--- OA_place: repository OA_type: green _id: '17377' abstract: - lang: eng text: "Lateral root (LR) formation, that is vital for plant development, is one of many auxin-modulated processes, but the underlying regulatory mechanism is not yet fully known. Recently, \r\nGonzález-García et al. discovered the BiAux compound and showed that it is involved in LR development via regulating specific auxin coreceptors." acknowledgement: "This work was supported by funding from the National Science Centre, Poland, under the OPUS call in the Weave program and the Austrian Science Fund, Austria project (FWF)/OPUS – Peptide receptor complexes for auxin canalization and regeneration in Arabidopsis (grant \r\n2021/43/I/NZ1/01835) to E.M., and grant I 6123-B to J.F." article_processing_charge: No article_type: original author: - first_name: Barbara full_name: Wójcikowska, Barbara last_name: Wójcikowska - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Ewa full_name: Mazur, Ewa last_name: Mazur citation: ama: Wójcikowska B, Friml J, Mazur E. BiAux, a newly discovered compound triggering auxin signaling. Trends in Plant Science. 2024;29(12):1279-1281. doi:10.1016/j.tplants.2024.07.008 apa: Wójcikowska, B., Friml, J., & Mazur, E. (2024). BiAux, a newly discovered compound triggering auxin signaling. Trends in Plant Science. Elsevier. https://doi.org/10.1016/j.tplants.2024.07.008 chicago: Wójcikowska, Barbara, Jiří Friml, and Ewa Mazur. “BiAux, a Newly Discovered Compound Triggering Auxin Signaling.” Trends in Plant Science. Elsevier, 2024. https://doi.org/10.1016/j.tplants.2024.07.008. ieee: B. Wójcikowska, J. Friml, and E. Mazur, “BiAux, a newly discovered compound triggering auxin signaling,” Trends in Plant Science, vol. 29, no. 12. Elsevier, pp. 1279–1281, 2024. ista: Wójcikowska B, Friml J, Mazur E. 2024. BiAux, a newly discovered compound triggering auxin signaling. Trends in Plant Science. 29(12), 1279–1281. mla: Wójcikowska, Barbara, et al. “BiAux, a Newly Discovered Compound Triggering Auxin Signaling.” Trends in Plant Science, vol. 29, no. 12, Elsevier, 2024, pp. 1279–81, doi:10.1016/j.tplants.2024.07.008. short: B. Wójcikowska, J. Friml, E. Mazur, Trends in Plant Science 29 (2024) 1279–1281. corr_author: '1' date_created: 2024-08-04T22:01:22Z date_published: 2024-12-01T00:00:00Z date_updated: 2025-11-24T15:13:16Z day: '01' ddc: - '580' department: - _id: JiFr doi: 10.1016/j.tplants.2024.07.008 external_id: isi: - '001375335200001' pmid: - '39079770' file: - access_level: open_access checksum: 89a83fe25b9ec1aad8e22d134a342c09 content_type: application/pdf creator: dernst date_created: 2025-11-24T15:12:50Z date_updated: 2025-11-24T15:12:50Z file_id: '20691' file_name: 2024_TrendsPlantScience_Wojcikowska_submittedversion.pdf file_size: 277636 relation: main_file success: 1 file_date_updated: 2025-11-24T15:12:50Z has_accepted_license: '1' intvolume: ' 29' isi: 1 issue: '12' language: - iso: eng month: '12' oa: 1 oa_version: Submitted Version page: 1279-1281 pmid: 1 project: - _id: bd76d395-d553-11ed-ba76-f678c14f9033 grant_number: I06123 name: Peptide receptors for auxin canalization in Arabidopsis publication: Trends in Plant Science publication_identifier: issn: - 1360-1385 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: BiAux, a newly discovered compound triggering auxin signaling type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 29 year: '2024' ... --- _id: '17389' abstract: - lang: eng text: The potential of Si and SiGe-based devices for the scaling of quantum circuits is tainted by device variability. Each device needs to be tuned to operation conditions and each device realisation requires a different tuning protocol. We demonstrate that it is possible to automate the tuning of a 4-gate Si FinFET, a 5-gate GeSi nanowire and a 7-gate Ge/SiGe heterostructure double quantum dot device from scratch with the same algorithm. We achieve tuning times of 30, 10, and 92 min, respectively. The algorithm also provides insight into the parameter space landscape for each of these devices, allowing for the characterization of the regions where double quantum dot regimes are found. These results show that overarching solutions for the tuning of quantum devices are enabled by machine learning. acknowledged_ssus: - _id: NanoFab acknowledgement: We acknowledge Ang Li, Erik P. A. M. Bakkers (University of Eindhoven) for the fabrication of the Ge/Si nanowire. This work was supported by the Royal Society, the EPSRC National Quantum Technology Hub in Networked Quantum Information Technology (EP/M013243/1), Quantum Technology Capital (EP/N014995/1), EPSRC Platform Grant (EP/R029229/1), the European Research Council (Grant agreement 948932), the Swiss Nanoscience Institute, the NCCR SPIN, the EU H2020 European Microkelvin Platform EMP grant No. 824109, the Scientific Service Units of IST Austria through resources provided by the nanofabrication facility, the FWF-I 05060 and the FWF-P 30207 project. article_number: '17281' article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: B. full_name: Severin, B. last_name: Severin - first_name: D. T. full_name: Lennon, D. T. last_name: Lennon - first_name: L. C. full_name: Camenzind, L. C. last_name: Camenzind - first_name: F. full_name: Vigneau, F. last_name: Vigneau - first_name: F. full_name: Fedele, F. last_name: Fedele - first_name: Daniel full_name: Jirovec, Daniel id: 4C473F58-F248-11E8-B48F-1D18A9856A87 last_name: Jirovec orcid: 0000-0002-7197-4801 - first_name: A. full_name: Ballabio, A. last_name: Ballabio - first_name: D. full_name: Chrastina, D. last_name: Chrastina - first_name: G. full_name: Isella, G. last_name: Isella - first_name: M. full_name: de Kruijf, M. last_name: de Kruijf - first_name: M. J. full_name: Carballido, M. J. last_name: Carballido - first_name: S. full_name: Svab, S. last_name: Svab - first_name: A. V. full_name: Kuhlmann, A. V. last_name: Kuhlmann - first_name: S. full_name: Geyer, S. last_name: Geyer - first_name: F. N. M. full_name: Froning, F. N. M. last_name: Froning - first_name: H. full_name: Moon, H. last_name: Moon - first_name: M. A. full_name: Osborne, M. A. last_name: Osborne - first_name: D. full_name: Sejdinovic, D. last_name: Sejdinovic - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X - first_name: D. M. full_name: Zumbühl, D. M. last_name: Zumbühl - first_name: G. A. D. full_name: Briggs, G. A. D. last_name: Briggs - first_name: N. full_name: Ares, N. last_name: Ares citation: ama: Severin B, Lennon DT, Camenzind LC, et al. Cross-architecture tuning of silicon and SiGe-based quantum devices using machine learning. Scientific Reports. 2024;14. doi:10.1038/s41598-024-67787-z apa: Severin, B., Lennon, D. T., Camenzind, L. C., Vigneau, F., Fedele, F., Jirovec, D., … Ares, N. (2024). Cross-architecture tuning of silicon and SiGe-based quantum devices using machine learning. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-024-67787-z chicago: Severin, B., D. T. Lennon, L. C. Camenzind, F. Vigneau, F. Fedele, Daniel Jirovec, A. Ballabio, et al. “Cross-Architecture Tuning of Silicon and SiGe-Based Quantum Devices Using Machine Learning.” Scientific Reports. Springer Nature, 2024. https://doi.org/10.1038/s41598-024-67787-z. ieee: B. Severin et al., “Cross-architecture tuning of silicon and SiGe-based quantum devices using machine learning,” Scientific Reports, vol. 14. Springer Nature, 2024. ista: Severin B, Lennon DT, Camenzind LC, Vigneau F, Fedele F, Jirovec D, Ballabio A, Chrastina D, Isella G, de Kruijf M, Carballido MJ, Svab S, Kuhlmann AV, Geyer S, Froning FNM, Moon H, Osborne MA, Sejdinovic D, Katsaros G, Zumbühl DM, Briggs GAD, Ares N. 2024. Cross-architecture tuning of silicon and SiGe-based quantum devices using machine learning. Scientific Reports. 14, 17281. mla: Severin, B., et al. “Cross-Architecture Tuning of Silicon and SiGe-Based Quantum Devices Using Machine Learning.” Scientific Reports, vol. 14, 17281, Springer Nature, 2024, doi:10.1038/s41598-024-67787-z. short: B. Severin, D.T. Lennon, L.C. Camenzind, F. Vigneau, F. Fedele, D. Jirovec, A. Ballabio, D. Chrastina, G. Isella, M. de Kruijf, M.J. Carballido, S. Svab, A.V. Kuhlmann, S. Geyer, F.N.M. Froning, H. Moon, M.A. Osborne, D. Sejdinovic, G. Katsaros, D.M. Zumbühl, G.A.D. Briggs, N. Ares, Scientific Reports 14 (2024). date_created: 2024-08-05T08:50:51Z date_published: 2024-07-27T00:00:00Z date_updated: 2025-09-08T08:49:16Z day: '27' ddc: - '530' department: - _id: GeKa doi: 10.1038/s41598-024-67787-z external_id: arxiv: - '2107.12975' isi: - '001281273100062' pmid: - '39068242' file: - access_level: open_access checksum: 0b34b89e5f4f3f7b32ffadf104394594 content_type: application/pdf creator: dernst date_created: 2024-08-05T08:52:14Z date_updated: 2024-08-05T08:52:14Z file_id: '17390' file_name: 2024_ScientificReports_Severin.pdf file_size: 2255741 relation: main_file success: 1 file_date_updated: 2024-08-05T08:52:14Z has_accepted_license: '1' intvolume: ' 14' isi: 1 language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '07' oa: 1 oa_version: Published Version pmid: 1 project: - _id: c0977eea-5a5b-11eb-8a69-a862db0cf4d1 grant_number: I05060 name: High impedance circuit quantum electrodynamics with hole spins - _id: 2641CE5E-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P30207 name: Hole spin orbit qubits in Ge quantum wells publication: Scientific Reports publication_identifier: issn: - 2045-2322 