first_name":"Juan R.","last_name":"Perilla","full_name":"Perilla, Juan R."},{"full_name":"Briggs, John A. G.","first_name":"John A. G.","last_name":"Briggs"},{"id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur","first_name":"Florian KM","full_name":"Schur, Florian KM","orcid":"0000-0003-4790-8078"}],"project":[{"_id":"26736D6A-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Structural conservation and diversity in retroviral capsid","grant_number":"P31445"}],"date_updated":"2025-04-15T08:24:51Z","publication_identifier":{"issn":["1553-7374"]},"volume":16,"oa":1,"pmid":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000510746400010"],"pmid":["31986188"]},"oa_version":"Published Version","abstract":[{"text":"Retrovirus assembly is driven by the multidomain structural protein Gag. Interactions between the capsid domains (CA) of Gag result in Gag multimerization, leading to an immature virus particle that is formed by a protein lattice based on dimeric, trimeric, and hexameric protein contacts. Among retroviruses the inter- and intra-hexamer contacts differ, especially in the N-terminal sub-domain of CA (CANTD). For HIV-1 the cellular molecule inositol hexakisphosphate (IP6) interacts with and stabilizes the immature hexamer, and is required for production of infectious virus particles. We have used in vitro assembly, cryo-electron tomography and subtomogram averaging, atomistic molecular dynamics simulations and mutational analyses to study the HIV-related lentivirus equine infectious anemia virus (EIAV). In particular, we sought to understand the structural conservation of the immature lentivirus lattice and the role of IP6 in EIAV assembly. Similar to HIV-1, IP6 strongly promoted in vitro assembly of EIAV Gag proteins into virus-like particles (VLPs), which took three morphologically highly distinct forms: narrow tubes, wide tubes, and spheres. Structural characterization of these VLPs to sub-4Å resolution unexpectedly showed that all three morphologies are based on an immature lattice with preserved key structural components, highlighting the structural versatility of CA to form immature assemblies. A direct comparison between EIAV and HIV revealed that both lentiviruses maintain similar immature interfaces, which are established by both conserved and non-conserved residues. In both EIAV and HIV-1, IP6 regulates immature assembly via conserved lysine residues within the CACTD and SP. Lastly, we demonstrate that IP6 stimulates in vitro assembly of immature particles of several other retroviruses in the lentivirus genus, suggesting a conserved role for IP6 in lentiviral assembly.","lang":"eng"}],"file_date_updated":"2020-07-14T12:47:59Z","isi":1,"day":"27","citation":{"ieee":"R. A. Dick <i>et al.</i>, “Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly,” <i>PLOS Pathogens</i>, vol. 16, no. 1. Public Library of Science, 2020.","short":"R.A. Dick, C. Xu, D.R. Morado, V. Kravchuk, C.L. Ricana, T.D. Lyddon, A.M. Broad, J.R. Feathers, M.C. Johnson, V.M. Vogt, J.R. Perilla, J.A.G. Briggs, F.K. Schur, PLOS Pathogens 16 (2020).","mla":"Dick, Robert A., et al. “Structures of Immature EIAV Gag Lattices Reveal a Conserved Role for IP6 in Lentivirus Assembly.” <i>PLOS Pathogens</i>, vol. 16, no. 1, e1008277, Public Library of Science, 2020, doi:<a href=\"https://doi.org/10.1371/journal.ppat.1008277\">10.1371/journal.ppat.1008277</a>.","apa":"Dick, R. A., Xu, C., Morado, D. R., Kravchuk, V., Ricana, C. L., Lyddon, T. D., … Schur, F. K. (2020). Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly. <i>PLOS Pathogens</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.ppat.1008277\">https://doi.org/10.1371/journal.ppat.1008277</a>","ama":"Dick RA, Xu C, Morado DR, et al. Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly. <i>PLOS Pathogens</i>. 2020;16(1). doi:<a href=\"https://doi.org/10.1371/journal.ppat.1008277\">10.1371/journal.ppat.1008277</a>","chicago":"Dick, Robert A., Chaoyi Xu, Dustin R. Morado, Vladyslav Kravchuk, Clifton L. Ricana, Terri D. Lyddon, Arianna M. Broad, et al. “Structures of Immature EIAV Gag Lattices Reveal a Conserved Role for IP6 in Lentivirus Assembly.” <i>PLOS Pathogens</i>. Public Library of Science, 2020. <a href=\"https://doi.org/10.1371/journal.ppat.1008277\">https://doi.org/10.1371/journal.ppat.1008277</a>.","ista":"Dick RA, Xu C, Morado DR, Kravchuk V, Ricana CL, Lyddon TD, Broad AM, Feathers JR, Johnson MC, Vogt VM, Perilla JR, Briggs JAG, Schur FK. 2020. Structures of immature EIAV Gag lattices reveal a conserved role for IP6 in lentivirus assembly. PLOS Pathogens. 16(1), e1008277."},"acknowledged_ssus":[{"_id":"ScienComp"}],"issue":"1","doi":"10.1371/journal.ppat.1008277","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"license":"https://creativecommons.org/licenses/by/4.0/","article_number":"e1008277","quality_controlled":"1","publication_status":"published","type":"journal_article","file":[{"file_id":"7484","file_size":4551246,"content_type":"application/pdf","date_created":"2020-02-11T10:07:28Z","relation":"main_file","access_level":"open_access","creator":"dernst","checksum":"a297f54d1fef0efe4789ca00f37f241e","date_updated":"2020-07-14T12:47:59Z","file_name":"2020_PLOSPatho_Dick.pdf"}],"corr_author":"1","department":[{"_id":"FlSc"}],"has_accepted_license":"1","related_material":{"record":[{"relation":"research_data","id":"9723","status":"deleted"}]},"publisher":"Public Library of Science","publication":"PLOS Pathogens","ddc":["570"]},{"publisher":"American Chemical Society","has_accepted_license":"1","publication":"ACS Applied Energy Materials","ddc":["540"],"type":"journal_article","publication_status":"published","quality_controlled":"1","department":[{"_id":"MaIb"}],"file":[{"relation":"main_file","date_created":"2022-08-23T08:34:17Z","date_updated":"2022-08-23T08:34:17Z","file_name":"2020_ACSAppliedEnergyMat_Cadavid.pdf","checksum":"f23be731a766a480c77c962c1380315c","access_level":"open_access","creator":"dernst","file_id":"11942","success":1,"content_type":"application/pdf","file_size":6423548}],"citation":{"ieee":"D. Cadavid <i>et al.</i>, “Influence of the ligand stripping on the transport properties of nanoparticle-based PbSe nanomaterials,” <i>ACS Applied Energy Materials</i>, vol. 3, no. 3. American Chemical Society, pp. 2120–2129, 2020.","short":"D. Cadavid, S. Ortega, S. Illera, Y. Liu, M. Ibáñez, A. Shavel, Y. Zhang, M. Li, A.M. López, G. Noriega, O.J. Durá, M.A. López De La Torre, J.D. Prades, A. Cabot, ACS Applied Energy Materials 3 (2020) 2120–2129.","mla":"Cadavid, Doris, et al. “Influence of the Ligand Stripping on the Transport Properties of Nanoparticle-Based PbSe Nanomaterials.” <i>ACS Applied Energy Materials</i>, vol. 3, no. 3, American Chemical Society, 2020, pp. 2120–29, doi:<a href=\"https://doi.org/10.1021/acsaem.9b02137\">10.1021/acsaem.9b02137</a>.","apa":"Cadavid, D., Ortega, S., Illera, S., Liu, Y., Ibáñez, M., Shavel, A., … Cabot, A. (2020). Influence of the ligand stripping on the transport properties of nanoparticle-based PbSe nanomaterials. <i>ACS Applied Energy Materials</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsaem.9b02137\">https://doi.org/10.1021/acsaem.9b02137</a>","ama":"Cadavid D, Ortega S, Illera S, et al. Influence of the ligand stripping on the transport properties of nanoparticle-based PbSe nanomaterials. <i>ACS Applied Energy Materials</i>. 2020;3(3):2120-2129. doi:<a href=\"https://doi.org/10.1021/acsaem.9b02137\">10.1021/acsaem.9b02137</a>","ista":"Cadavid D, Ortega S, Illera S, Liu Y, Ibáñez M, Shavel A, Zhang Y, Li M, López AM, Noriega G, Durá OJ, López De La Torre MA, Prades JD, Cabot A. 2020. Influence of the ligand stripping on the transport properties of nanoparticle-based PbSe nanomaterials. ACS Applied Energy Materials. 3(3), 2120–2129.","chicago":"Cadavid, Doris, Silvia Ortega, Sergio Illera, Yu Liu, Maria Ibáñez, Alexey Shavel, Yu Zhang, et al. “Influence of the Ligand Stripping on the Transport Properties of Nanoparticle-Based PbSe Nanomaterials.” <i>ACS Applied Energy Materials</i>. American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/acsaem.9b02137\">https://doi.org/10.1021/acsaem.9b02137</a>."},"day":"01","isi":1,"acknowledgement":"This work was supported by the Spanish Ministerio de Economía y Competitividad through the project SEHTOP (ENE2016-77798-C4-3-R) and the Generalitat de Catalunya through the project 2017SGR1246. D.C. acknowledges support from Universidad Nacional de Colombia. Y.L. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement no. 754411. M.I. acknowledges financial support from IST Austria.","doi":"10.1021/acsaem.9b02137","issue":"3","page":"2120-2129","file_date_updated":"2022-08-23T08:34:17Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000526598300012"]},"volume":3,"oa":1,"abstract":[{"text":"Nanomaterials produced from the bottom-up assembly of nanocrystals may incorporate ∼1020–1021 cm–3 not fully coordinated surface atoms, i.e., ∼1020–1021 cm–3 potential donor or acceptor states that can strongly affect transport properties. Therefore, to exploit the full potential of nanocrystal building blocks to produce functional nanomaterials and thin films, a proper control of their surface chemistry is required. Here, we analyze how the ligand stripping procedure influences the charge and heat transport properties of sintered PbSe nanomaterials produced from the bottom-up assembly of colloidal PbSe nanocrystals. First, we show that the removal of the native organic ligands by thermal decomposition in an inert atmosphere leaves relatively large amounts of carbon at the crystal interfaces. This carbon blocks crystal growth during consolidation and at the same time hampers charge and heat transport through the final nanomaterial. Second, we demonstrate that, by stripping ligands from the nanocrystal surface before consolidation, nanomaterials with larger crystal domains, lower porosity, and higher charge carrier concentrations are obtained, thus resulting in nanomaterials with higher electrical and thermal conductivities. In addition, the ligand displacement leaves the nanocrystal surface unprotected, facilitating oxidation and chalcogen evaporation. The influence of the ligand displacement on the nanomaterial charge transport properties is rationalized here using a two-band model based on the standard Boltzmann transport equation with the relaxation time approximation. Finally, we present an application of the produced functional nanomaterials by modeling, fabricating, and testing a simple PbSe-based thermoelectric device with a ring geometry.","lang":"eng"}],"oa_version":"Submitted Version","project":[{"call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411"}],"author":[{"full_name":"Cadavid, Doris","first_name":"Doris","last_name":"Cadavid"},{"full_name":"Ortega, Silvia","last_name":"Ortega","first_name":"Silvia"},{"full_name":"Illera, Sergio","last_name":"Illera","first_name":"Sergio"},{"full_name":"Liu, Yu","orcid":"0000-0001-7313-6740","id":"2A70014E-F248-11E8-B48F-1D18A9856A87","last_name":"Liu","first_name":"Yu"},{"orcid":"0000-0001-5013-2843","full_name":"Ibáñez, Maria","first_name":"Maria","last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Alexey","last_name":"Shavel","full_name":"Shavel, Alexey"},{"last_name":"Zhang","first_name":"Yu","full_name":"Zhang, Yu"},{"full_name":"Li, Mengyao","last_name":"Li","first_name":"Mengyao"},{"first_name":"Antonio M.","last_name":"López","full_name":"López, Antonio M."