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '10066' relation: earlier_version status: public scopus_import: '1' status: public title: Cross-architecture tuning of silicon and SiGe-based quantum devices using machine learning tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 14 year: '2024' ... --- _id: '17396' abstract: - lang: eng text: Wildfire intensity and severity have been increasing in the Iberian Peninsula in recent years, particularly in the Galicia region, due to rising temperatures and accumulating drier combustible vegetation in unmanaged lands. This leads to substantial emissions of air pollutants, notably fine particles (PM2.5), posing a risk to public health. This study aims to assess the impact of local and regional wildfires on PM2.5 levels in Galicia's main cities and their implications for air quality and public health. Over a decade (2013–2022), PM2.5 data during wildfire seasons were analyzed using statistical methods and Lagrangian tracking to monitor smoke plume evolution. The results reveal a notable increase in PM2.5 concentration during the wildfire season (June–November) in Galicia, surpassing health guidelines during extreme events and posing a significant health risk to the population. Regional wildfire analyses indicate that smoke plumes from Northern Portugal contribute to pollution in Galician cities, influencing the seasonality of heightened PM2.5 levels. During extensive wildfires, elevated PM2.5 concentration values persisted for several days, potentially exacerbating health concerns in Galicia. These findings underscore the urgency of implementing air pollution prevention and management measures in the region, including developing effective alerts for large-scale events and improved wildfire management strategies to mitigate their impact on air quality in Galician cities. acknowledgement: 'Alejandro Casallas was partially funded by a fellowship from the Abdus Salam International Centre for Theoretical Physics – ICTP. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413 awarded to Alejandro Casallas. ' article_number: '122093' article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: César full_name: Quishpe-Vásquez, César last_name: Quishpe-Vásquez - first_name: Patricia full_name: Oliva, Patricia last_name: Oliva - first_name: Ellie Anne full_name: López-Barrera, Ellie Anne last_name: López-Barrera - first_name: Alejandro full_name: Casallas Garcia, Alejandro id: 92081129-2d75-11ef-a48d-b04dd7a2385a last_name: Casallas Garcia orcid: 0000-0002-1988-5035 citation: ama: Quishpe-Vásquez C, Oliva P, López-Barrera EA, Casallas Garcia A. Wildfires impact on PM2.5 concentration in galicia Spain. Journal of Environmental Management. 2024;367. doi:10.1016/j.jenvman.2024.122093 apa: Quishpe-Vásquez, C., Oliva, P., López-Barrera, E. A., & Casallas Garcia, A. (2024). Wildfires impact on PM2.5 concentration in galicia Spain. Journal of Environmental Management. Elsevier. https://doi.org/10.1016/j.jenvman.2024.122093 chicago: Quishpe-Vásquez, César, Patricia Oliva, Ellie Anne López-Barrera, and Alejandro Casallas Garcia. “Wildfires Impact on PM2.5 Concentration in Galicia Spain.” Journal of Environmental Management. Elsevier, 2024. https://doi.org/10.1016/j.jenvman.2024.122093. ieee: C. Quishpe-Vásquez, P. Oliva, E. A. López-Barrera, and A. Casallas Garcia, “Wildfires impact on PM2.5 concentration in galicia Spain,” Journal of Environmental Management, vol. 367. Elsevier, 2024. ista: Quishpe-Vásquez C, Oliva P, López-Barrera EA, Casallas Garcia A. 2024. Wildfires impact on PM2.5 concentration in galicia Spain. Journal of Environmental Management. 367, 122093. mla: Quishpe-Vásquez, César, et al. “Wildfires Impact on PM2.5 Concentration in Galicia Spain.” Journal of Environmental Management, vol. 367, 122093, Elsevier, 2024, doi:10.1016/j.jenvman.2024.122093. short: C. Quishpe-Vásquez, P. Oliva, E.A. López-Barrera, A. Casallas Garcia, Journal of Environmental Management 367 (2024). date_created: 2024-08-06T05:54:52Z date_published: 2024-09-01T00:00:00Z date_updated: 2025-09-08T08:53:10Z day: '01' ddc: - '550' department: - _id: CaMu doi: 10.1016/j.jenvman.2024.122093 ec_funded: 1 external_id: isi: - '001289532100001' pmid: - '39106804' file: - access_level: open_access checksum: 6fa476a4c08aded413844d92336b0e52 content_type: application/pdf creator: acasalla date_created: 2024-08-09T13:37:23Z date_updated: 2024-08-09T13:37:23Z file_id: '17405' file_name: Fires_Galicia_SM.pdf file_size: 1595118 relation: main_file success: 1 - access_level: open_access checksum: 859dcdef9555c383b702cf8cc7da66f2 content_type: application/pdf creator: acasalla date_created: 2024-08-09T13:37:24Z date_updated: 2024-08-09T13:37:24Z file_id: '17406' file_name: Fires_Galicia.pdf file_size: 13662676 relation: main_file success: 1 file_date_updated: 2024-08-09T13:37:24Z has_accepted_license: '1' intvolume: ' 367' isi: 1 language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ month: '09' oa: 1 oa_version: Published Version pmid: 1 project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Journal of Environmental Management publication_identifier: issn: - 0301-4797 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Wildfires impact on PM2.5 concentration in galicia Spain tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 367 year: '2024' ... --- _id: '17402' abstract: - lang: eng text: We present version 2.0 of the Partial Exploration Tool (PET), a tool for verification of probabilistic systems. We extend the previous version by adding support for stochastic games, based on a recent unified framework for sound value iteration algorithms. Thereby, PET2 is the first tool implementing a sound and efficient approach for solving stochastic games with objectives of the type reachability/safety and mean payoff. We complement this approach by developing and implementing a partial-exploration based variant for all three objectives. Our experimental evaluation shows that PET2 offers the most efficient partial-exploration based algorithm and is the most viable tool on SGs, even outperforming unsound tools. acknowledgement: M. Weininger has received funding from the EU’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 101034413. alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) arxiv: 1 author: - first_name: Tobias full_name: Meggendorfer, Tobias id: b21b0c15-30a2-11eb-80dc-f13ca25802e1 last_name: Meggendorfer orcid: 0000-0002-1712-2165 - first_name: Maximilian full_name: Weininger, Maximilian id: 02ab0197-cc70-11ed-ab61-918e71f56881 last_name: Weininger citation: ama: 'Meggendorfer T, Weininger M. Playing games with your PET: Extending the Partial Exploration Tool to stochastic games. In: 36th International Conference on Computer Aided Verification. Vol 14683. Springer Nature; 2024:359-372. doi:10.1007/978-3-031-65633-0_16' apa: 'Meggendorfer, T., & Weininger, M. (2024). Playing games with your PET: Extending the Partial Exploration Tool to stochastic games. In 36th International Conference on Computer Aided Verification (Vol. 14683, pp. 359–372). Montreal, Canada: Springer Nature. https://doi.org/10.1007/978-3-031-65633-0_16' chicago: 'Meggendorfer, Tobias, and Maximilian Weininger. “Playing Games with Your PET: Extending the Partial Exploration Tool to Stochastic Games.” In 36th International Conference on Computer Aided Verification, 14683:359–72. Springer Nature, 2024. https://doi.org/10.1007/978-3-031-65633-0_16.' ieee: 'T. Meggendorfer and M. Weininger, “Playing games with your PET: Extending the Partial Exploration Tool to stochastic games,” in 36th International Conference on Computer Aided Verification, Montreal, Canada, 2024, vol. 14683, pp. 359–372.' ista: 'Meggendorfer T, Weininger M. 2024. Playing games with your PET: Extending the Partial Exploration Tool to stochastic games. 36th International Conference on Computer Aided Verification. CAV: Computer Aided Verification, LNCS, vol. 14683, 359–372.' mla: 'Meggendorfer, Tobias, and Maximilian Weininger. “Playing Games with Your PET: Extending the Partial Exploration Tool to Stochastic Games.” 36th International Conference on Computer Aided Verification, vol. 14683, Springer Nature, 2024, pp. 359–72, doi:10.1007/978-3-031-65633-0_16.' short: T. Meggendorfer, M. Weininger, in:, 36th International Conference on Computer Aided Verification, Springer Nature, 2024, pp. 359–372. conference: end_date: 2024-07-27 location: Montreal, Canada name: 'CAV: Computer Aided Verification' start_date: 2024-07-24 corr_author: '1' date_created: 2024-08-09T11:24:54Z date_published: 2024-07-01T00:00:00Z date_updated: 2025-09-08T08:53:55Z day: '01' ddc: - '000' department: - _id: KrCh doi: 10.1007/978-3-031-65633-0_16 ec_funded: 1 external_id: arxiv: - '2405.03885' isi: - '001307897000016' file: - access_level: open_access checksum: c888231d0a47b55786b7b4c0f02216bb content_type: application/pdf creator: dernst date_created: 2024-08-12T08:39:12Z date_updated: 2024-08-12T08:39:12Z file_id: '17419' file_name: 2024_CAV_Meggendorfer.pdf file_size: 368487 relation: main_file success: 1 file_date_updated: 2024-08-12T08:39:12Z has_accepted_license: '1' intvolume: ' 14683' isi: 1 language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 359-372 project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: 36th International Conference on Computer Aided Verification publication_identifier: eisbn: - '9783031656330' eissn: - 1611-3349 isbn: - '9783031656323' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: 'Playing games with your PET: Extending the Partial Exploration Tool to stochastic games' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: conference user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 14683 year: '2024' ... --- APC_amount: 3534 EUR OA_place: publisher OA_type: gold _id: '17407' abstract: - lang: eng text: The ability to control forces between sub-micron-scale building blocks offers significant potential for designing new materials through self-assembly. Traditionally, this involves identifying a crystal structure with a desired property and then designing building-block interactions so that it assembles spontaneously. However, this paradigm fails for structurally disordered solids, which lack a well-defined structure. Here, we show that disordered solids can still be treated from an inverse self-assembly perspective by bypassing structure and directly targeting material properties. Using the Poisson’s ratio as a primary example, we demonstrate how differentiable programming links interaction parameters with emergent behavior, enabling iterative training to achieve the desired Poisson’s ratio. We also tune other properties, including pressure and local 8-fold structural order, and can even control multiple properties simultaneously. This robust, transferable, and scalable approach can handle a wide variety of systems and properties, demonstrating the utility of disordered solids as a practical avenue for self-assembly platforms. acknowledgement: We thank M. Lechner for helpful discussions. article_number: '141' article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: Mengjie full_name: Zu, Mengjie id: 26dd9e7c-e86a-11eb-a854-82ac731c9ae2 last_name: Zu - first_name: Carl Peter full_name: Goodrich, Carl Peter id: EB352CD2-F68A-11E9-89C5-A432E6697425 last_name: Goodrich orcid: 0000-0002-1307-5074 citation: ama: Zu M, Goodrich CP. Designing athermal disordered solids with automatic differentiation. Communications Materials. 2024;5. doi:10.1038/s43246-024-00583-4 apa: Zu, M., & Goodrich, C. P. (2024). Designing athermal disordered solids with automatic differentiation. Communications Materials. Springer Nature. https://doi.org/10.1038/s43246-024-00583-4 chicago: Zu, Mengjie, and Carl Peter Goodrich. “Designing Athermal Disordered Solids with Automatic Differentiation.” Communications Materials. Springer Nature, 2024. https://doi.org/10.1038/s43246-024-00583-4. ieee: M. Zu and C. P. Goodrich, “Designing athermal disordered solids with automatic differentiation,” Communications Materials, vol. 5. Springer Nature, 2024. ista: Zu M, Goodrich CP. 2024. Designing athermal disordered solids with automatic differentiation. Communications Materials. 5, 141. mla: Zu, Mengjie, and Carl Peter Goodrich. “Designing Athermal Disordered Solids with Automatic Differentiation.” Communications Materials, vol. 5, 141, Springer Nature, 2024, doi:10.1038/s43246-024-00583-4. short: M. Zu, C.P. Goodrich, Communications Materials 5 (2024). corr_author: '1' date_created: 2024-08-11T22:01:11Z date_published: 2024-08-01T00:00:00Z date_updated: 2025-05-08T09:45:35Z day: '01' ddc: - '530' department: - _id: CaGo doi: 10.1038/s43246-024-00583-4 external_id: arxiv: - '2404.15101' file: - access_level: open_access checksum: d6f74e242db5f46bb0e380ee23a268af content_type: application/pdf creator: dernst date_created: 2024-08-12T07:56:38Z date_updated: 2024-08-12T07:56:38Z file_id: '17416' file_name: 2024_CommMaterials_Zu.pdf file_size: 9824134 relation: main_file success: 1 file_date_updated: 2024-08-12T07:56:38Z has_accepted_license: '1' intvolume: ' 5' language: - iso: eng month: '08' oa: 1 oa_version: Published Version project: - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Communications Materials publication_identifier: eissn: - 2662-4443 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Designing athermal disordered solids with automatic differentiation tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2024' ... --- _id: '17408' abstract: - lang: eng text: "Background: The remarkable regenerative abilities observed in planarians and cnidarians are closely linked to the active proliferation of adult stem cells and the precise differentiation of their progeny, both of which typically deteriorate during aging in low regenerative animals. While regeneration-specific genes conserved in highly regenerative organisms may confer regenerative abilities and long-term maintenance of tissue homeostasis, it remains unclear whether introducing these regenerative genes into low regenerative animals can improve their regeneration and aging processes.\r\n\r\nResults: Here, we ectopically express highly regenerative species-specific JmjC domain-encoding genes (HRJDs) in Drosophila, a widely used low regenerative model organism. Surprisingly, HRJD expression impedes tissue regeneration in the developing wing disc but extends organismal lifespan when expressed in the intestinal stem cell lineages of the adult midgut under non-regenerative conditions. Notably, HRJDs enhance the proliferative activity of intestinal stem cells while maintaining their differentiation fidelity, ameliorating age-related decline in gut barrier functions.\r\n\r\nConclusions: These findings together suggest that the introduction of highly regenerative species-specific genes can improve stem cell functions and promote a healthy lifespan when expressed in aging animals." acknowledgement: "We thank I. Miguel-Aliaga, N. Shinoda, M. Furuse, Y. Izumi, BDSC, Kyoto Stock Center, Drosophila Genomics Resource Center (DGRC), and Developmental Studies Hybridoma Bank (DSHB) for fly stocks and reagents.\r\nThis work was supported by JSPS/MEXT KAKENHI (grant numbers JP22J01430 to H.N., JP21H04774, JP23H04766, JP24H00567 to M.M., and JP17H06332, JP22H02762, JP23K18134, JP23H04696 to Y.N.), AMED-Aging (JP21gm5010001 to M.M.), AMED-PRIME (JP22gm6110025 to Y.N.), and Sadako O. Hirai Ban Award for Young Researchers (H.N.)" article_number: '157' article_processing_charge: Yes article_type: original author: - first_name: Hiroki full_name: Nagai, Hiroki id: 608df3e6-e2ab-11ed-8890-c9318cec7da4 last_name: Nagai orcid: 0000-0003-1671-9434 - first_name: Yuya full_name: Adachi, Yuya last_name: Adachi - first_name: Tenki full_name: Nakasugi, Tenki last_name: Nakasugi - first_name: Ema full_name: Takigawa, Ema last_name: Takigawa - first_name: Junichiro full_name: Ui, Junichiro last_name: Ui - first_name: Takashi full_name: Makino, Takashi last_name: Makino - first_name: Masayuki full_name: Miura, Masayuki last_name: Miura - first_name: Yu Ichiro full_name: Nakajima, Yu Ichiro last_name: Nakajima citation: ama: NAGAI H, Adachi Y, Nakasugi T, et al. Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut. BMC Biology. 2024;22. doi:10.1186/s12915-024-01956-4 apa: NAGAI, H., Adachi, Y., Nakasugi, T., Takigawa, E., Ui, J., Makino, T., … Nakajima, Y. I. (2024). Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut. BMC Biology. Springer Nature. https://doi.org/10.1186/s12915-024-01956-4 chicago: NAGAI, HIROKI, Yuya Adachi, Tenki Nakasugi, Ema Takigawa, Junichiro Ui, Takashi Makino, Masayuki Miura, and Yu Ichiro Nakajima. “Highly Regenerative Species-Specific Genes Improve Age-Associated Features in the Adult Drosophila Midgut.” BMC Biology. Springer Nature, 2024. https://doi.org/10.1186/s12915-024-01956-4. ieee: H. NAGAI et al., “Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut,” BMC Biology, vol. 22. Springer Nature, 2024. ista: NAGAI H, Adachi Y, Nakasugi T, Takigawa E, Ui J, Makino T, Miura M, Nakajima YI. 2024. Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut. BMC Biology. 22, 157. mla: NAGAI, HIROKI, et al. “Highly Regenerative Species-Specific Genes Improve Age-Associated Features in the Adult Drosophila Midgut.” BMC Biology, vol. 22, 157, Springer Nature, 2024, doi:10.1186/s12915-024-01956-4. short: H. NAGAI, Y. Adachi, T. Nakasugi, E. Takigawa, J. Ui, T. Makino, M. Miura, Y.I. Nakajima, BMC Biology 22 (2024). date_created: 2024-08-11T22:01:11Z date_published: 2024-08-02T00:00:00Z date_updated: 2025-09-08T08:51:29Z day: '02' ddc: - '570' department: - _id: XiFe doi: 10.1186/s12915-024-01956-4 external_id: isi: - '001282893200001' pmid: - '39090637' file: - access_level: open_access checksum: 318759626ec83b13f909c82904393ef1 content_type: application/pdf creator: dernst date_created: 2024-08-12T08:14:44Z date_updated: 2024-08-12T08:14:44Z file_id: '17417' file_name: 2024_BMCBio_Nagai.pdf file_size: 3345718 relation: main_file success: 1 file_date_updated: 2024-08-12T08:14:44Z has_accepted_license: '1' intvolume: ' 22' isi: 1 language: - iso: eng month: '08' oa: 1 oa_version: Published Version pmid: 1 publication: BMC Biology publication_identifier: eissn: - 1741-7007 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 22 year: '2024' ... --- DOAJ_listed: '1' _id: '17409' abstract: - lang: eng text: Light-driven rotary molecular motors are among the most promising classes of responsive molecular machines and take advantage of their intrinsic chirality which governs unidirectional rotation. As a consequence of their dynamic function, they receive considerable interest in the areas of supramolecular chemistry, asymmetric catalysis and responsive materials. Among the emerging classes of responsive photochromic molecules, multistate first-generation molecular motors driven by benign visible