},{"first_name":"Germán","last_name":"Noriega","full_name":"Noriega, Germán"},{"full_name":"Durá, Oscar Juan","last_name":"Durá","first_name":"Oscar Juan"},{"first_name":"M. A.","last_name":"López De La Torre","full_name":"López De La Torre, M. A."},{"full_name":"Prades, Joan Daniel","first_name":"Joan Daniel","last_name":"Prades"},{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"}],"date_created":"2020-02-09T23:00:52Z","publication_identifier":{"eissn":["2574-0962"]},"date_updated":"2025-04-14T07:44:03Z","intvolume":"         3","_id":"7467","year":"2020","date_published":"2020-03-01T00:00:00Z","title":"Influence of the ligand stripping on the transport properties of nanoparticle-based PbSe nanomaterials","month":"03","scopus_import":"1","ec_funded":1,"status":"public","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No"},{"project":[{"name":"inter-and intracellular signalling in schizophrenia","grant_number":"607616","call_identifier":"FP7","_id":"257BBB4C-B435-11E9-9278-68D0E5697425"}],"author":[{"full_name":"Käfer, Karola","last_name":"Käfer","first_name":"Karola","id":"2DAA49AA-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-8849-6570","full_name":"Nardin, Michele","first_name":"Michele","last_name":"Nardin","id":"30BD0376-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Blahna, Karel","id":"3EA859AE-F248-11E8-B48F-1D18A9856A87","first_name":"Karel","last_name":"Blahna"},{"orcid":"0000-0002-5193-4036","full_name":"Csicsvari, Jozsef L","first_name":"Jozsef L","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-02-10T15:45:48Z","publication_identifier":{"issn":["0896-6273"]},"date_updated":"2025-04-15T06:48:21Z","external_id":{"pmid":["32032512"],"isi":["000525319300016"]},"pmid":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"volume":106,"abstract":[{"lang":"eng","text":"Temporally organized reactivation of experiences during awake immobility periods is thought to underlie cognitive processes like planning and evaluation. While replay of trajectories is well established for the hippocampus, it is unclear whether the medial prefrontal cortex (mPFC) can reactivate sequential behavioral experiences in the awake state to support task execution. We simultaneously recorded from hippocampal and mPFC principal neurons in rats performing a mPFC-dependent rule-switching task on a plus maze. We found that mPFC neuronal activity encoded relative positions between the start and goal. During awake immobility periods, the mPFC replayed temporally organized sequences of these generalized positions, resembling entire spatial trajectories. The occurrence of mPFC trajectory replay positively correlated with rule-switching performance. However, hippocampal and mPFC trajectory replay occurred independently, indicating different functions. These results demonstrate that the mPFC can replay ordered activity patterns representing generalized locations and suggest that mPFC replay might have a role in flexible behavior."}],"oa_version":"Published Version","ec_funded":1,"status":"public","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","intvolume":"       106","year":"2020","_id":"7472","date_published":"2020-04-08T00:00:00Z","title":"Replay of behavioral sequences in the medial prefrontal cortex during rule switching","month":"04","scopus_import":"1","type":"journal_article","publication_status":"published","quality_controlled":"1","department":[{"_id":"JoCs"}],"corr_author":"1","publisher":"Elsevier","related_material":{"link":[{"url":"https://ist.ac.at/en/news/this-brain-area-helps-us-decide/","description":"News on IST Homepage","relation":"press_release"}]},"publication":"Neuron","page":"P154-165.e6","citation":{"ieee":"K. Käfer, M. Nardin, K. Blahna, and J. L. Csicsvari, “Replay of behavioral sequences in the medial prefrontal cortex during rule switching,” <i>Neuron</i>, vol. 106, no. 1. Elsevier, p. P154–165.e6, 2020.","short":"K. Käfer, M. Nardin, K. Blahna, J.L. Csicsvari, Neuron 106 (2020) P154–165.e6.","mla":"Käfer, Karola, et al. “Replay of Behavioral Sequences in the Medial Prefrontal Cortex during Rule Switching.” <i>Neuron</i>, vol. 106, no. 1, Elsevier, 2020, p. P154–165.e6, doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.01.015\">10.1016/j.neuron.2020.01.015</a>.","ama":"Käfer K, Nardin M, Blahna K, Csicsvari JL. Replay of behavioral sequences in the medial prefrontal cortex during rule switching. <i>Neuron</i>. 2020;106(1):P154-165.e6. doi:<a href=\"https://doi.org/10.1016/j.neuron.2020.01.015\">10.1016/j.neuron.2020.01.015</a>","apa":"Käfer, K., Nardin, M., Blahna, K., &#38; Csicsvari, J. L. (2020). Replay of behavioral sequences in the medial prefrontal cortex during rule switching. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2020.01.015\">https://doi.org/10.1016/j.neuron.2020.01.015</a>","chicago":"Käfer, Karola, Michele Nardin, Karel Blahna, and Jozsef L Csicsvari. “Replay of Behavioral Sequences in the Medial Prefrontal Cortex during Rule Switching.” <i>Neuron</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2020.01.015\">https://doi.org/10.1016/j.neuron.2020.01.015</a>.","ista":"Käfer K, Nardin M, Blahna K, Csicsvari JL. 2020. Replay of behavioral sequences in the medial prefrontal cortex during rule switching. Neuron. 106(1), P154–165.e6."},"main_file_link":[{"url":"https://doi.org/10.1016/j.neuron.2020.01.015","open_access":"1"}],"day":"08","isi":1,"acknowledgement":"We thank Todor Asenov and Thomas Menner from the Machine Shop for the drive design and production, Hugo Malagon-Vina for assistance in maze automatization, Jago Wallenschus for taking the images of the histology, and Federico Stella and Juan Felipe Ramirez-Villegas for comments on an earlier version of the manuscript. This work was supported by the EU-FP7 MC-ITN IN-SENS (grant 607616 ).","doi":"10.1016/j.neuron.2020.01.015","acknowledged_ssus":[{"_id":"M-Shop"}],"issue":"1"},{"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.15479/AT:ISTA:7474","citation":{"ieee":"A. Schlögl, J. Kiss, and S. Elefante, Eds., <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020.","short":"A. Schlögl, J. Kiss, S. Elefante, eds., Austrian High-Performance-Computing Meeting (AHPC2020), IST Austria, Klosterneuburg, Austria, 2020.","apa":"Schlögl, A., Kiss, J., &#38; Elefante, S. (Eds.). (2020). <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Presented at the AHPC: Austrian High-Performance-Computing Meeting, Klosterneuburg, Austria: IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>","ama":"Schlögl A, Kiss J, Elefante S, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria; 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>","chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>.","ista":"Schlögl A, Kiss J, Elefante S eds. 2020. Austrian High-Performance-Computing meeting (AHPC2020), Klosterneuburg, Austria: IST Austria, 72p.","mla":"Schlögl, Alois, et al., editors. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. IST Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>."},"day":"19","file_date_updated":"2020-07-14T12:47:59Z","conference":{"name":"AHPC: Austrian High-Performance-Computing Meeting","end_date":"2020-02-21","location":"Klosterneuburg, Austria","start_date":"2020-02-19"},"page":"72","ddc":["000"],"publisher":"IST Austria","has_accepted_license":"1","department":[{"_id":"ScienComp"}],"file":[{"date_created":"2020-02-19T06:53:38Z","relation":"main_file","access_level":"open_access","creator":"schloegl","checksum":"49798edb9e57bbd6be18362d1d7b18a9","file_name":"BOOKLET_AHPC2020.final.pdf","date_updated":"2020-07-14T12:47:59Z","file_id":"7504","file_size":90899507,"content_type":"application/pdf"}],"type":"book_editor","publication_status":"published","quality_controlled":"1","date_published":"2020-02-19T00:00:00Z","title":"Austrian High-Performance-Computing meeting (AHPC2020)","month":"02","year":"2020","_id":"7474","place":"Klosterneuburg, Austria","language":[{"iso":"eng"}],"article_processing_charge":"No","status":"public","abstract":[{"text":"This booklet is a collection of abstracts presented at the AHPC conference.","lang":"eng"}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"publication_identifier":{"isbn":["978-3-99078-004-6"]},"date_updated":"2023-05-16T07:48:28Z","editor":[{"id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","first_name":"Alois","last_name":"Schlögl","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois"},{"first_name":"Janos","last_name":"Kiss","id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87","full_name":"Kiss, Janos"},{"last_name":"Elefante","first_name":"Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","full_name":"Elefante, Stefano"}],"date_created":"2020-02-11T07:59:04Z"},{"main_file_link":[{"url":"https://arxiv.org/abs/1905.05505","open_access":"1"}],"citation":{"chicago":"Ménard, G. C., G. L. R. Anselmetti, E. A. Martinez, D. Puglia, F. K. Malinowski, J. S. Lee, S. Choi, et al. “Conductance-Matrix Symmetries of a Three-Terminal Hybrid Device.” <i>Physical Review Letters</i>. APS, 2020. <a href=\"https://doi.org/10.1103/physrevlett.124.036802\">https://doi.org/10.1103/physrevlett.124.036802</a>.","ista":"Ménard GC, Anselmetti GLR, Martinez EA, Puglia D, Malinowski FK, Lee JS, Choi S, Pendharkar M, Palmstrøm CJ, Flensberg K, Marcus CM, Casparis L, Higginbotham AP. 2020. Conductance-matrix symmetries of a three-terminal hybrid device. Physical Review Letters. 124(3), 036802.","ama":"Ménard GC, Anselmetti GLR, Martinez EA, et al. Conductance-matrix symmetries of a three-terminal hybrid device. <i>Physical Review Letters</i>. 2020;124(3). doi:<a href=\"https://doi.org/10.1103/physrevlett.124.036802\">10.1103/physrevlett.124.036802</a>","apa":"Ménard, G. C., Anselmetti, G. L. R., Martinez, E. A., Puglia, D., Malinowski, F. K., Lee, J. S., … Higginbotham, A. P. (2020). Conductance-matrix symmetries of a three-terminal hybrid device. <i>Physical Review Letters</i>. APS. <a href=\"https://doi.org/10.1103/physrevlett.124.036802\">https://doi.org/10.1103/physrevlett.124.036802</a>","mla":"Ménard, G. C., et al. “Conductance-Matrix Symmetries of a Three-Terminal Hybrid Device.” <i>Physical Review Letters</i>, vol. 124, no. 3, 036802, APS, 2020, doi:<a href=\"https://doi.org/10.1103/physrevlett.124.036802\">10.1103/physrevlett.124.036802</a>.","short":"G.C. Ménard, G.L.R. Anselmetti, E.A. Martinez, D. Puglia, F.K. Malinowski, J.S. Lee, S. Choi, M. Pendharkar, C.J. Palmstrøm, K. Flensberg, C.M. Marcus, L. Casparis, A.P. Higginbotham, Physical Review Letters 124 (2020).","ieee":"G. C. Ménard <i>et al.</i>, “Conductance-matrix symmetries of a three-terminal hybrid device,” <i>Physical Review Letters</i>, vol. 124, no. 3. APS, 2020."},"day":"24","article_number":"036802","doi":"10.1103/physrevlett.124.036802","issue":"3","publisher":"APS","publication":"Physical Review Letters","type":"journal_article","publication_status":"published","quality_controlled":"1","intvolume":"       124","_id":"7477","year":"2020","date_published":"2020-01-24T00:00:00Z","title":"Conductance-matrix symmetries of a three-terminal hybrid device","month":"01","extern":"1","status":"public","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","external_id":{"arxiv":["1905.05505"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":124,"oa":1,"abstract":[{"lang":"eng","text":"We present conductance-matrix measurements of a three-terminal superconductor-semiconductor hybrid device consisting of two normal leads and one superconducting lead. Using a symmetry decomposition of the conductance, we find that antisymmetric components of pairs of local and nonlocal conductances qualitatively match at energies below the superconducting gap, and we compare this finding with symmetry relations based on a noninteracting scattering matrix approach. Further, the local charge character of Andreev bound states is extracted from the symmetry-decomposed conductance data and is found to be similar at both ends of the device and tunable with gate voltage. Finally, we measure the conductance matrix as a function of magnetic field and identify correlated splittings in low-energy features, demonstrating how conductance-matrix measurements can complement traditional single-probe measurements in the search for Majorana zero modes."}],"arxiv":1,"oa_version":"Preprint","author":[{"last_name":"Ménard","first_name":"G. C.","full_name":"Ménard, G. C."},{"first_name":"G. L. R.","last_name":"Anselmetti","full_name":"Anselmetti, G. L. R."},{"first_name":"E. A.","last_name":"Martinez","full_name":"Martinez, E. A."},{"first_name":"D.","last_name":"Puglia","full_name":"Puglia, D."},{"last_name":"Malinowski","first_name":"F. K.","full_name":"Malinowski, F. K."},{"full_name":"Lee, J. S.","last_name":"Lee","first_name":"J. S."},{"full_name":"Choi, S.","first_name":"S.","last_name":"Choi"},{"last_name":"Pendharkar","first_name":"M.","full_name":"Pendharkar, M."},{"full_name":"Palmstrøm, C. J.","first_name":"C. J.","last_name":"Palmstrøm"},{"last_name":"Flensberg","first_name":"K.","full_name":"Flensberg, K."},{"full_name":"Marcus, C. M.","first_name":"C. M.","last_name":"Marcus"},{"first_name":"L.","last_name":"Casparis","full_name":"Casparis, L."},{"id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","first_name":"Andrew P","last_name":"Higginbotham","orcid":"0000-0003-2607-2363","full_name":"Higginbotham, Andrew P"}],"date_created":"2020-02-11T08:50:02Z","publication_identifier":{"issn":["0031-9007","1079-7114"]},"date_updated":"2021-01-12T08:13:48Z"},{"publication":"Physical Review Letters","publisher":"APS","publication_status":"published","type":"journal_article","quality_controlled":"1","article_number":"036801","doi":"10.1103/physrevlett.124.036801","issue":"3","day":"24","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1905.05438"}],"citation":{"mla":"Danon, Jeroen, et al. “Nonlocal Conductance Spectroscopy of Andreev Bound States: Symmetry Relations and BCS Charges.” <i>Physical Review Letters</i>, vol. 124, no. 3, 036801, APS, 2020, doi:<a href=\"https://doi.org/10.1103/physrevlett.124.036801\">10.1103/physrevlett.124.036801</a>.","apa":"Danon, J., Hellenes, A. B., Hansen, E. B., Casparis, L., Higginbotham, A. P., &#38; Flensberg, K. (2020). Nonlocal conductance spectroscopy of Andreev bound states: Symmetry relations and BCS charges. <i>Physical Review Letters</i>. APS. <a href=\"https://doi.org/10.1103/physrevlett.124.036801\">https://doi.org/10.1103/physrevlett.124.036801</a>","ama":"Danon J, Hellenes AB, Hansen EB, Casparis L, Higginbotham AP, Flensberg K. Nonlocal conductance spectroscopy of Andreev bound states: Symmetry relations and BCS charges. <i>Physical Review Letters</i>. 2020;124(3). doi:<a href=\"https://doi.org/10.1103/physrevlett.124.036801\">10.1103/physrevlett.124.036801</a>","chicago":"Danon, Jeroen, Anna Birk Hellenes, Esben Bork Hansen, Lucas Casparis, Andrew P Higginbotham, and Karsten Flensberg. “Nonlocal Conductance Spectroscopy of Andreev Bound States: Symmetry Relations and BCS Charges.” <i>Physical Review Letters</i>. APS, 2020. <a href=\"https://doi.org/10.1103/physrevlett.124.036801\">https://doi.org/10.1103/physrevlett.124.036801</a>.","ista":"Danon J, Hellenes AB, Hansen EB, Casparis L, Higginbotham AP, Flensberg K. 2020. Nonlocal conductance spectroscopy of Andreev bound states: Symmetry relations and BCS charges. Physical Review Letters. 124(3), 036801.","ieee":"J. Danon, A. B. Hellenes, E. B. Hansen, L. Casparis, A. P. Higginbotham, and K. Flensberg, “Nonlocal conductance spectroscopy of Andreev bound states: Symmetry relations and BCS charges,” <i>Physical Review Letters</i>, vol. 124, no. 3. APS, 2020.","short":"J. Danon, A.B. Hellenes, E.B. Hansen, L. Casparis, A.P. Higginbotham, K. Flensberg, Physical Review Letters 124 (2020)."},"abstract":[{"lang":"eng","text":"Two-terminal conductance spectroscopy of superconducting devices is a common tool for probing Andreev and Majorana bound states. Here, we study theoretically a three-terminal setup, with two normal leads coupled to a grounded superconducting terminal. Using a single-electron scattering matrix, we derive the subgap conductance matrix for the normal leads and discuss its symmetries. In particular, we show that the local and the nonlocal elements of the conductance matrix have pairwise identical antisymmetric components. Moreover, we find that the nonlocal elements are directly related to the local BCS charges of the bound states close to the normal probes and we show how the BCS charge of overlapping Majorana bound states can be extracted from experiments."}],"oa_version":"Preprint","arxiv":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"arxiv":["1905.05438"]},"oa":1,"volume":124,"publication_identifier":{"issn":["0031-9007","1079-7114"]},"date_updated":"2021-01-12T08:13:48Z","date_created":"2020-02-11T08:55:40Z","author":[{"full_name":"Danon, Jeroen","last_name":"Danon","first_name":"Jeroen"},{"first_name":"Anna Birk","last_name":"Hellenes","full_name":"Hellenes, Anna Birk"},{"last_name":"Hansen","first_name":"Esben Bork","full_name":"Hansen, Esben Bork"},{"full_name":"Casparis, Lucas","first_name":"Lucas","last_name":"Casparis"},{"first_name":"Andrew P","last_name":"Higginbotham","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2607-2363","full_name":"Higginbotham, Andrew P"},{"last_name":"Flensberg","first_name":"Karsten","full_name":"Flensberg, Karsten"}],"date_published":"2020-01-24T00:00:00Z","month":"01","extern":"1","title":"Nonlocal conductance spectroscopy of Andreev bound states: Symmetry relations and BCS charges","intvolume":"       124","_id":"7478","year":"2020","language":[{"iso":"eng"}],"article_processing_charge":"No","article_type":"original","status":"public"},{"file_date_updated":"2020-07-14T12:47:59Z","article_number":"1042","doi":"10.3390/ijms21031042","issue":"3","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"day":"04","citation":{"short":"A. Latorre-Pellicer, Á. Ascaso, L. Trujillano, M. Gil-Salvador, M. Arnedo, C. Lucia-Campos, R. Antoñanzas-Pérez, I. Marcos-Alcalde, I. Parenti, G. Bueno-Lozano, A. Musio, B. Puisac, F.J. Kaiser, F.J. Ramos, P. Gómez-Puertas, J. Pié, International Journal of Molecular Sciences 21 (2020).","ieee":"A. Latorre-Pellicer <i>et al.</i>, “Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes,” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 3. MDPI, 2020.","ista":"Latorre-Pellicer A, Ascaso Á, Trujillano L, Gil-Salvador M, Arnedo M, Lucia-Campos C, Antoñanzas-Pérez R, Marcos-Alcalde I, Parenti I, Bueno-Lozano G, Musio A, Puisac B, Kaiser FJ, Ramos FJ, Gómez-Puertas P, Pié J. 2020. Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. International Journal of Molecular Sciences. 21(3), 1042.","chicago":"Latorre-Pellicer, Ana, Ángela Ascaso, Laura Trujillano, Marta Gil-Salvador, Maria Arnedo, Cristina Lucia-Campos, Rebeca Antoñanzas-Pérez, et al. “Evaluating Face2Gene as a Tool to Identify Cornelia de Lange Syndrome by Facial Phenotypes.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21031042\">https://doi.org/10.3390/ijms21031042</a>.","apa":"Latorre-Pellicer, A., Ascaso, Á., Trujillano, L., Gil-Salvador, M., Arnedo, M., Lucia-Campos, C., … Pié, J. (2020). Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21031042\">https://doi.org/10.3390/ijms21031042</a>","ama":"Latorre-Pellicer A, Ascaso Á, Trujillano L, et al. Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. <i>International Journal of Molecular Sciences</i>. 2020;21(3). doi:<a href=\"https://doi.org/10.3390/ijms21031042\">10.3390/ijms21031042</a>","mla":"Latorre-Pellicer, Ana, et al. “Evaluating Face2Gene as a Tool to Identify Cornelia de Lange Syndrome by Facial Phenotypes.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 3, 1042, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21031042\">10.3390/ijms21031042</a>."},"department":[{"_id":"GaNo"}],"file":[{"file_size":4271234,"content_type":"application/pdf","file_id":"7496","checksum":"0e6658c4fe329d55d4d9bef01c5b15d0","creator":"dernst","access_level":"open_access","date_updated":"2020-07-14T12:47:59Z","file_name":"2020_IntMolecSciences_Latorre.pdf","date_created":"2020-02-18T07:49:22Z","relation":"main_file"}],"corr_author":"1","publication_status":"published","type":"journal_article","quality_controlled":"1","ddc":["570"],"publication":"International Journal of Molecular Sciences","publisher":"MDPI","has_accepted_license":"1","language":[{"iso":"eng"}],"article_processing_charge":"No","article_type":"original","status":"public","date_published":"2020-02-04T00:00:00Z","month":"02","scopus_import":"1","title":"Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes","intvolume":"        21","year":"2020","_id":"7488","publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"date_updated":"2025-07-10T11:54:41Z","date_created":"2020-02-16T23:00:49Z","author":[{"full_name":"Latorre-Pellicer, Ana","first_name":"Ana","last_name":"Latorre-Pellicer"},{"first_name":"Ángela","last_name":"Ascaso","full_name":"Ascaso, Ángela"},{"last_name":"Trujillano","first_name":"Laura","full_name":"Trujillano, Laura"},{"first_name":"Marta","last_name":"Gil-Salvador","full_name":"Gil-Salvador, Marta"},{"first_name":"Maria","last_name":"Arnedo","full_name":"Arnedo, Maria"},{"first_name":"Cristina","last_name":"Lucia-Campos","full_name":"Lucia-Campos, Cristina"},{"full_name":"Antoñanzas-Pérez, Rebeca","first_name":"Rebeca","last_name":"Antoñanzas-Pérez"},{"full_name":"Marcos-Alcalde, Iñigo","first_name":"Iñigo","last_name":"Marcos-Alcalde"},{"last_name":"Parenti","first_name":"Ilaria","id":"D93538B0-5B71-11E9-AC62-02EBE5697425","full_name":"Parenti, Ilaria"},{"last_name":"Bueno-Lozano","first_name":"Gloria","full_name":"Bueno-Lozano, Gloria"},{"full_name":"Musio, Antonio","first_name":"Antonio","last_name":"Musio"},{"full_name":"Puisac, Beatriz","first_name":"Beatriz","last_name":"Puisac"},{"full_name":"Kaiser, Frank J.","first_name":"Frank J.","last_name":"Kaiser"},{"last_name":"Ramos","first_name":"Feliciano J.","full_name":"Ramos, Feliciano J."},{"first_name":"Paulino","last_name":"Gómez-Puertas","full_name":"Gómez-Puertas, Paulino"},{"full_name":"Pié, Juan","last_name":"Pié","first_name":"Juan"}],"abstract":[{"lang":"eng","text":"Characteristic or classic phenotype of Cornelia de Lange syndrome (CdLS) is associated with a recognisable facial pattern. However, the heterogeneity in causal genes and the presence of overlapping syndromes have made it increasingly difficult to diagnose only by clinical features. DeepGestalt technology, and its app Face2Gene, is having a growing impact on the diagnosis and management of genetic diseases by analysing the features of affected individuals. Here, we performed a phenotypic study on a cohort of 49 individuals harbouring causative variants in known CdLS genes in order to evaluate Face2Gene utility and sensitivity in the clinical diagnosis of CdLS. Based on the profile images of patients, a diagnosis of CdLS was within the top five predicted syndromes for 97.9% of our cases and even listed as first prediction for 83.7%. The age of patients did not seem to affect the prediction accuracy, whereas our results indicate a correlation between the clinical score and affected genes. Furthermore, each gene presents a different pattern recognition that may be used to develop new neural networks with the goal of separating different genetic subtypes in CdLS. Overall, we conclude that computer-assisted image analysis based on deep learning could support the clinical diagnosis of CdLS."