light remain unexplored, which limits the exploitation of the full potential of these mechanical light-powered systems. Herein, we describe a series of all-visible-light-driven first-generation molecular motors based on the salicylidene Schiff base functionality. Remarkable redshifts up to 100 nm in absorption are achieved compared to conventional first-generation motor structures. Taking advantage of all-visible-light-driven multistate motor scaffolds, adaptive behaviour is found as well, and potential application in multistate photoluminescence is demonstrated. These functional visible-light-responsive motors will likely stimulate the design and synthesis of more sophisticated nanomachinery with a myriad of future applications in powering dynamic systems. acknowledgement: Financial support from the Netherlands Organization for Scientific Research (NWO-CW), the Dutch Ministry of Education, Culture and Science (Gravitation program No.024.001.035), the China Scholarship Council (CSC PhD Fellowship No.201808330459 to J. S.). We thank Dr. Youxin Fu, Dr. Alexander Ryabchun, Dr. Wojciech Danowski, Dr. Jianyu Zhang and Yahan Shan from University of Groningen for their help to this project and fruitful discussions. article_number: '6461' article_processing_charge: Yes article_type: original author: - first_name: Sven full_name: Van Vliet, Sven last_name: Van Vliet - first_name: Jinyu full_name: Sheng, Jinyu id: 639f0526-27c9-11ee-95a6-966cd7f102d8 last_name: Sheng - first_name: Charlotte N. full_name: Stindt, Charlotte N. last_name: Stindt - first_name: Ben L. full_name: Feringa, Ben L. last_name: Feringa citation: ama: Van Vliet S, Sheng J, Stindt CN, Feringa BL. All-visible-light-driven salicylidene schiff-base-functionalized artificial molecular motors. Nature Communications. 2024;15. doi:10.1038/s41467-024-50587-4 apa: Van Vliet, S., Sheng, J., Stindt, C. N., & Feringa, B. L. (2024). All-visible-light-driven salicylidene schiff-base-functionalized artificial molecular motors. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-024-50587-4 chicago: Van Vliet, Sven, Jinyu Sheng, Charlotte N. Stindt, and Ben L. Feringa. “All-Visible-Light-Driven Salicylidene Schiff-Base-Functionalized Artificial Molecular Motors.” Nature Communications. Springer Nature, 2024. https://doi.org/10.1038/s41467-024-50587-4. ieee: S. Van Vliet, J. Sheng, C. N. Stindt, and B. L. Feringa, “All-visible-light-driven salicylidene schiff-base-functionalized artificial molecular motors,” Nature Communications, vol. 15. Springer Nature, 2024. ista: Van Vliet S, Sheng J, Stindt CN, Feringa BL. 2024. All-visible-light-driven salicylidene schiff-base-functionalized artificial molecular motors. Nature Communications. 15, 6461. mla: Van Vliet, Sven, et al. “All-Visible-Light-Driven Salicylidene Schiff-Base-Functionalized Artificial Molecular Motors.” Nature Communications, vol. 15, 6461, Springer Nature, 2024, doi:10.1038/s41467-024-50587-4. short: S. Van Vliet, J. Sheng, C.N. Stindt, B.L. Feringa, Nature Communications 15 (2024). date_created: 2024-08-11T22:01:11Z date_published: 2024-07-31T00:00:00Z date_updated: 2025-09-08T08:52:15Z day: '31' ddc: - '540' department: - _id: RaKl doi: 10.1038/s41467-024-50587-4 external_id: isi: - '001282384300020' pmid: - '39085193' file: - access_level: open_access checksum: 4aca2ea30fe529947cb2f4c7fc2af2df content_type: application/pdf creator: dernst date_created: 2024-08-12T08:23:10Z date_updated: 2024-08-12T08:23:10Z file_id: '17418' file_name: 2024_NatureComm_vanVliet.pdf file_size: 1355696 relation: main_file success: 1 file_date_updated: 2024-08-12T08:23:10Z has_accepted_license: '1' intvolume: ' 15' isi: 1 language: - iso: eng month: '07' oa: 1 oa_version: Published Version pmid: 1 publication: Nature Communications publication_identifier: eissn: - 2041-1723 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: All-visible-light-driven salicylidene schiff-base-functionalized artificial molecular motors tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 15 year: '2024' ... --- _id: '17410' abstract: - lang: eng text: We present a cavity-electromechanical system comprising a superconducting quantum interference device which is embedded in a microwave resonator and coupled via a pickup loop to a 6-μ⁢g magnetically levitated superconducting sphere. The motion of the sphere in the magnetic trap induces a frequency shift in the SQUID-cavity system. We use microwave spectroscopy to characterize the system, and we demonstrate that the electromechanical interaction is tunable. The measured displacement sensitivity of 10−7m/√Hz defines a path towards ground-state cooling of levitated particles with Planck-scale masses at millikelvin environment temperatures. acknowledgement: We gratefully acknowledge valuable discussions with Uros Delic, Lorenzo Magrini, and Corentin Gut. This work was supported by the European Union’s Horizon 2020 research and innovation program under Grant No. 863132 (iQLev) and No. 101080143 (SuperMeQ), the European Research Council under Grant No. 951234 (ERC Synergy QXtreme), the Austrian and Bavarian Academy of Sciences (Topical Team SGQ), the Alexander von Humboldt Foundation through a Feodor Lynen Fellowship (P.S.), the Swedish Research Council under Grant No. 2020-00381 (G.H.), and the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) via Germany’s Excellence Strategy EXC-2111-390814868 (H.H., R.G.). article_number: '014078' article_processing_charge: No article_type: original arxiv: 1 author: - first_name: Philip full_name: Schmidt, Philip last_name: Schmidt - first_name: Remi full_name: Claessen, Remi last_name: Claessen - first_name: Gerard full_name: Higgins, Gerard last_name: Higgins - first_name: Joachim full_name: Hofer, Joachim last_name: Hofer - first_name: Jannek J. full_name: Hansen, Jannek J. last_name: Hansen - first_name: Peter full_name: Asenbaum, Peter last_name: Asenbaum - first_name: Martin full_name: Zemlicka, Martin id: 2DCF8DE6-F248-11E8-B48F-1D18A9856A87 last_name: Zemlicka - first_name: Kevin full_name: Uhl, Kevin last_name: Uhl - first_name: Reinhold full_name: Kleiner, Reinhold last_name: Kleiner - first_name: Rudolf full_name: Gross, Rudolf last_name: Gross - first_name: Hans full_name: Huebl, Hans last_name: Huebl - first_name: Michael full_name: Trupke, Michael last_name: Trupke - first_name: Markus full_name: Aspelmeyer, Markus last_name: Aspelmeyer citation: ama: Schmidt P, Claessen R, Higgins G, et al. Remote sensing of a levitated superconductor with a flux-tunable microwave cavity. Physical Review Applied. 2024;22. doi:10.1103/PhysRevApplied.22.014078 apa: Schmidt, P., Claessen, R., Higgins, G., Hofer, J., Hansen, J. J., Asenbaum, P., … Aspelmeyer, M. (2024). Remote sensing of a levitated superconductor with a flux-tunable microwave cavity. Physical Review Applied. American Physical Society. https://doi.org/10.1103/PhysRevApplied.22.014078 chicago: Schmidt, Philip, Remi Claessen, Gerard Higgins, Joachim Hofer, Jannek J. Hansen, Peter Asenbaum, Martin Zemlicka, et al. “Remote Sensing of a Levitated Superconductor with a Flux-Tunable Microwave Cavity.” Physical Review Applied. American Physical Society, 2024. https://doi.org/10.1103/PhysRevApplied.22.014078. ieee: P. Schmidt et al., “Remote sensing of a levitated superconductor with a flux-tunable microwave cavity,” Physical Review Applied, vol. 22. American Physical Society, 2024. ista: Schmidt P, Claessen R, Higgins G, Hofer J, Hansen JJ, Asenbaum P, Zemlicka M, Uhl K, Kleiner R, Gross R, Huebl H, Trupke M, Aspelmeyer M. 2024. Remote sensing of a levitated superconductor with a flux-tunable microwave cavity. Physical Review Applied. 22, 014078. mla: Schmidt, Philip, et al. “Remote Sensing of a Levitated Superconductor with a Flux-Tunable Microwave Cavity.” Physical Review Applied, vol. 22, 014078, American Physical Society, 2024, doi:10.1103/PhysRevApplied.22.014078. short: P. Schmidt, R. Claessen, G. Higgins, J. Hofer, J.J. Hansen, P. Asenbaum, M. Zemlicka, K. Uhl, R. Kleiner, R. Gross, H. Huebl, M. Trupke, M. Aspelmeyer, Physical Review Applied 22 (2024). date_created: 2024-08-11T22:01:12Z date_published: 2024-07-30T00:00:00Z date_updated: 2025-09-08T08:50:31Z day: '30' department: - _id: JoFi doi: 10.1103/PhysRevApplied.22.014078 external_id: arxiv: - '2401.08854' isi: - '001284571700002' intvolume: ' 22' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2401.08854 month: '07' oa: 1 oa_version: Preprint publication: Physical Review Applied publication_identifier: eissn: - 2331-7019 publication_status: published publisher: American Physical Society quality_controlled: '1' scopus_import: '1' status: public title: Remote sensing of a levitated superconductor with a flux-tunable microwave cavity type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 22 year: '2024' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '17412' abstract: - lang: eng text: The electroreduction of biomass-derived benzaldehyde (BZH) provides a potentially cost-effective route to produce benzyl alcohol (BA). This reaction competes with the electrochemical self-coupling of BZH to hydrobenzoin (HDB), which holds significance as a biofuel. Herein, we demonstrate the selectivity towards one or the other product strongly depends on the surface chemistry of the catalyst, specifically on its ability to adsorb hydrogen, as showcased with Cu2S electrocatalysts. We particularly analyze the effect of surface