}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000522551606028"]},"volume":21,"oa":1},{"quality_controlled":"1","type":"journal_article","publication_status":"published","file":[{"checksum":"2052daa4be5019534f3a42f200a09f32","access_level":"open_access","creator":"dernst","file_name":"2020_eLife_Narasimhan.pdf","date_updated":"2020-07-14T12:47:59Z","date_created":"2020-02-18T07:21:16Z","relation":"main_file","content_type":"application/pdf","file_size":7247468,"file_id":"7494"}],"department":[{"_id":"JiFr"},{"_id":"GaTk"},{"_id":"EM-Fac"},{"_id":"SyCr"}],"has_accepted_license":"1","publisher":"eLife Sciences Publications","ddc":["570","580"],"publication":"eLife","file_date_updated":"2020-07-14T12:47:59Z","citation":{"short":"M. Narasimhan, A.J. Johnson, R. Prizak, W. Kaufmann, S. Tan, B.E. Casillas Perez, J. Friml, ELife 9 (2020).","ieee":"M. Narasimhan <i>et al.</i>, “Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","mla":"Narasimhan, Madhumitha, et al. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” <i>ELife</i>, vol. 9, e52067, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.52067\">10.7554/eLife.52067</a>.","chicago":"Narasimhan, Madhumitha, Alexander J Johnson, Roshan Prizak, Walter Kaufmann, Shutang Tan, Barbara E Casillas Perez, and Jiří Friml. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.52067\">https://doi.org/10.7554/eLife.52067</a>.","ista":"Narasimhan M, Johnson AJ, Prizak R, Kaufmann W, Tan S, Casillas Perez BE, Friml J. 2020. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. eLife. 9, e52067.","ama":"Narasimhan M, Johnson AJ, Prizak R, et al. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.52067\">10.7554/eLife.52067</a>","apa":"Narasimhan, M., Johnson, A. J., Prizak, R., Kaufmann, W., Tan, S., Casillas Perez, B. E., &#38; Friml, J. (2020). Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.52067\">https://doi.org/10.7554/eLife.52067</a>"},"day":"23","isi":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.7554/eLife.52067","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"article_number":"e52067","author":[{"last_name":"Narasimhan","first_name":"Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671"},{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"},{"full_name":"Prizak, Roshan","id":"4456104E-F248-11E8-B48F-1D18A9856A87","last_name":"Prizak","first_name":"Roshan"},{"orcid":"0000-0001-9735-5315","full_name":"Kaufmann, Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","first_name":"Walter","last_name":"Kaufmann"},{"orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","first_name":"Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Casillas Perez, Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87","last_name":"Casillas Perez","first_name":"Barbara E"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"date_created":"2020-02-16T23:00:50Z","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"date_updated":"2025-04-14T07:45:03Z","publication_identifier":{"eissn":["2050-084X"]},"oa":1,"volume":9,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","pmid":1,"external_id":{"isi":["000514104100001"],"pmid":["31971511"]},"oa_version":"Published Version","abstract":[{"text":"In plants, clathrin mediated endocytosis (CME) represents the major route for cargo internalisation from the cell surface. It has been assumed to operate in an evolutionary conserved manner as in yeast and animals. Here we report characterisation of ultrastructure, dynamics and mechanisms of plant CME as allowed by our advancement in electron microscopy and quantitative live imaging techniques. Arabidopsis CME appears to follow the constant curvature model and the bona fide CME population generates vesicles of a predominantly hexagonal-basket type; larger and with faster kinetics than in other models. Contrary to the existing paradigm, actin is dispensable for CME events at the plasma membrane but plays a unique role in collecting endocytic vesicles, sorting of internalised cargos and directional endosome movement that itself actively promote CME events. Internalized vesicles display a strongly delayed and sequential uncoating. These unique features highlight the independent evolution of the plant CME mechanism during the autonomous rise of multicellularity in eukaryotes.","lang":"eng"}],"ec_funded":1,"status":"public","article_type":"original","article_processing_charge":"No","language":[{"iso":"eng"}],"year":"2020","_id":"7490","intvolume":"         9","title":"Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants","month":"01","scopus_import":"1","date_published":"2020-01-23T00:00:00Z"},{"department":[{"_id":"JiFr"}],"type":"journal_article","publication_status":"published","quality_controlled":"1","publication":"Journal of Integrative Plant Biology","publisher":"Wiley","page":"1433-1451","acknowledgement":"We thank Professor Jianqiang Wu (Kunming Institute of Botany, Chinese Academy of Sciences) for providing generous support with the IAA and JA measurements. We thank Professor Guohua Xu (Nanjing Agricultural University) for generously providing the Nipponbare rice expressing DR5::GUS. We thank Professor Muyuan Zhu (Zhejiang University) for generously providing a rice line expressing 35S::miR393b. We thank Professor Yinong Yang (Pennsylvania State University) for generously providing the rice line coi1-18. This work was supported by grants from the National Natural Science Foundation of China (31660501, 31460453, 31860064 and 31470382), the Major Special Program for Scientific Research, Education Department of Yunnan Province (ZD2015005), the Project sponsored by SRF for ROCS, SEM ([2013] 1792), the Major Science and Technique Programs in Yunnan Province (2016ZF001), the Key Projects of the Applied Basic Research Plan of Yunnan Province (2017FA018), the National Key R&D Program of China (2018YFD0201100) and the China Agriculture Research System (CARS-21).","doi":"10.1111/jipb.12905","issue":"9","citation":{"short":"L. Han, X. Zhou, Y. Zhao, S. Zhu, L. Wu, Y. He, X. Ping, X. Lu, W. Huang, J. Qian, L. Zhang, X. Jiang, D. Zhu, C. Luo, S. Li, Q. Dong, Q. Fu, K. Deng, X. Wang, L. Wang, S. Peng, J. Wu, W. Li, J. Friml, Y. Zhu, X. He, Y. Du, Journal of Integrative Plant Biology 62 (2020) 1433–1451.","ieee":"L. Han <i>et al.</i>, “Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid,” <i>Journal of Integrative Plant Biology</i>, vol. 62, no. 9. Wiley, pp. 1433–1451, 2020.","ista":"Han L, Zhou X, Zhao Y, Zhu S, Wu L, He Y, Ping X, Lu X, Huang W, Qian J, Zhang L, Jiang X, Zhu D, Luo C, Li S, Dong Q, Fu Q, Deng K, Wang X, Wang L, Peng S, Wu J, Li W, Friml J, Zhu Y, He X, Du Y. 2020. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. Journal of Integrative Plant Biology. 62(9), 1433–1451.","chicago":"Han, L, X Zhou, Y Zhao, S Zhu, L Wu, Y He, X Ping, et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” <i>Journal of Integrative Plant Biology</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/jipb.12905\">https://doi.org/10.1111/jipb.12905</a>.","ama":"Han L, Zhou X, Zhao Y, et al. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. <i>Journal of Integrative Plant Biology</i>. 2020;62(9):1433-1451. doi:<a href=\"https://doi.org/10.1111/jipb.12905\">10.1111/jipb.12905</a>","apa":"Han, L., Zhou, X., Zhao, Y., Zhu, S., Wu, L., He, Y., … Du, Y. (2020). Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. <i>Journal of Integrative Plant Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jipb.12905\">https://doi.org/10.1111/jipb.12905</a>","mla":"Han, L., et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” <i>Journal of Integrative Plant Biology</i>, vol. 62, no. 9, Wiley, 2020, pp. 1433–51, doi:<a href=\"https://doi.org/10.1111/jipb.12905\">10.1111/jipb.12905</a>."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/jipb.12905"}],"isi":1,"day":"01","publication_identifier":{"issn":["1672-9072"],"eissn":["1744-7909"]},"date_updated":"2023-08-18T06:44:16Z","author":[{"last_name":"Han","first_name":"L","full_name":"Han, L"},{"first_name":"X","last_name":"Zhou","full_name":"Zhou, X"},{"full_name":"Zhao, Y","last_name":"Zhao","first_name":"Y"},{"full_name":"Zhu, S","last_name":"Zhu","first_name":"S"},{"full_name":"Wu, L","first_name":"L","last_name":"Wu"},{"last_name":"He","first_name":"Y","full_name":"He, Y"},{"first_name":"X","last_name":"Ping","full_name":"Ping, X"},{"full_name":"Lu, X","last_name":"Lu","first_name":"X"},{"full_name":"Huang, W","last_name":"Huang","first_name":"W"},{"full_name":"Qian, J","last_name":"Qian","first_name":"J"},{"full_name":"Zhang, L","first_name":"L","last_name":"Zhang"},{"full_name":"Jiang, X","last_name":"Jiang","first_name":"X"},{"full_name":"Zhu, D","first_name":"D","last_name":"Zhu"},{"first_name":"C","last_name":"Luo","full_name":"Luo, C"},{"full_name":"Li, S","first_name":"S","last_name":"Li"},{"full_name":"Dong, Q","last_name":"Dong","first_name":"Q"},{"first_name":"Q","last_name":"Fu","full_name":"Fu, Q"},{"last_name":"Deng","first_name":"K","full_name":"Deng, K"},{"full_name":"Wang, X","first_name":"X","last_name":"Wang"},{"full_name":"Wang, L","first_name":"L","last_name":"Wang"},{"last_name":"Peng","first_name":"S","full_name":"Peng, S"},{"full_name":"Wu, J","first_name":"J","last_name":"Wu"},{"full_name":"Li, W","last_name":"Li","first_name":"W"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"last_name":"Zhu","first_name":"Y","full_name":"Zhu, Y"},{"full_name":"He, X","last_name":"He","first_name":"X"},{"full_name":"Du, Y","last_name":"Du","first_name":"Y"}],"date_created":"2020-02-18T10:02:25Z","abstract":[{"lang":"eng","text":"Endophytic fungi can be beneficial to plant growth. However, the molecular mechanisms underlying colonization of Acremonium spp. remain unclear. In this study, a novel endophytic Acremonium strain was isolated from the buds of Panax notoginseng and named Acremonium sp. D212. The Acremonium sp. D212 could colonize the roots of P. notoginseng, enhance the resistance of P. notoginseng to root rot disease, and promote root growth and saponin biosynthesis in P. notoginseng. Acremonium sp. D212 could secrete indole‐3‐acetic acid (IAA) and jasmonic acid (JA), and inoculation with the fungus increased the endogenous levels of IAA and JA in P. notoginseng. Colonization of the Acremonium sp. D212 in the roots of the rice line Nipponbare was dependent on the concentration of methyl jasmonate (MeJA) (2 to 15 μM) and 1‐naphthalenacetic acid (NAA) (10 to 20 μM). Moreover, the roots of the JA signalling‐defective coi1‐18 mutant were colonized by Acremonium sp. D212 to a lesser degree than those of the wild‐type Nipponbare and miR393b‐overexpressing lines, and the colonization was rescued by MeJA but not by NAA. It suggests that the cross‐talk between JA signalling and the auxin biosynthetic pathway plays a crucial role in the colonization of Acremonium sp. D212 in host plants."}],"oa_version":"Published Version","pmid":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"pmid":["31912615"],"isi":["000515803000001"]},"volume":62,"oa":1,"language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No","status":"public","date_published":"2020-09-01T00:00:00Z","title":"Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid","month":"09","scopus_import":"1","intvolume":"        62","_id":"7497","year":"2020"},{"department":[{"_id":"ToHe"}],"corr_author":"1","file":[{"file_id":"8540","success":1,"file_size":1692214,"content_type":"application/pdf","relation":"main_file","date_created":"2020-09-21T07:12:32Z","date_updated":"2020-09-21T07:12:32Z","file_name":"2020_ECAI_Henzinger.pdf","access_level":"open_access","checksum":"80642fa0b6cd7da95dcd87d63789ad5e","creator":"dernst"}],"alternative_title":["Frontiers in Artificial Intelligence and Applications"],"publication_status":"published","type":"conference","quality_controlled":"1","ddc":["000"],"publication":"24th European Conference on Artificial Intelligence","publisher":"IOS Press","has_accepted_license":"1","file_date_updated":"2020-09-21T07:12:32Z","conference":{"location":"Santiago de Compostela, Spain","name":"ECAI: European Conference on Artificial Intelligence","end_date":"2020-09-08","start_date":"2020-08-29"},"page":"2433-2440","license":"https://creativecommons.org/licenses/by-nc/4.0/","doi":"10.3233/FAIA200375","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)"},"acknowledgement":"We thank Christoph Lampert and Nikolaus Mayer for fruitful discussions. This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award) and the European Union’s Horizon 2020 research and innovation programme under the Marie SkłodowskaCurie grant agreement No. 754411.","day":"24","isi":1,"citation":{"ieee":"T. A. Henzinger, A. Lukina, and C. Schilling, “Outside the box: Abstraction-based monitoring of neural networks,” in <i>24th European Conference on Artificial Intelligence</i>, Santiago de Compostela, Spain, 2020, vol. 325, pp. 2433–2440.","short":"T.A. Henzinger, A. Lukina, C. Schilling, in:, 24th European Conference on Artificial Intelligence, IOS Press, 2020, pp. 2433–2440.","ama":"Henzinger TA, Lukina A, Schilling C. Outside the box: Abstraction-based monitoring of neural networks. In: <i>24th European Conference on Artificial Intelligence</i>. Vol 325. IOS Press; 2020:2433-2440. doi:<a href=\"https://doi.org/10.3233/FAIA200375\">10.3233/FAIA200375</a>","apa":"Henzinger, T. A., Lukina, A., &#38; Schilling, C. (2020). Outside the box: Abstraction-based monitoring of neural networks. In <i>24th European Conference on Artificial Intelligence</i> (Vol. 325, pp. 2433–2440). Santiago de Compostela, Spain: IOS Press. <a href=\"https://doi.org/10.3233/FAIA200375\">https://doi.org/10.3233/FAIA200375</a>","chicago":"Henzinger, Thomas A, Anna Lukina, and Christian Schilling. “Outside the Box: Abstraction-Based Monitoring of Neural Networks.” In <i>24th European Conference on Artificial Intelligence</i>, 325:2433–40. IOS Press, 2020. <a href=\"https://doi.org/10.3233/FAIA200375\">https://doi.org/10.3233/FAIA200375</a>.","ista":"Henzinger TA, Lukina A, Schilling C. 2020. Outside the box: Abstraction-based monitoring of neural networks. 24th European Conference on Artificial Intelligence. ECAI: European Conference on Artificial Intelligence, Frontiers in Artificial Intelligence and Applications, vol. 325, 2433–2440.","mla":"Henzinger, Thomas A., et al. “Outside the Box: Abstraction-Based Monitoring of Neural Networks.” <i>24th European Conference on Artificial Intelligence</i>, vol. 325, IOS Press, 2020, pp. 2433–40, doi:<a href=\"https://doi.org/10.3233/FAIA200375\">10.3233/FAIA200375</a>."},"date_updated":"2025-04-15T06:26:13Z","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"grant_number":"Z211","name":"Formal methods for the design and analysis of complex systems","_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"date_created":"2020-02-21T16:44:03Z","author":[{"orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger"},{"last_name":"Lukina","first_name":"Anna","id":"CBA4D1A8-0FE8-11E9-BDE6-07BFE5697425","full_name":"Lukina, Anna"},{"orcid":"0000-0003-3658-1065","full_name":"Schilling, Christian","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","first_name":"Christian","last_name":"Schilling"}],"abstract":[{"lang":"eng","text":"Neural networks have demonstrated unmatched performance in a range of classification tasks. Despite numerous efforts of the research community, novelty detection remains one of the significant limitations of neural networks. The ability to identify previously unseen inputs as novel is crucial for our understanding of the decisions made by neural networks. At runtime, inputs not falling into any of the categories learned during training cannot be classified correctly by the neural network. Existing approaches treat the neural network as a black box and try to detect novel inputs based on the confidence of the output predictions. However, neural networks are not trained to reduce their confidence for novel inputs, which limits the effectiveness of these approaches. We propose a framework to monitor a neural network by observing the hidden layers. We employ a common abstraction from program analysis - boxes - to identify novel behaviors in the monitored layers, i.e., inputs that cause behaviors outside the box. For each neuron, the boxes range over the values seen in training. The framework is efficient and flexible to achieve a desired trade-off between raising false warnings and detecting novel inputs. We illustrate the performance and the robustness to variability in the unknown classes on popular image-classification benchmarks."}],"oa_version":"Published Version","arxiv":1,"external_id":{"arxiv":["1911.09032"],"isi":["000650971303002"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","volume":325,"oa":1,"language":[{"iso":"eng"}],"article_processing_charge":"No","status":"public","ec_funded":1,"date_published":"2020-02-24T00:00:00Z","month":"02","scopus_import":"1","title":"Outside the box: Abstraction-based monitoring of neural networks","intvolume":"       325","_id":"7505","year":"2020"},{"ddc":["510"],"publication":"Journal of Statistical Physics","publisher":"Springer Nature","has_accepted_license":"1","department":[{"_id":"RoSe"}],"file":[{"relation":"main_file","date_created":"2020-11-20T09:26:46Z","file_name":"2020_JournStatPhysics_Bossmann.pdf","date_updated":"2020-11-20T09:26:46Z","access_level":"open_access","checksum":"643e230bf147e64d9cdb3f6cc573679d","creator":"dernst","success":1,"file_id":"8780","content_type":"application/pdf","file_size":576726}],"corr_author":"1","publication_status":"published","type":"journal_article","quality_controlled":"1","doi":"10.1007/s10955-020-02500-8","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria).\r\nL.B. gratefully acknowledges the support by the German Research Foundation (DFG) within the Research Training Group 1838 “Spectral Theory and Dynamics of Quantum Systems”, and wishes to thank Stefan Teufel, Sören Petrat and Marcello Porta for helpful discussions. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. N.P. gratefully acknowledges support from NSF grant DMS-1516228 and DMS-1840314. P.P.’s research was funded by DFG Grant no. PI 1114/3-1. Part of this work was done when N.P. and P.P. were visiting CCNU, Wuhan. N.P. and P.P. thank A.S. for his hospitality at CCNU.","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"21","isi":1,"citation":{"ista":"Bossmann L, Pavlović N, Pickl P, Soffer A. 2020. Higher order corrections to the mean-field description of the dynamics of interacting bosons. Journal of Statistical Physics. 178, 1362–1396.","chicago":"Bossmann, Lea, Nataša Pavlović, Peter Pickl, and Avy Soffer. “Higher Order Corrections to the Mean-Field Description of the Dynamics of Interacting Bosons.” <i>Journal of Statistical Physics</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1007/s10955-020-02500-8\">https://doi.org/10.1007/s10955-020-02500-8</a>.","ama":"Bossmann L, Pavlović N, Pickl P, Soffer A. Higher order corrections to the mean-field description of the dynamics of interacting bosons. <i>Journal of Statistical Physics</i>. 2020;178:1362-1396. doi:<a href=\"https://doi.org/10.1007/s10955-020-02500-8\">10.1007/s10955-020-02500-8</a>","apa":"Bossmann, L., Pavlović, N., Pickl, P., &#38; Soffer, A. (2020). Higher order corrections to the mean-field description of the dynamics of interacting bosons. <i>Journal of Statistical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10955-020-02500-8\">https://doi.org/10.1007/s10955-020-02500-8</a>","mla":"Bossmann, Lea, et al. “Higher Order Corrections to the Mean-Field Description of the Dynamics of Interacting Bosons.” <i>Journal of Statistical Physics</i>, vol. 178, Springer Nature, 2020, pp. 1362–96, doi:<a href=\"https://doi.org/10.1007/s10955-020-02500-8\">10.1007/s10955-020-02500-8</a>.","short":"L. Bossmann, N. Pavlović, P. Pickl, A. Soffer, Journal of Statistical Physics 178 (2020) 1362–1396.","ieee":"L. Bossmann, N. Pavlović, P. Pickl, and A. Soffer, “Higher order corrections to the mean-field description of the dynamics of interacting bosons,” <i>Journal of Statistical Physics</i>, vol. 178. Springer Nature, pp. 1362–1396, 2020."},"file_date_updated":"2020-11-20T09:26:46Z","page":"1362-1396","abstract":[{"lang":"eng","text":"In this paper, we introduce a novel method for deriving higher order corrections to the mean-field description of the dynamics of interacting bosons. More precisely, we consider the dynamics of N d-dimensional bosons for large N. The bosons initially form a Bose–Einstein condensate and interact with each other via a pair potential of the form (N−1)−1Ndβv(Nβ·)forβ∈[0,14d). We derive a sequence of N-body functions which approximate the true many-body dynamics in L2(RdN)-norm to arbitrary precision in powers of N−1. The approximating functions are constructed as Duhamel expansions of finite order in terms of the first quantised analogue of a Bogoliubov time evolution."