ligands, oleylamine (OAm), on the selective conversion of BZH to BA or HDB. The effect of the electrode potential, electrolyte pH, and temperature are studied. Results indicate that bare Cu2S exhibits higher selectivity towards BA, while OAm-capped Cu2S promotes HDB formation. This difference is explained by the competing adsorption of protons and BZH. During the BZH electrochemical conversion, electrons first transfer to the C in the C[double bond, length as m-dash]O group to form a ketyl radical. Then the radical either couples with surrounding H+ to form BA or self-couple to produce HDB, depending on the H+ availability that is affected by the electrocatalyst surface properties. The presence of OAm inhibits the H adsorption on the electrode surface therefore reducing the formation of high-energy state Had and its combination with ketyl radicals to form BA. Instead, the presence of OAm promotes the outer sphere reaction for obtaining HDB. acknowledgement: 'L. Gong and J. Yu thank the China Scholarship Council for the scholarship support. ICN2 acknowledges funding from Generalitat de Catalunya 2021SGR00457. This study is part of the Advanced Materials programme and was supported by MCIN with funding from European Union NextGenerationEU (PRTR-C17.I1) and by Generalitat de Catalunya. The authors thank support from the project NANOGEN (PID2020-116093RB-C43), funded by MCIN/AEI/10.13039/501100011033/and by “ERDF A way of making Europe”, by the “European Union”. ICN2 is supported by the Severo Ochoa program from Spanish MCIN/AEI (Grant No.: CEX2021-001214-S) and is funded by the CERCA Programme/Generalitat de Catalunya. Part of the present work has been performed in the framework of Universitat Autònoma de Barcelona Materials Science PhD program. Authors acknowledge the use of instrumentation as well as the technical advice provided by the Joint Electron Microscopy Center at ALBA (JEMCA). ICN2 acknowledges funding from Grant IU16-014206 (METCAM-FIB) funded by the European Union through the European Regional Development Fund (ERDF), with the support of the Ministry of Research and Universities, Generalitat de Catalunya. ICN2 is founding member of e-DREAM.' article_processing_charge: Yes article_type: original author: - first_name: Li full_name: Gong, Li last_name: Gong - first_name: Shiling full_name: Zhao, Shiling last_name: Zhao - first_name: Jing full_name: Yu, Jing last_name: Yu - first_name: Junshan full_name: Li, Junshan last_name: Li - first_name: Jordi full_name: Arbiol, Jordi last_name: Arbiol - first_name: Tanja full_name: Kallio, Tanja last_name: Kallio - first_name: Mariano full_name: Calcabrini, Mariano id: 45D7531A-F248-11E8-B48F-1D18A9856A87 last_name: Calcabrini orcid: 0000-0003-4566-5877 - first_name: Paulina R. full_name: Martínez-Alanis, Paulina R. last_name: Martínez-Alanis - first_name: Maria full_name: Ibáñez, Maria id: 43C61214-F248-11E8-B48F-1D18A9856A87 last_name: Ibáñez orcid: 0000-0001-5013-2843 - first_name: Andreu full_name: Cabot, Andreu last_name: Cabot citation: ama: Gong L, Zhao S, Yu J, et al. Influence of the catalyst surface chemistry on the electrochemical self-coupling of biomass-derived benzaldehyde into hydrobenzoin. Energy Advances. 2024;3(9):2287-2294. doi:10.1039/d4ya00334a apa: Gong, L., Zhao, S., Yu, J., Li, J., Arbiol, J., Kallio, T., … Cabot, A. (2024). Influence of the catalyst surface chemistry on the electrochemical self-coupling of biomass-derived benzaldehyde into hydrobenzoin. Energy Advances. Royal Society of Chemistry. https://doi.org/10.1039/d4ya00334a chicago: Gong, Li, Shiling Zhao, Jing Yu, Junshan Li, Jordi Arbiol, Tanja Kallio, Mariano Calcabrini, Paulina R. Martínez-Alanis, Maria Ibáñez, and Andreu Cabot. “Influence of the Catalyst Surface Chemistry on the Electrochemical Self-Coupling of Biomass-Derived Benzaldehyde into Hydrobenzoin.” Energy Advances. Royal Society of Chemistry, 2024. https://doi.org/10.1039/d4ya00334a. ieee: L. Gong et al., “Influence of the catalyst surface chemistry on the electrochemical self-coupling of biomass-derived benzaldehyde into hydrobenzoin,” Energy Advances, vol. 3, no. 9. Royal Society of Chemistry, pp. 2287–2294, 2024. ista: Gong L, Zhao S, Yu J, Li J, Arbiol J, Kallio T, Calcabrini M, Martínez-Alanis PR, Ibáñez M, Cabot A. 2024. Influence of the catalyst surface chemistry on the electrochemical self-coupling of biomass-derived benzaldehyde into hydrobenzoin. Energy Advances. 3(9), 2287–2294. mla: Gong, Li, et al. “Influence of the Catalyst Surface Chemistry on the Electrochemical Self-Coupling of Biomass-Derived Benzaldehyde into Hydrobenzoin.” Energy Advances, vol. 3, no. 9, Royal Society of Chemistry, 2024, pp. 2287–94, doi:10.1039/d4ya00334a. short: L. Gong, S. Zhao, J. Yu, J. Li, J. Arbiol, T. Kallio, M. Calcabrini, P.R. Martínez-Alanis, M. Ibáñez, A. Cabot, Energy Advances 3 (2024) 2287–2294. date_created: 2024-08-11T22:01:12Z date_published: 2024-09-01T00:00:00Z date_updated: 2025-01-09T12:30:16Z day: '01' ddc: - '540' department: - _id: MaIb doi: 10.1039/d4ya00334a file: - access_level: open_access checksum: 4a49515ec90354d005852e741bff1d29 content_type: application/pdf creator: dernst date_created: 2025-01-09T12:29:09Z date_updated: 2025-01-09T12:29:09Z file_id: '18812' file_name: 2024_EnergyAdvances_Gong.pdf file_size: 1448762 relation: main_file success: 1 file_date_updated: 2025-01-09T12:29:09Z has_accepted_license: '1' intvolume: ' 3' issue: '9' language: - iso: eng license: https://creativecommons.org/licenses/by-nc/3.0/ month: '09' oa: 1 oa_version: Published Version page: 2287-2294 publication: Energy Advances publication_identifier: eissn: - 2753-1457 publication_status: published publisher: Royal Society of Chemistry quality_controlled: '1' scopus_import: '1' status: public title: Influence of the catalyst surface chemistry on the electrochemical self-coupling of biomass-derived benzaldehyde into hydrobenzoin tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/3.0/legalcode name: Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0) short: CC BY-NC (3.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 3 year: '2024' ... --- _id: '17413' abstract: - lang: eng text: Certification helps to increase trust in formal verification of safety-critical systems which require assurance on their correctness. In hardware model checking, a widely used formal verification technique, phase abstraction is considered one of the most commonly used preprocessing techniques. We present an approach to certify an extended form of phase abstraction using a generic certificate format. As in earlier works our approach involves constructing a witness circuit with an inductive invariant property that certifies the correctness of the entire model checking process, which is then validated by an independent certificate checker. We have implemented and evaluated the proposed approach including certification for various preprocessing configurations on hardware model checking competition benchmarks. As an improvement on previous work in this area, the proposed method is able to efficiently complete certification with an overhead of a fraction of model checking time. acknowledgement: This work is supported by the Austrian Science Fund (FWF) under the project W1255-N23, the LIT AI Lab funded by the State of Upper Austria, the ERC-2020-AdG 101020093, the Academy of Finland under the project 336092 and by a gift from Intel Corporation. alternative_title: - LNCS article_processing_charge: Yes (in subscription journal) arxiv: 1 author: - first_name: Nils full_name: Froleyks, Nils last_name: Froleyks - first_name: Zhengqi full_name: Yu, Zhengqi id: 20aa2ae8-f2f1-11ed-bbfa-8205053f1342 last_name: Yu - first_name: Armin full_name: Biere, Armin last_name: Biere - first_name: Keijo full_name: Heljanko, Keijo last_name: Heljanko citation: ama: 'Froleyks N, Yu E, Biere A, Heljanko K. Certifying phase abstraction. In: Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol 14739. Springer Nature; 2024:284-303. doi:10.1007/978-3-031-63498-7_17' apa: 'Froleyks, N., Yu, E., Biere, A., & Heljanko, K. (2024). Certifying phase abstraction. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 14739, pp. 284–303). Nancy, France: Springer Nature. https://doi.org/10.1007/978-3-031-63498-7_17' chicago: Froleyks, Nils, Emily Yu, Armin Biere, and Keijo Heljanko. “Certifying Phase Abstraction.” In Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 14739:284–303. Springer Nature, 2024. https://doi.org/10.1007/978-3-031-63498-7_17. ieee: N. Froleyks, E. Yu, A. Biere, and K. Heljanko, “Certifying phase abstraction,” in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Nancy, France, 2024, vol. 14739, pp. 284–303. ista: 'Froleyks N, Yu E, Biere A, Heljanko K. 2024. Certifying phase abstraction. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). IJCAR: International Joint Conference on Automated Reasoning, LNCS, vol. 14739, 284–303.' mla: Froleyks, Nils, et al. “Certifying Phase Abstraction.