}],"arxiv":1,"oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"arxiv":["1905.06164"],"isi":["000516342200001"]},"volume":178,"oa":1,"publication_identifier":{"issn":["0022-4715"],"eissn":["1572-9613"]},"date_updated":"2025-04-14T07:44:03Z","project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"},{"name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"date_created":"2020-02-23T09:45:51Z","author":[{"orcid":"0000-0002-6854-1343","full_name":"Bossmann, Lea","first_name":"Lea","last_name":"Bossmann","id":"A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425"},{"full_name":"Pavlović, Nataša","first_name":"Nataša","last_name":"Pavlović"},{"last_name":"Pickl","first_name":"Peter","full_name":"Pickl, Peter"},{"last_name":"Soffer","first_name":"Avy","full_name":"Soffer, Avy"}],"date_published":"2020-02-21T00:00:00Z","month":"02","scopus_import":"1","title":"Higher order corrections to the mean-field description of the dynamics of interacting bosons","intvolume":"       178","_id":"7508","year":"2020","language":[{"iso":"eng"}],"article_processing_charge":"Yes (via OA deal)","article_type":"original","status":"public","ec_funded":1},{"intvolume":"       365","year":"2020","_id":"7509","date_published":"2020-05-13T00:00:00Z","month":"05","title":"From Wigner-Yanase-Dyson conjecture to Carlen-Frank-Lieb conjecture","status":"public","ec_funded":1,"language":[{"iso":"eng"}],"article_processing_charge":"No","article_type":"original","external_id":{"isi":["000522798000001"],"arxiv":["1811.01205"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"volume":365,"abstract":[{"lang":"eng","text":"In this paper we study the joint convexity/concavity of the trace functions Ψp,q,s(A,B)=Tr(Bq2K∗ApKBq2)s,  p,q,s∈R,\r\nwhere A and B are positive definite matrices and K is any fixed invertible matrix. We will give full range of (p,q,s)∈R3 for Ψp,q,s to be jointly convex/concave for all K. As a consequence, we confirm a conjecture of Carlen, Frank and Lieb. In particular, we confirm a weaker conjecture of Audenaert and Datta and obtain the full range of (α,z) for α-z Rényi relative entropies to be monotone under completely positive trace preserving maps. We also give simpler proofs of many known results, including the concavity of Ψp,0,1/p for 0<p<1 which was first proved by Epstein using complex analysis. The key is to reduce the problem to the joint convexity/concavity of the trace functions Ψp,1−p,1(A,B)=TrK∗ApKB1−p,  −1≤p≤1, using a variational method. "}],"oa_version":"Preprint","arxiv":1,"project":[{"grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"date_created":"2020-02-23T21:43:50Z","author":[{"id":"D8F41E38-9E66-11E9-A9E2-65C2E5697425","last_name":"Zhang","first_name":"Haonan","full_name":"Zhang, Haonan"}],"date_updated":"2025-04-14T07:44:03Z","isi":1,"day":"13","main_file_link":[{"url":"https://arxiv.org/abs/1811.01205","open_access":"1"}],"citation":{"ama":"Zhang H. From Wigner-Yanase-Dyson conjecture to Carlen-Frank-Lieb conjecture. <i>Advances in Mathematics</i>. 2020;365. doi:<a href=\"https://doi.org/10.1016/j.aim.2020.107053\">10.1016/j.aim.2020.107053</a>","apa":"Zhang, H. (2020). From Wigner-Yanase-Dyson conjecture to Carlen-Frank-Lieb conjecture. <i>Advances in Mathematics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.aim.2020.107053\">https://doi.org/10.1016/j.aim.2020.107053</a>","chicago":"Zhang, Haonan. “From Wigner-Yanase-Dyson Conjecture to Carlen-Frank-Lieb Conjecture.” <i>Advances in Mathematics</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.aim.2020.107053\">https://doi.org/10.1016/j.aim.2020.107053</a>.","ista":"Zhang H. 2020. From Wigner-Yanase-Dyson conjecture to Carlen-Frank-Lieb conjecture. Advances in Mathematics. 365, 107053.","mla":"Zhang, Haonan. “From Wigner-Yanase-Dyson Conjecture to Carlen-Frank-Lieb Conjecture.” <i>Advances in Mathematics</i>, vol. 365, 107053, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.aim.2020.107053\">10.1016/j.aim.2020.107053</a>.","ieee":"H. Zhang, “From Wigner-Yanase-Dyson conjecture to Carlen-Frank-Lieb conjecture,” <i>Advances in Mathematics</i>, vol. 365. Elsevier, 2020.","short":"H. Zhang, Advances in Mathematics 365 (2020)."},"article_number":"107053","doi":"10.1016/j.aim.2020.107053","acknowledgement":"The author would like to thank Quanhua Xu, Adam Skalski, Ke Li and Zhi Yin for their valuable comments. He also would like to thank the anonymous referees for pointing out some errors in an earlier version of this paper and for helpful comments and suggestions that make this paper better. The research was partially supported by the NCN (National Centre of Science) grant 2014/14/E/ST1/00525, the French project ISITE-BFC (contract ANR-15-IDEX-03), NSFC No. 11826012, and the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411.","publisher":"Elsevier","ddc":["515"],"publication":"Advances in Mathematics","publication_status":"published","type":"journal_article","quality_controlled":"1","department":[{"_id":"JaMa"}]},{"abstract":[{"text":"We consider general self-adjoint polynomials in several independent random matrices whose entries are centered and have the same variance. We show that under certain conditions the local law holds up to the optimal scale, i.e., the eigenvalue density on scales just above the eigenvalue spacing follows the global density of states which is determined by free probability theory. We prove that these conditions hold for general homogeneous polynomials of degree two and for symmetrized products of independent matrices with i.i.d. entries, thus establishing the optimal bulk local law for these classes of ensembles. In particular, we generalize a similar result of Anderson for anticommutator. For more general polynomials our conditions are effectively checkable numerically.","lang":"eng"}],"arxiv":1,"oa_version":"Preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000522798900001"],"arxiv":["1804.11340"]},"volume":278,"oa":1,"publication_identifier":{"issn":["0022-1236"],"eissn":["1096-0783"]},"date_updated":"2025-07-10T11:54:43Z","project":[{"call_identifier":"FP7","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804"}],"date_created":"2020-02-23T23:00:36Z","author":[{"full_name":"Erdös, László","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","first_name":"László"},{"id":"3020C786-F248-11E8-B48F-1D18A9856A87","first_name":"Torben H","last_name":"Krüger","orcid":"0000-0002-4821-3297","full_name":"Krüger, Torben H"},{"last_name":"Nemish","first_name":"Yuriy","id":"4D902E6A-F248-11E8-B48F-1D18A9856A87","full_name":"Nemish, Yuriy","orcid":"0000-0002-7327-856X"}],"date_published":"2020-07-01T00:00:00Z","month":"07","scopus_import":"1","title":"Local laws for polynomials of Wigner matrices","intvolume":"       278","year":"2020","_id":"7512","language":[{"iso":"eng"}],"article_processing_charge":"No","article_type":"original","status":"public","ec_funded":1,"publication":"Journal of Functional Analysis","publisher":"Elsevier","department":[{"_id":"LaEr"}],"publication_status":"published","type":"journal_article","quality_controlled":"1","article_number":"108507","issue":"12","doi":"10.1016/j.jfa.2020.108507","acknowledgement":"The authors are grateful to Oskari Ajanki for his invaluable help at the initial stage of this project, to Serban Belinschi for useful discussions, to Alexander Tikhomirov for calling our attention to the model example in Section 6.2 and to the anonymous referee for suggesting to simplify certain proofs. Erdös: Partially funded by ERC Advanced Grant RANMAT No. 338804\r\n","day":"01","isi":1,"citation":{"ista":"Erdös L, Krüger TH, Nemish Y. 2020. Local laws for polynomials of Wigner matrices. Journal of Functional Analysis. 278(12), 108507.","chicago":"Erdös, László, Torben H Krüger, and Yuriy Nemish. “Local Laws for Polynomials of Wigner Matrices.” <i>Journal of Functional Analysis</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.jfa.2020.108507\">https://doi.org/10.1016/j.jfa.2020.108507</a>.","apa":"Erdös, L., Krüger, T. H., &#38; Nemish, Y. (2020). Local laws for polynomials of Wigner matrices. <i>Journal of Functional Analysis</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jfa.2020.108507\">https://doi.org/10.1016/j.jfa.2020.108507</a>","ama":"Erdös L, Krüger TH, Nemish Y. Local laws for polynomials of Wigner matrices. <i>Journal of Functional Analysis</i>. 2020;278(12). doi:<a href=\"https://doi.org/10.1016/j.jfa.2020.108507\">10.1016/j.jfa.2020.108507</a>","mla":"Erdös, László, et al. “Local Laws for Polynomials of Wigner Matrices.” <i>Journal of Functional Analysis</i>, vol. 278, no. 12, 108507, Elsevier, 2020, doi:<a href=\"https://doi.org/10.1016/j.jfa.2020.108507\">10.1016/j.jfa.2020.108507</a>.","short":"L. Erdös, T.H. Krüger, Y. Nemish, Journal of Functional Analysis 278 (2020).","ieee":"L. Erdös, T. H. Krüger, and Y. Nemish, “Local laws for polynomials of Wigner matrices,” <i>Journal of Functional Analysis</i>, vol. 278, no. 12. Elsevier, 2020."},"main_file_link":[{"url":"https://arxiv.org/abs/1804.11340","open_access":"1"}]},{"year":"2020","_id":"7530","intvolume":"         3","title":"Heat rectification via a superconducting artificial atom","month":"02","extern":"1","date_published":"2020-02-25T00:00:00Z","DOAJ_listed":"1","status":"public","article_type":"original","article_processing_charge":"No","language":[{"iso":"eng"}],"volume":3,"OA_type":"gold","oa":1,"user_id":"0043cee0-e5fc-11ee-9736-f83bc23afbf0","oa_version":"Published Version","abstract":[{"text":"In developing technologies based on superconducting quantum circuits, the need to control and route heating is a significant challenge in the experimental realisation and operation of these devices. One of the more ubiquitous devices in the current quantum computing toolbox is the transmon-type superconducting quantum bit, embedded in a resonator-based architecture. In the study of heat transport in superconducting circuits, a versatile and sensitive thermometer is based on studying the tunnelling characteristics of superconducting probes weakly coupled to a normal-metal island. Here we show that by integrating superconducting quantum bit coupled to two superconducting resonators at different frequencies, each resonator terminated (and thermally populated) by such a mesoscopic thin film metal island, one can experimentally observe magnetic flux-tunable photonic heat rectification between 0 and 10%.","lang":"eng"}],"author":[{"full_name":"Senior, Jorden L","orcid":"0000-0002-0672-9295","id":"5479D234-2D30-11EA-89CC-40953DDC885E","last_name":"Senior","first_name":"Jorden L"},{"first_name":"Azat","last_name":"Gubaydullin","full_name":"Gubaydullin, Azat"},{"full_name":"Karimi, Bayan","last_name":"Karimi","first_name":"Bayan"},{"full_name":"Peltonen, Joonas T.","last_name":"Peltonen","first_name":"Joonas T."},{"last_name":"Ankerhold","first_name":"Joachim","full_name":"Ankerhold, Joachim"},{"last_name":"Pekola","first_name":"Jukka P.","full_name":"Pekola, Jukka P."}],"date_created":"2020-02-26T13:51:14Z","date_updated":"2024-10-15T12:36:24Z","publication_identifier":{"issn":["2399-3650"]},"citation":{"ieee":"J. L. Senior, A. Gubaydullin, B. Karimi, J. T. Peltonen, J. Ankerhold, and J. P. Pekola, “Heat rectification via a superconducting artificial atom,” <i>Communications Physics</i>, vol. 3, no. 1. Springer Nature, 2020.","short":"J.L. Senior, A. Gubaydullin, B. Karimi, J.T. Peltonen, J. Ankerhold, J.P. Pekola, Communications Physics 3 (2020).","apa":"Senior, J. L., Gubaydullin, A., Karimi, B., Peltonen, J. T., Ankerhold, J., &#38; Pekola, J. P. (2020). Heat rectification via a superconducting artificial atom. <i>Communications Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42005-020-0307-5\">https://doi.org/10.1038/s42005-020-0307-5</a>","ama":"Senior JL, Gubaydullin A, Karimi B, Peltonen JT, Ankerhold J, Pekola JP. Heat rectification via a superconducting artificial atom. <i>Communications Physics</i>. 2020;3(1). doi:<a href=\"https://doi.org/10.1038/s42005-020-0307-5\">10.1038/s42005-020-0307-5</a>","ista":"Senior JL, Gubaydullin A, Karimi B, Peltonen JT, Ankerhold J, Pekola JP. 2020. Heat rectification via a superconducting artificial atom. Communications Physics. 3(1), 40.","chicago":"Senior, Jorden L, Azat Gubaydullin, Bayan Karimi, Joonas T. Peltonen, Joachim Ankerhold, and Jukka P. Pekola. “Heat Rectification via a Superconducting Artificial Atom.” <i>Communications Physics</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s42005-020-0307-5\">https://doi.org/10.1038/s42005-020-0307-5</a>.","mla":"Senior, Jorden L., et al. “Heat Rectification via a Superconducting Artificial Atom.” <i>Communications Physics</i>, vol. 3, no. 1, 40, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s42005-020-0307-5\">10.1038/s42005-020-0307-5</a>."