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 14739, Springer Nature, 2024, pp. 284–303, doi:10.1007/978-3-031-63498-7_17. short: N. Froleyks, E. Yu, A. Biere, K. Heljanko, in:, Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Springer Nature, 2024, pp. 284–303. conference: end_date: 2024-07-06 location: Nancy, France name: 'IJCAR: International Joint Conference on Automated Reasoning' start_date: 2024-07-03 date_created: 2024-08-11T22:01:13Z date_published: 2024-07-01T00:00:00Z date_updated: 2025-09-08T08:49:53Z day: '01' ddc: - '000' department: - _id: ToHe doi: 10.1007/978-3-031-63498-7_17 ec_funded: 1 external_id: arxiv: - '2405.04297' isi: - '001273489700017' file: - access_level: open_access checksum: 7d7839fc8c5c680ea3ac09f40a66e55d content_type: application/pdf creator: dernst date_created: 2024-08-12T06:53:39Z date_updated: 2024-08-12T06:53:39Z file_id: '17414' file_name: 2024_LNCS_Froleyks.pdf file_size: 556902 relation: main_file success: 1 file_date_updated: 2024-08-12T06:53:39Z has_accepted_license: '1' intvolume: ' 14739' isi: 1 language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 284-303 project: - _id: 62781420-2b32-11ec-9570-8d9b63373d4d call_identifier: H2020 grant_number: '101020093' name: Vigilant Algorithmic Monitoring of Software publication: Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) publication_identifier: eissn: - 1611-3349 isbn: - '9783031634970' issn: - 0302-9743 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Certifying phase abstraction tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: conference user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 14739 year: '2024' ... --- _id: '17423' abstract: - lang: eng text: We introduce an algorithm to reconstruct a mesh from discrete samples of a shape’s Signed Distance Function (SDF). A simple geometric reinterpretation of the SDF lets us formulate the problem through a point cloud, from which a surface can be extracted with existing techniques. We extract all possible information from the SDF data, outperforming commonly used algorithms and imposing no topological or geometric restrictions. article_number: '23' article_processing_charge: No author: - first_name: Silvia full_name: Sellán, Silvia last_name: Sellán - first_name: Yingying full_name: Ren, Yingying id: 93d68d10-3540-11ef-a265-f748a50dba3d last_name: Ren - first_name: Christopher full_name: Batty, Christopher last_name: Batty - first_name: Oded full_name: Stein, Oded last_name: Stein citation: ama: 'Sellán S, Ren Y, Batty C, Stein O. Reach for the arcs: Reconstructing surfaces from SDFs via tangent points. In: SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference. Association for Computing Machinery; 2024. doi:10.1145/3641519.3657419' apa: 'Sellán, S., Ren, Y., Batty, C., & Stein, O. (2024). Reach for the arcs: Reconstructing surfaces from SDFs via tangent points. In SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference. Denver, CO, United States: Association for Computing Machinery. https://doi.org/10.1145/3641519.3657419' chicago: 'Sellán, Silvia, Yingying Ren, Christopher Batty, and Oded Stein. “Reach for the Arcs: Reconstructing Surfaces from SDFs via Tangent Points.” In SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference. Association for Computing Machinery, 2024. https://doi.org/10.1145/3641519.3657419.' ieee: 'S. Sellán, Y. Ren, C. Batty, and O. Stein, “Reach for the arcs: Reconstructing surfaces from SDFs via tangent points,” in SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference, Denver, CO, United States, 2024.' ista: 'Sellán S, Ren Y, Batty C, Stein O. 2024. Reach for the arcs: Reconstructing surfaces from SDFs via tangent points. SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference. SIGGRAPH: Computer Graphics and Interactive Techniques Conference, 23.' mla: 'Sellán, Silvia, et al. “Reach for the Arcs: Reconstructing Surfaces from SDFs via Tangent Points.” SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference, 23, Association for Computing Machinery, 2024, doi:10.1145/3641519.3657419.' short: 'S. Sellán, Y. Ren, C. Batty, O. Stein, in:, SIGGRAPH ’24: Special Interest Group on Computer Graphics and Interactive Techniques Conference, Association for Computing Machinery, 2024.' conference: end_date: 2024-08-01 location: Denver, CO, United States name: 'SIGGRAPH: Computer Graphics and Interactive Techniques Conference' start_date: 2024-07-27 date_created: 2024-08-12T10:02:58Z date_published: 2024-07-13T00:00:00Z date_updated: 2024-08-12T10:11:19Z day: '13' doi: 10.1145/3641519.3657419 extern: '1' language: - iso: eng month: '07' oa_version: None publication: 'SIGGRAPH ''24: Special Interest Group on Computer Graphics and Interactive Techniques Conference' publication_identifier: isbn: - '9798400705250' publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: 'Reach for the arcs: Reconstructing surfaces from SDFs via tangent points' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2024' ... --- _id: '17424' abstract: - lang: eng text: "Surface-based inflatables are composed of two thin layers of nearly inextensible sheet material joined together along carefully selected fusing curves. During inflation, pressure forces separate the two sheets to maximize the enclosed volume. The fusing curves restrict this expansion, leading to a spatially varying in-plane contraction and hence metric frustration. The inflated structure settles into a 3D equilibrium that balances pressure forces with the internal elastic forces of the sheets.\r\nWe present a computational framework for analyzing and designing surface-based inflatable structures with arbitrary fusing patterns. Our approach employs numerical homogenization to characterize the behavior of parametric families of periodic inflatable patch geometries, which can then be combined to tessellate the sheet with smoothly varying patterns. We propose a novel parametrization of the underlying deformation space that allows accurate, efficient, and systematical analysis of the stretching and bending behavior of inflated patches with potentially open boundaries.\r\nWe apply our homogenization algorithm to create a database of geometrically diverse fusing patterns spanning a wide range of material properties and deformation characteristics. This database is employed in an inverse design algorithm that solves for fusing curves to best approximate a given input target surface. Local patches are selected and blended to form a global network of curves based on a geometric flattening algorithm. These fusing curves are then further optimized to minimize the distance of the deployed structure to target surface. We show that this approach offers greater flexibility to approximate given target geometries compared to previous work while significantly improving structural performance." article_number: '87' article_processing_charge: No article_type: original author: - first_name: Yingying full_name: Ren, Yingying id: 93d68d10-3540-11ef-a265-f748a50dba3d last_name: Ren - first_name: Julian full_name: Panetta, Julian last_name: Panetta - first_name: Seiichi full_name: Suzuki, Seiichi last_name: Suzuki - first_name: Uday full_name: Kusupati, Uday last_name: Kusupati - first_name: Florin full_name: Isvoranu, Florin last_name: Isvoranu - first_name: Mark full_name: Pauly, Mark last_name: Pauly citation: ama: Ren Y, Panetta J, Suzuki S, Kusupati U, Isvoranu F, Pauly M. Computational homogenization for inverse design of surface-based inflatables. ACM Transactions on Graphics. 2024;43(4). doi:10.1145/3658125 apa: Ren, Y., Panetta, J., Suzuki, S., Kusupati, U., Isvoranu, F., & Pauly, M. (2024). Computational homogenization for inverse design of surface-based inflatables. ACM Transactions on Graphics. Association for Computing Machinery. https://doi.org/10.1145/3658125 chicago: Ren, Yingying, Julian Panetta, Seiichi Suzuki, Uday Kusupati, Florin Isvoranu, and Mark Pauly. “Computational Homogenization for Inverse Design of Surface-Based Inflatables.” ACM Transactions on Graphics. Association for Computing Machinery, 2024. https://doi.org/10.1145/3658125. ieee: Y. Ren, J. Panetta, S. Suzuki, U. Kusupati, F. Isvoranu, and M. Pauly, “Computational homogenization for inverse design of surface-based inflatables,” ACM Transactions on Graphics, vol. 43, no. 4. Association for Computing Machinery, 2024. ista: Ren Y, Panetta J, Suzuki S, Kusupati U, Isvoranu F, Pauly M. 2024. Computational homogenization for inverse design of surface-based inflatables. ACM Transactions on Graphics. 43(4), 87. mla: Ren, Yingying, et al. “Computational Homogenization for Inverse Design of Surface-Based Inflatables.” ACM Transactions on Graphics, vol. 43, no. 4, 87, Association for Computing Machinery, 2024, doi:10.1145/3658125. short: Y. Ren, J. Panetta, S. Suzuki, U. Kusupati, F. Isvoranu, M. Pauly, ACM Transactions on Graphics 43 (2024). date_created: 2024-08-12T10:03:38Z date_published: 2024-07-19T00:00:00Z date_updated: 2024-08-12T10:08:13Z day: '19' doi: 10.1145/3658125 extern: '1' intvolume: ' 43' issue: '4' language: - iso: eng month: '07' oa_version: None publication: ACM Transactions on Graphics publication_identifier: eissn: - 1557-7368 issn: - 0730-0301 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: Computational homogenization for inverse design of surface-based inflatables type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 43 year: '2024' ... --- _id: '17435' abstract: - lang: eng text: 'The Mediterranean region is experiencing pronounced aridification and in certain areas higher occurrence of intense precipitation. In this work, we analyze the evolution of the precipitation probability distribution in terms of precipitating days (or “wet-days”) and all-days quantile trends, in Europe and the Mediterranean, using the ERA5 reanalysis. Looking at the form of wet-days quantile trends curves, we identify four regimes. Two are predominant: in most of northern Europe the precipitation quantiles all intensify, while in the Mediterranean the low-medium quantiles are mostly decreasing as extremes intensify or decrease. The wet-days distribution is then modeled by a Weibull law with two parameters, whose changes capture the four regimes. Assessing the significance of the parameters'' changes over 1950–2020 shows that a signal on wet-days distribution has already emerged in northern Europe (where the distribution shifts to more intense precipitation), but not yet in the Mediterranean, where the natural variability is stronger. We extend the results by describing the all-days distribution change as the wet-days’ change plus a contribution from the dry-days frequency change, and study their relative contribution. In northern Europe, the wet-days distribution change is the dominant driver, and the contribution of dry-days frequency change can be neglected for wet-days percentiles above about 50%. In the Mediterranean, however, the change of precipitation distribution comes from the significant increase of dry-days frequency instead of an intensity change during wet-days. Therefore, in the Mediterranean the increase of dry-days frequency is crucial for all-days trends, even for heavy precipitation.' acknowledgement: CJM gratefully acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, Grant Agreement No 805041). The authors also thank Samuel Somot (Centre National de Recherches Météorologiques, Toulouse) and Juliette Blanchet (Institut des Géosciences de l’Environnement, Grenoble) for their fruitful discussions on the project. article_number: e2023JD040413 article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Julie full_name: André, Julie last_name: André - first_name: Fabio full_name: D'Andrea, Fabio last_name: D'Andrea - first_name: Philippe full_name: Drobinski, Philippe last_name: Drobinski - first_name: Caroline J full_name: Muller, Caroline J id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b last_name: Muller orcid: 0000-0001-5836-5350 citation: ama: 'André J, D’Andrea F, Drobinski P, Muller CJ. Regimes of precipitation change over Europe and the Mediterranean. Journal of Geophysical Research: Atmospheres. 2024;129(15). doi:10.1029/2023JD040413' apa: 'André, J., D’Andrea, F., Drobinski, P., & Muller, C. J. (2024). Regimes of precipitation change over Europe and the Mediterranean. Journal of Geophysical Research: Atmospheres. Wiley. https://doi.org/10.1029/2023JD040413' chicago: 'André, Julie, Fabio D’Andrea, Philippe Drobinski, and Caroline J Muller. “Regimes of Precipitation Change over Europe and the Mediterranean.” Journal of Geophysical Research: Atmospheres. Wiley, 2024. https://doi.org/10.1029/2023JD040413.' ieee: 'J. André, F. D’Andrea, P. Drobinski, and C. J. Muller, “Regimes of precipitation change over Europe and the Mediterranean,” Journal of Geophysical Research: Atmospheres, vol. 129, no. 15. Wiley, 2024.' ista: 'André J, D’Andrea F, Drobinski P, Muller CJ. 2024. Regimes of precipitation change over Europe and the Mediterranean. Journal of Geophysical Research: Atmospheres. 129(15), e2023JD040413.' mla: 'André, Julie, et al. “Regimes of Precipitation Change over Europe and the Mediterranean.” Journal of Geophysical Research: Atmospheres, vol. 129, no. 15, e2023JD040413, Wiley, 2024, doi:10.1029/2023JD040413.' short: 'J. André, F. D’Andrea, P. Drobinski, C.J. Muller, Journal of Geophysical Research: Atmospheres 129 (2024).' date_created: 2024-08-18T22:01:04Z date_published: 2024-08-16T00:00:00Z date_updated: 2025-09-08T08:56:53Z day: '16' ddc: - '550' department: - _id: CaMu doi: 10.1029/2023JD040413 ec_funded: 1 external_id: isi: - '001285897600001' file: - access_level: open_access checksum: 71d7f966318e11ce474737f4e37405ef content_type: application/pdf creator: dernst date_created: 2024-08-19T06:32:21Z date_updated: 2024-08-19T06:32:21Z file_id: '17438' file_name: 2024_JGRAtmospheres_Andre.pdf file_size: 8126046 relation: main_file success: 1 file_date_updated: 2024-08-19T06:32:21Z has_accepted_license: '1' intvolume: ' 129' isi: 1 issue: '15' language: - iso: eng month: '08' oa: 1 oa_version: Published Version project: - _id: 629205d8-2b32-11ec-9570-e1356ff73576 call_identifier: H2020 grant_number: '805041' name: Organization of CLoUdS, and implications of Tropical cyclones and for the Energetics of the tropics, in current and waRming climate publication: 'Journal of Geophysical Research: Atmospheres' publication_identifier: eissn: - 2169-8996 issn: - 2169-897X publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Regimes of precipitation change over Europe and the Mediterranean tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 129 year: '2024' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '17436' abstract: - lang: eng text: The auxin signaling molecule controls a variety of growth and developmental processes in land plants. Auxin regulates gene expression through a nuclear auxin signaling pathway (NAP) consisting of the ubiquitin ligase auxin receptor TIR1/AFB, its Aux/IAA degradation substrate, and DNA-binding ARF transcription factors. Although extensive qualitative understanding of the pathway and its interactions has been obtained, mostly by studying the flowering plant Arabidopsis thaliana, it remains unknown how these translate to quantitative system behavior in vivo, a problem that is confounded by the large NAP gene families in most species. Here, we used the minimal NAP of the liverwort Marchantia polymorpha to quantitatively map NAP protein accumulation and dynamics in vivo through the use of knockin fluorescent fusion proteins. Beyond revealing the dynamic native accumulation profile of the entire NAP protein network, we discovered that the two central ARFs, MpARF1 and MpARF2, are proteasomally degraded. This auxin-independent degradation tunes ARF protein stoichiometry to favor gene activation, thereby reprogramming auxin response during the developmental progression. Thus, quantitative analysis of the entire NAP has enabled us to identify ARF degradation and the stoichiometries of activator and repressor ARFs as a potential mechanism for controlling gemma germination. acknowledgement: "We are grateful to Iris Nieuwland and Neri van Laar for experimental support. No conflict of interest declared.\r\nThis work was supported by the Netherlands Organisation for Scientific Research, the Netherlands (grants ALWOP.402 and OCENW.M20.031 to J.W.B.) and the Human Frontiers Research Program (grant RGP0015/2022 to D.W.)." article_number: '101039' article_processing_charge: Yes article_type: original author: - first_name: Shubhajit full_name: Das, Shubhajit id: b08969a4-f2a5-11ed-b6c4-ff0f10b7d0be last_name: Das - first_name: Martijn full_name: De Roij, Martijn last_name: De Roij - first_name: Simon full_name: Bellows, Simon last_name: Bellows - first_name: Melissa Dipp full_name: Alvarez, Melissa Dipp last_name: Alvarez - first_name: Sumanth full_name: Mutte, Sumanth last_name: Mutte - first_name: Wouter full_name: Kohlen, Wouter last_name: Kohlen - first_name: Etienne full_name: Farcot, Etienne last_name: Farcot - first_name: Dolf full_name: Weijers, Dolf last_name: Weijers - first_name: Jan Willem full_name: Borst, Jan Willem last_name: Borst citation: ama: Das S, De Roij M, Bellows S, et al. Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination. Plant Communications. 2024;5(11). doi:10.1016/j.xplc.2024.101039 apa: Das, S., De Roij, M., Bellows, S., Alvarez, M. D., Mutte, S., Kohlen, W., … Borst, J. W. (2024). Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination. Plant Communications. Elsevier. https://doi.org/10.1016/j.xplc.2024.101039 chicago: Das, Shubhajit, Martijn De Roij, Simon Bellows, Melissa Dipp Alvarez, Sumanth Mutte, Wouter Kohlen, Etienne Farcot, Dolf Weijers, and Jan Willem Borst. “Quantitative Imaging Reveals the Role of MpARF Proteasomal Degradation during Gemma Germination.” Plant Communications. Elsevier, 2024. https://doi.org/10.1016/j.xplc.2024.101039. ieee: S. Das et al., “Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination,” Plant Communications, vol. 5, no. 11. Elsevier, 2024. ista: Das S, De Roij M, Bellows S, Alvarez MD, Mutte S, Kohlen W, Farcot E, Weijers D, Borst JW. 2024. Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination. Plant Communications. 