},"day":"25","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"issue":"1","doi":"10.1038/s42005-020-0307-5","article_number":"40","file_date_updated":"2020-07-14T12:48:00Z","has_accepted_license":"1","OA_place":"publisher","publisher":"Springer Nature","ddc":["536"],"publication":"Communications Physics","quality_controlled":"1","type":"journal_article","publication_status":"published","file":[{"file_id":"7559","file_size":1590721,"content_type":"application/pdf","relation":"main_file","date_created":"2020-03-03T10:41:13Z","file_name":"s42005-020-0307-5.pdf","date_updated":"2020-07-14T12:48:00Z","access_level":"open_access","checksum":"59255f51d9f113c40e3047e9ac83d367","creator":"dernst"},{"file_size":1007249,"content_type":"application/pdf","file_id":"7560","creator":"dernst","checksum":"8325ae7b3c869d9aa6ed84823da4000a","access_level":"open_access","date_updated":"2020-07-14T12:48:00Z","file_name":"42005_2020_307_MOESM1_ESM.pdf","date_created":"2020-03-03T10:41:13Z","relation":"main_file"}]},{"volume":5,"oa":1,"external_id":{"arxiv":["1912.09270"],"isi":["000515065100001"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","arxiv":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"In the past two decades, our understanding of the transition to turbulence in shear flows with linearly stable laminar solutions has greatly improved. Regarding the susceptibility of the laminar flow, two concepts have been particularly useful: the edge states and the minimal seeds. In this nonlinear picture of the transition, the basin boundary of turbulence is set by the edge state's stable manifold and this manifold comes closest in energy to the laminar equilibrium at the minimal seed. We begin this paper by presenting numerical experiments in which three-dimensional perturbations are too energetic to trigger turbulence in pipe flow but they do lead to turbulence when their amplitude is reduced. We show that this seemingly counterintuitive observation is in fact consistent with the fully nonlinear description of the transition mediated by the edge state. In order to understand the physical mechanisms behind this process, we measure the turbulent kinetic energy production and dissipation rates as a function of the radial coordinate. Our main observation is that the transition to turbulence relies on the energy amplification away from the wall, as opposed to the turbulence itself, whose energy is predominantly produced near the wall. This observation is further supported by the similar analyses on the minimal seeds and the edge states. Furthermore, we show that the time evolution of production-over-dissipation curves provides a clear distinction between the different initial amplification stages of the transition to turbulence from the minimal seed."}],"date_created":"2020-02-27T10:26:57Z","author":[{"orcid":"0000-0003-0423-5010","full_name":"Budanur, Nazmi B","first_name":"Nazmi B","last_name":"Budanur","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Marensi, Elena","last_name":"Marensi","first_name":"Elena"},{"full_name":"Willis, Ashley P.","last_name":"Willis","first_name":"Ashley P."},{"last_name":"Hof","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754"}],"date_updated":"2023-08-18T06:44:46Z","publication_identifier":{"issn":["2469-990X"]},"year":"2020","_id":"7534","intvolume":"         5","scopus_import":"1","month":"02","title":"Upper edge of chaos and the energetics of transition in pipe flow","date_published":"2020-02-21T00:00:00Z","status":"public","article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"publisher":"American Physical Society","publication":"Physical Review Fluids","quality_controlled":"1","publication_status":"published","type":"journal_article","department":[{"_id":"BjHo"}],"isi":1,"day":"21","main_file_link":[{"url":"https://arxiv.org/abs/1912.09270","open_access":"1"}],"citation":{"ieee":"N. B. Budanur, E. Marensi, A. P. Willis, and B. Hof, “Upper edge of chaos and the energetics of transition in pipe flow,” <i>Physical Review Fluids</i>, vol. 5, no. 2. American Physical Society, 2020.","short":"N.B. Budanur, E. Marensi, A.P. Willis, B. Hof, Physical Review Fluids 5 (2020).","mla":"Budanur, Nazmi B., et al. “Upper Edge of Chaos and the Energetics of Transition in Pipe Flow.” <i>Physical Review Fluids</i>, vol. 5, no. 2, 023903, American Physical Society, 2020, doi:<a href=\"https://doi.org/10.1103/physrevfluids.5.023903\">10.1103/physrevfluids.5.023903</a>.","apa":"Budanur, N. B., Marensi, E., Willis, A. P., &#38; Hof, B. (2020). Upper edge of chaos and the energetics of transition in pipe flow. <i>Physical Review Fluids</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevfluids.5.023903\">https://doi.org/10.1103/physrevfluids.5.023903</a>","ama":"Budanur NB, Marensi E, Willis AP, Hof B. Upper edge of chaos and the energetics of transition in pipe flow. <i>Physical Review Fluids</i>. 2020;5(2). doi:<a href=\"https://doi.org/10.1103/physrevfluids.5.023903\">10.1103/physrevfluids.5.023903</a>","chicago":"Budanur, Nazmi B, Elena Marensi, Ashley P. Willis, and Björn Hof. “Upper Edge of Chaos and the Energetics of Transition in Pipe Flow.” <i>Physical Review Fluids</i>. American Physical Society, 2020. <a href=\"https://doi.org/10.1103/physrevfluids.5.023903\">https://doi.org/10.1103/physrevfluids.5.023903</a>.","ista":"Budanur NB, Marensi E, Willis AP, Hof B. 2020. Upper edge of chaos and the energetics of transition in pipe flow. Physical Review Fluids. 5(2), 023903."},"issue":"2","doi":"10.1103/physrevfluids.5.023903","article_number":"023903"},{"language":[{"iso":"eng"}],"article_processing_charge":"No","article_type":"original","status":"public","date_published":"2020-02-01T00:00:00Z","scopus_import":"1","month":"02","title":"In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality","intvolume":"        67","year":"2020","_id":"7540","publication_identifier":{"issn":["0792-9978"],"eissn":["2223-8980"]},"date_updated":"2023-08-18T06:45:15Z","date_created":"2020-02-28T09:18:01Z","author":[{"id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten","first_name":"Inge","full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328"},{"full_name":"Buyle, H.","last_name":"Buyle","first_name":"H."},{"first_name":"S.","last_name":"Werbrouck","full_name":"Werbrouck, S."},{"last_name":"Van Labeke","first_name":"M.C.","full_name":"Van Labeke, M.C."},{"full_name":"Geelen, D.","first_name":"D.","last_name":"Geelen"}],"abstract":[{"lang":"eng","text":" In vitro propagation of the ornamentally interesting species Wikstroemia gemmata is limited by the recalcitrance to form adventitious roots. In this article, two strategies to improve the rooting capacity of in vitro microcuttings are presented. Firstly, the effect of exogenous auxin was evaluated in both light and dark cultivated stem segments and also the sucrose-content of the medium was varied in order to determine better rooting conditions. Secondly, different spectral lights were evaluated and the effect on shoot growth and root induction demonstrated that the exact spectral composition of light is important for successful in vitro growth and development of Wikstroemia gemmata. We show that exogenous auxin cannot compensate for the poor rooting under unfavorable light conditions. Adapting the culture conditions is therefore paramount for successful industrial propagation of Wikstroemia gemmata. "}],"oa_version":"None","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000525343300004"]},"volume":67,"page":"16-26","issue":"1-2","doi":"10.1163/22238980-20191110","isi":1,"day":"01","citation":{"mla":"Verstraeten, Inge, et al. “In Vitro Shoot Growth and Adventitious Rooting of Wikstroemia Gemmata Depends on Light Quality.” <i>Israel Journal of Plant Sciences</i>, vol. 67, no. 1–2, Brill, 2020, pp. 16–26, doi:<a href=\"https://doi.org/10.1163/22238980-20191110\">10.1163/22238980-20191110</a>.","chicago":"Verstraeten, Inge, H. Buyle, S. Werbrouck, M.C. Van Labeke, and D. Geelen. “In Vitro Shoot Growth and Adventitious Rooting of Wikstroemia Gemmata Depends on Light Quality.” <i>Israel Journal of Plant Sciences</i>. Brill, 2020. <a href=\"https://doi.org/10.1163/22238980-20191110\">https://doi.org/10.1163/22238980-20191110</a>.","ista":"Verstraeten I, Buyle H, Werbrouck S, Van Labeke MC, Geelen D. 2020. In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. Israel Journal of Plant Sciences. 67(1–2), 16–26.","ama":"Verstraeten I, Buyle H, Werbrouck S, Van Labeke MC, Geelen D. In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. <i>Israel Journal of Plant Sciences</i>. 2020;67(1-2):16-26. doi:<a href=\"https://doi.org/10.1163/22238980-20191110\">10.1163/22238980-20191110</a>","apa":"Verstraeten, I., Buyle, H., Werbrouck, S., Van Labeke, M. C., &#38; Geelen, D. (2020). In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. <i>Israel Journal of Plant Sciences</i>. Brill. <a href=\"https://doi.org/10.1163/22238980-20191110\">https://doi.org/10.1163/22238980-20191110</a>","short":"I. Verstraeten, H. Buyle, S. Werbrouck, M.C. Van Labeke, D. Geelen, Israel Journal of Plant Sciences 67 (2020) 16–26.","ieee":"I. Verstraeten, H. Buyle, S. Werbrouck, M. C. Van Labeke, and D. Geelen, “In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality,” <i>Israel Journal of Plant Sciences</i>, vol. 67, no. 1–2. Brill, pp. 16–26, 2020."},"department":[{"_id":"JiFr"}],"publication_status":"published","type":"journal_article","quality_controlled":"1","publication":"Israel Journal of Plant Sciences","publisher":"Brill"},{"publisher":"Elsevier","publication":"Developmental Biology","type":"journal_article","publication_status":"published","quality_controlled":"1","citation":{"ieee":"J. A. Cohn <i>et al.</i>, “Long-term activity drives dendritic branch elaboration of a C. elegans sensory neuron,” <i>Developmental Biology</i>, vol. 461, no. 1. Elsevier, pp. 66–74, 2020.","short":"J.A. Cohn, E.R. Cebul, G. Valperga, L. Brose, M. de Bono, M.G. Heiman, J.T. Pierce, Developmental Biology 461 (2020) 66–74.","ama":"Cohn JA, Cebul ER, Valperga G, et al. Long-term activity drives dendritic branch elaboration of a C. elegans sensory neuron. <i>Developmental Biology</i>. 2020;461(1):66-74. doi:<a href=\"https://doi.org/10.1016/j.ydbio.2020.01.005\">10.1016/j.ydbio.2020.01.005</a>","apa":"Cohn, J. A., Cebul, E. R., Valperga, G., Brose, L., de Bono, M., Heiman, M. G., &#38; Pierce, J. T. (2020). Long-term activity drives dendritic branch elaboration of a C. elegans sensory neuron. <i>Developmental Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ydbio.2020.01.005\">https://doi.org/10.1016/j.ydbio.2020.01.005</a>","ista":"Cohn JA, Cebul ER, Valperga G, Brose L, de Bono M, Heiman MG, Pierce JT. 2020. Long-term activity drives dendritic branch elaboration of a C. elegans sensory neuron. Developmental Biology. 461(1), 66–74.","chicago":"Cohn, Jesse A., Elizabeth R. Cebul, Giulio Valperga, Lotti Brose, Mario de Bono, Maxwell G. Heiman, and Jonathan T. Pierce. “Long-Term Activity Drives Dendritic Branch Elaboration of a C. Elegans Sensory Neuron.” <i>Developmental Biology</i>. Elsevier, 2020. <a href=\"https://doi.org/10.1016/j.ydbio.2020.01.005\">https://doi.org/10.1016/j.ydbio.2020.01.005</a>.","mla":"Cohn, Jesse A., et al. “Long-Term Activity Drives Dendritic Branch Elaboration of a C. Elegans Sensory Neuron.” <i>Developmental Biology</i>, vol. 461, no. 1, Elsevier, 2020, pp. 66–74, doi:<a href=\"https://doi.org/10.1016/j.ydbio.2020.01.005\">10.1016/j.ydbio.2020.01.005</a>."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/685339"}],"day":"01","issue":"1","doi":"10.1016/j.ydbio.2020.01.005","page":"66-74","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"volume":461,"abstract":[{"text":"Neuronal activity often leads to alterations in gene expression and cellular architecture. The nematode Caenorhabditis elegans, owing to its compact translucent nervous system, is a powerful system in which to study conserved aspects of the development and plasticity of neuronal morphology. Here we focus on one pair of sensory neurons, termed URX, which the worm uses to sense and avoid high levels of environmental oxygen. Previous studies have reported that the URX neuron pair has variable branched endings at its dendritic sensory tip. By controlling oxygen levels and analyzing mutants, we found that these microtubule-rich branched endings grow over time as a consequence of neuronal activity in adulthood. We also find that the growth of these branches correlates with an increase in cellular sensitivity to particular ranges of oxygen that is observable in the behavior of older worms. Given the strengths of C. elegans as a model organism, URX may serve as a potent system for uncovering genes and mechanisms involved in activity-dependent morphological changes in neurons and possible adaptive changes in the aging nervous system.","lang":"eng"}],"oa_version":"Preprint","author":[{"full_name":"Cohn, Jesse A.","last_name":"Cohn","first_name":"Jesse A."},{"first_name":"Elizabeth R.","last_name":"Cebul","full_name":"Cebul, Elizabeth R."},{"full_name":"Valperga, Giulio","first_name":"Giulio","last_name":"Valperga"},{"full_name":"Brose, Lotti","first_name":"Lotti","last_name":"Brose"},{"first_name":"Mario","last_name":"de Bono","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443","full_name":"de Bono, Mario"},{"full_name":"Heiman, Maxwell G.","first_name":"Maxwell G.","last_name":"Heiman"},{"last_name":"Pierce","first_name":"Jonathan T.","full_name":"Pierce, Jonathan T."}],"date_created":"2020-02-28T10:38:32Z","publication_identifier":{"issn":["0012-1606"]},"date_updated":"2021-01-12T08:14:06Z","intvolume":"       461","_id":"7545","year":"2020","date_published":"2020-05-01T00:00:00Z","title":"Long-term activity drives dendritic branch elaboration of a C. elegans sensory neuron","month":"05","extern":"1","status":"public","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No"},{"ddc":["570"],"publication":"Neuron","has_accepted_license":"1","publisher":"Cell Press","file":[{"date_updated":"2020-07-14T12:48:00Z","file_name":"2020_Neuron_Beets.pdf","creator":"dernst","access_level":"open_access","checksum":"799bfd297a008753a688b30d3958fa48","relation":"main_file","date_created":"2020-03-02T15:43:57Z","content_type":"application/pdf","file_size":3294066,"file_id":"7558"}],"corr_author":"1","department":[{"_id":"MaDe"}],"quality_controlled":"1","publication_status":"published","type":"journal_article","issue":"1","doi":"10.1016/j.neuron.2019.10.001","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"isi":1,"day":"08","citation":{"mla":"Beets, Isabel, et al. “Natural Variation in a Dendritic Scaffold Protein Remodels Experience-Dependent Plasticity by Altering Neuropeptide Expression.” <i>Neuron</i>, vol. 105, no. 1, Cell Press, 2020, p. 106–121.e10, doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.10.001\">10.1016/j.neuron.2019.10.001</a>.","ama":"Beets I, Zhang G, Fenk LA, et al. Natural variation in a dendritic scaffold protein remodels experience-dependent plasticity by altering neuropeptide expression. <i>Neuron</i>. 2020;105(1):106-121.e10. doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.10.001\">10.1016/j.neuron.2019.10.001</a>","apa":"Beets, I., Zhang, G., Fenk, L. A., Chen, C., Nelson, G. M., Félix, M.-A., &#38; de Bono, M. (2020). Natural variation in a dendritic scaffold protein remodels experience-dependent plasticity by altering neuropeptide expression. <i>Neuron</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.neuron.2019.10.001\">https://doi.org/10.1016/j.neuron.2019.10.001</a>","chicago":"Beets, Isabel, Gaotian Zhang, Lorenz A. Fenk, Changchun Chen, Geoffrey M. Nelson, Marie-Anne Félix, and Mario de Bono. “Natural Variation in a Dendritic Scaffold Protein Remodels Experience-Dependent Plasticity by Altering Neuropeptide Expression.” <i>Neuron</i>. Cell Press, 2020. <a href=\"https://doi.org/10.1016/j.neuron.2019.10.001\">https://doi.org/10.1016/j.neuron.2019.10.001</a>.","ista":"Beets I, Zhang G, Fenk LA, Chen C, Nelson GM, Félix M-A, de Bono M. 2020. Natural variation in a dendritic scaffold protein remodels experience-dependent plasticity by altering neuropeptide expression. Neuron. 105(1), 106–121.e10.","ieee":"I. Beets <i>et al.</i>, “Natural variation in a dendritic scaffold protein remodels experience-dependent plasticity by altering neuropeptide expression,” <i>Neuron</i>, vol. 105, no. 1. Cell Press, p. 106–121.e10, 2020.","short":"I. Beets, G. Zhang, L.A. Fenk, C. Chen, G.M. Nelson, M.-A. Félix, M. de Bono, Neuron 105 (2020) 106–121.e10."},"file_date_updated":"2020-07-14T12:48:00Z","page":"106-121.e10","oa_version":"Published Version","abstract":[{"text":"The extent to which behavior is shaped by experience varies between individuals. Genetic differences contribute to this variation, but the neural mechanisms are not understood. Here, we dissect natural variation in the behavioral flexibility of two Caenorhabditis elegans wild strains. In one strain, a memory of exposure to 21% O2 suppresses CO2-evoked locomotory arousal; in the other, CO2 evokes arousal regardless of previous O2 experience. We map that variation to a polymorphic dendritic scaffold protein, ARCP-1, expressed in sensory neurons. ARCP-1 binds the Ca2+-dependent phosphodiesterase PDE-1 and co-localizes PDE-1 with molecular sensors for CO2 at dendritic ends. Reducing ARCP-1 or PDE-1 activity promotes CO2 escape by altering neuropeptide expression in the BAG CO2 sensors. Variation in ARCP-1 alters behavioral plasticity in multiple paradigms. Our findings are reminiscent of genetic accommodation, an evolutionary process by which phenotypic flexibility in response to environmental variation is reset by genetic change.","lang":"eng"}],"volume":105,"oa":1,"external_id":{"isi":["000507341300012"],"pmid":["31757604"]},"pmid":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2024-10-09T20:59:20Z","publication_identifier":{"issn":["0896-6273"]},"date_created":"2020-02-28T10:43:39Z","author":[{"first_name":"Isabel","last_name":"Beets","full_name":"Beets, Isabel"},{"full_name":"Zhang, Gaotian","last_name":"Zhang","first_name":"Gaotian"},{"full_name":"Fenk, Lorenz A.","last_name":"Fenk","first_name":"Lorenz A."},{"full_name":"Chen, Changchun","first_name":"Changchun","last_name":"Chen"},{"full_name":"Nelson, Geoffrey M.","first_name":"Geoffrey M.","last_name":"Nelson"},{"first_name":"Marie-Anne","last_name":"Félix","full_name":"Félix, Marie-Anne"},{"full_name":"de Bono, Mario","orcid":"0000-0001-8347-0443","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","last_name":"de Bono","first_name":"Mario"}],"month":"01","title":"Natural variation in a dendritic scaffold protein remodels experience-dependent plasticity by altering neuropeptide expression","date_published":"2020-01-08T00:00:00Z","year":"2020","_id":"7546","intvolume":"       105","article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"status":"public"},{"date_updated":"2025-07-10T11:54:44Z","publication_identifier":{"eissn":["1095-7219"],"issn":["0040-585X"]},"author":[{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","last_name":"Edelsbrunner","first_name":"Herbert","full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833"},{"full_name":"Nikitenko, Anton","orcid":"0000-0002-0659-3201","last_name":"Nikitenko","first_name":"Anton","id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-03-01T23:00:39Z","project":[{"_id":"266A2E9E-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Alpha Shape Theory Extended","grant_number":"788183"},{"grant_number":"I02979-N35","name":"Persistence and stability of geometric complexes","call_identifier":"FWF","_id":"2561EBF4-B435-11E9-9278-68D0E5697425"}],"arxiv":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"Slicing a Voronoi tessellation in ${R}^n$ with a $k$-plane gives a $k$-dimensional weighted Voronoi tessellation, also known as a power diagram or Laguerre tessellation. Mapping every simplex of the dual weighted Delaunay mosaic to the radius of the smallest empty circumscribed sphere whose center lies in the $k$-plane gives a generalized discrete Morse function. Assuming the Voronoi tessellation is generated by a Poisson point process in ${R}^n$, we study the expected number of simplices in the $k$-dimensional weighted Delaunay mosaic as well as the expected number of intervals of the Morse function, both as functions of a radius threshold. As a by-product, we obtain a new proof for the expected number of connected components (clumps) in a line section of a circular Boolean model in ${R}^n$."}],"volume":64,"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000551393100007"],"arxiv":["1705.08735"]},"article_type":"original","article_processing_charge":"No","language":[{"iso":"eng"}],"ec_funded":1,"status":"public","title":"Weighted Poisson–Delaunay mosaics","scopus_import":"1","month":"02","date_published":"2020-02-13T00:00:00Z","year":"2020","_id":"7554","intvolume":"        64","department":[{"_id":"HeEd"}],"quality_controlled":"1","type":"journal_article","publication_status":"published","publication":"Theory of Probability and its Applications","publisher":"SIAM","page":"595-614","doi":"10.1137/S0040585X97T989726","issue":"4","main_file_link":[{"url":"https://arxiv.org/abs/1705.08735","open_access":"1"}],"citation":{"ieee":"H. Edelsbrunner and A. Nikitenko, “Weighted Poisson–Delaunay mosaics,” <i>Theory of Probability and its Applications</i>, vol. 64, no. 4. SIAM, pp. 595–614, 2020.","short":"H. Edelsbrunner, A. Nikitenko, Theory of Probability and Its Applications 64 (2020) 595–614.","mla":"Edelsbrunner, Herbert, and Anton Nikitenko. “Weighted Poisson–Delaunay Mosaics.” <i>Theory of Probability and Its Applications</i>, vol. 64, no. 4, SIAM, 2020, pp. 595–614, doi:<a href=\"https://doi.org/10.1137/S0040585X97T989726\">10.1137/S0040585X97T989726</a>.","apa":"Edelsbrunner, H., &#38; Nikitenko, A. (2020). Weighted Poisson–Delaunay mosaics. <i>Theory of Probability and Its Applications</i>. SIAM. <a href=\"https://doi.org/10.1137/S0040585X97T989726\">https://doi.org/10.1137/S0040585X97T989726</a>","ama":"Edelsbrunner H, Nikitenko A. Weighted Poisson–Delaunay mosaics. <i>Theory of Probability and its Applications</i>. 2020;64(4):595-614. doi:<a href=\"https://doi.org/10.1137/S0040585X97T989726\">10.1137/S0040585X97T989726</a>","ista":"Edelsbrunner H, Nikitenko A. 2020. Weighted Poisson–Delaunay mosaics. Theory of Probability and its Applications. 64(4), 595–614.","chicago":"Edelsbrunner, Herbert, and Anton Nikitenko. “Weighted Poisson–Delaunay Mosaics.” <i>Theory of Probability and Its Applications</i>. SIAM, 2020. <a href=\"https://doi.org/10.1137/S0040585X97T989726\">https://doi.org/10.1137/S0040585X97T989726</a>."},"day":"13","isi":1}]