5(11), 101039. mla: Das, Shubhajit, et al. “Quantitative Imaging Reveals the Role of MpARF Proteasomal Degradation during Gemma Germination.” Plant Communications, vol. 5, no. 11, 101039, Elsevier, 2024, doi:10.1016/j.xplc.2024.101039. short: S. Das, M. De Roij, S. Bellows, M.D. Alvarez, S. Mutte, W. Kohlen, E. Farcot, D. Weijers, J.W. Borst, Plant Communications 5 (2024). date_created: 2024-08-18T22:01:04Z date_published: 2024-11-11T00:00:00Z date_updated: 2025-01-09T12:26:55Z day: '11' ddc: - '580' department: - _id: JiFr doi: 10.1016/j.xplc.2024.101039 external_id: pmid: - '38988072' file: - access_level: open_access checksum: 38cabc1042ac7fb70e6c4c510eba88fc content_type: application/pdf creator: dernst date_created: 2025-01-09T12:25:32Z date_updated: 2025-01-09T12:25:32Z file_id: '18811' file_name: 2024_PlantCommunications_Das.pdf file_size: 4970540 relation: main_file success: 1 file_date_updated: 2025-01-09T12:25:32Z has_accepted_license: '1' intvolume: ' 5' issue: '11' language: - iso: eng month: '11' oa: 1 oa_version: Published Version pmid: 1 publication: Plant Communications publication_identifier: eissn: - 2590-3462 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Quantitative imaging reveals the role of MpARF proteasomal degradation during gemma germination tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2024' ... --- _id: '17437' abstract: - lang: eng text: We prove that the zero-fiber of the moment map of a totally negative quiver has rational singularities. Our proof consists in generalizing dimension bounds on jet spaces of this fiber, which were introduced by Budur. We also transfer the rational singularities property to other moduli spaces of objects in 2-Calabi-Yau categories, based on recent work of Davison. This has interesting arithmetic applications on quiver moment maps and moduli spaces of objects in 2-Calabi-Yau categories. First, we generalize results of Wyss on the asymptotic behaviour of counts of jets of quiver moment maps over finite fields. Moreover, we interpret the limit of counts of jets on a given moduli space as its p-adic volume under a canonical measure analogous to the measure built by Carocci, Orecchia and Wyss on certain moduli spaces of coherent sheaves. acknowledgement: "I would like to warmly thank Dimitri Wyss for his guidance and supervision and Nero Budur for helpful discussions and answering all my questions on his previous works. I would also like to thank Francesca Carocci, Ben Davison, Lucien Hennecart and Olivier Schiffmann for helpful remarks and discussions during the writing of this paper. Finally, I would like to thank the anonymous referees for their careful reading and suggesting improvements in the exposition.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria). This work was supported by the Swiss National Science Foundation [No. 196960]. This project has also received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413." article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Tanguy full_name: Vernet, Tanguy id: 19f1e3bf-c59a-11ee-a1af-ed269948817b last_name: Vernet citation: ama: Vernet T. Rational singularities for moment maps of totally negative quivers. Transformation Groups. 2024. doi:10.1007/s00031-024-09873-0 apa: Vernet, T. (2024). Rational singularities for moment maps of totally negative quivers. Transformation Groups. Springer Nature. https://doi.org/10.1007/s00031-024-09873-0 chicago: Vernet, Tanguy. “Rational Singularities for Moment Maps of Totally Negative Quivers.” Transformation Groups. Springer Nature, 2024. https://doi.org/10.1007/s00031-024-09873-0. ieee: T. Vernet, “Rational singularities for moment maps of totally negative quivers,” Transformation Groups. Springer Nature, 2024. ista: Vernet T. 2024. Rational singularities for moment maps of totally negative quivers. Transformation Groups. mla: Vernet, Tanguy. “Rational Singularities for Moment Maps of Totally Negative Quivers.” Transformation Groups, Springer Nature, 2024, doi:10.1007/s00031-024-09873-0. short: T. Vernet, Transformation Groups (2024). corr_author: '1' date_created: 2024-08-18T22:01:04Z date_published: 2024-09-09T00:00:00Z date_updated: 2025-09-08T08:56:08Z day: '09' ddc: - '510' department: - _id: TaHa doi: 10.1007/s00031-024-09873-0 ec_funded: 1 external_id: isi: - '001287455300001' has_accepted_license: '1' isi: 1 language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1007/s00031-024-09873-0 month: '09' oa: 1 oa_version: Published Version project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Transformation Groups publication_identifier: eissn: - 1531-586X issn: - 1083-4362 publication_status: epub_ahead publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Rational singularities for moment maps of totally negative quivers tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 year: '2024' ... --- OA_place: repository OA_type: green _id: '17442' abstract: - lang: eng text: "Although eukaryotic Argonautes have a pivotal role in post-transcriptional gene regulation through nucleic acid cleavage, some short prokaryotic Argonaute variants (pAgos) rely on auxiliary nuclease factors for efficient foreign DNA degradation1. Here we reveal the activation pathway of the DNA defence module DdmDE system, which rapidly eliminates small, multicopy plasmids from the Vibrio cholerae seventh pandemic strain (7PET)2. Through a combination of cryo-electron microscopy, biochemistry and in vivo plasmid clearance assays, we demonstrate that DdmE is a catalytically inactive, DNA-guided, DNA-targeting pAgo with a distinctive insertion domain. We observe that the helicase-nuclease DdmD transitions from an autoinhibited, dimeric complex to a monomeric state upon loading of single-stranded DNA targets. Furthermore, the complete structure of the DdmDE–guide–target handover complex provides a comprehensive view into how DNA recognition triggers processive plasmid destruction. Our work establishes a mechanistic foundation for how pAgos utilize ancillary factors to achieve plasmid clearance, and provides insights into anti-plasmid immunity in bacteria.\r\n\r\n" acknowledgement: We thank K. Kiernan, G. Hibshman and I. Strohkendl for insightful discussions and comments on the manuscript, and R. Lin for assistance with the ATPase assay. Data were collected at the Sauer Structural Biology Laboratory at the University of Texas at Austin. This work was supported in part by the National Institute of General Medical Sciences (NIGMS) of the National Institutes of Health (NIH) R35GM138348 (to D.W.T.) and Welch Foundation research grant F-1938 (to D.W.T.). article_processing_charge: No article_type: original author: - first_name: Jack Peter Kelly full_name: Bravo, Jack Peter Kelly id: 96aecfa5-8931-11ee-af30-aa6a5d6eee0e last_name: Bravo orcid: 0000-0003-0456-0753 - first_name: Delisa A. full_name: Ramos, Delisa A. last_name: Ramos - first_name: Rodrigo full_name: Fregoso Ocampo, Rodrigo last_name: Fregoso Ocampo - first_name: Caiden full_name: Ingram, Caiden last_name: Ingram - first_name: David W. full_name: Taylor, David W. last_name: Taylor citation: ama: Bravo JPK, Ramos DA, Fregoso Ocampo R, Ingram C, Taylor DW. Plasmid targeting and destruction by the DdmDE bacterial defence system. Nature. 2024;630(8018):961-967. doi:10.1038/s41586-024-07515-9 apa: Bravo, J. P. K., Ramos, D. A., Fregoso Ocampo, R., Ingram, C., & Taylor, D. W. (2024). Plasmid targeting and destruction by the DdmDE bacterial defence system. Nature. Springer Nature. https://doi.org/10.1038/s41586-024-07515-9 chicago: Bravo, Jack Peter Kelly, Delisa A. Ramos, Rodrigo Fregoso Ocampo, Caiden Ingram, and David W. Taylor. “Plasmid Targeting and Destruction by the DdmDE Bacterial Defence System.” Nature. Springer Nature, 2024. https://doi.org/10.1038/s41586-024-07515-9. ieee: J. P. K. Bravo, D. A. Ramos, R. Fregoso Ocampo, C. Ingram, and D. W. Taylor, “Plasmid targeting and destruction by the DdmDE bacterial defence system,” Nature, vol. 630, no. 8018. Springer Nature, pp. 961–967, 2024. ista: Bravo JPK, Ramos DA, Fregoso Ocampo R, Ingram C, Taylor DW. 2024. Plasmid targeting and destruction by the DdmDE bacterial defence system. Nature. 630(8018), 961–967. mla: Bravo, Jack Peter Kelly, et al. “Plasmid Targeting and Destruction by the DdmDE Bacterial Defence System.” Nature, vol. 630, no. 8018, Springer Nature, 2024, pp. 961–67, doi:10.1038/s41586-024-07515-9. short: J.P.K. Bravo, D.A. Ramos, R. Fregoso Ocampo, C. Ingram, D.W. Taylor, Nature 630 (2024) 961–967. corr_author: '1' date_created: 2024-08-19T09:41:18Z date_published: 2024-06-27T00:00:00Z date_updated: 2025-06-24T12:47:21Z day: '27' department: - _id: JaBr doi: 10.1038/s41586-024-07515-9 external_id: pmid: - '38740055' intvolume: ' 630' issue: '8018' language: - iso: eng main_file_link: - open_access: '1' url: https://pmc.ncbi.nlm.nih.gov/articles/PMC11649018/ month: '06' oa: 1 oa_version: Submitted Version page: 961-967 pmid: 1 publication: Nature publication_identifier: eissn: - 1476-4687 issn: - 0028-0836 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Plasmid targeting and destruction by the DdmDE bacterial defence system type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 630 year: '2024' ... --- _id: '17447' abstract: - lang: eng text: Let F be a diagonal cubic form over Z in six variables. From the dual variety in the delta method of Duke–Friedlander–Iwaniec and Heath‐Brown, we unconditionally extract a weighted count of certain special integral zeros of F in regions of diameter X - 8 . Heath‐Brown did the same in four variables, but our analysis differs and captures some novel features. We also put forth an axiomatic framework for more general F. acknowledgement: This paper is an important component of the thesis work described in [25]; many of my acknowledgements there apply here as well. I also thank my advisor, Peter Sarnak, for many helpful suggestions and questions on the exposition, references, assumptions, and scope of (various drafts of) the present work. I am also grateful to Trevor Wooley for providing some helpful general comments on special subvarieties and the reference [24]. I thank Tim Browning for inspiring part of the current title of the paper. Finally, thanks are due to the referee for providing many helpful suggestions. This work was partially supported by NSF grant DMS-1802211, and the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant AgreementNo. 101034413. article_number: e12975 article_processing_charge: Yes (via OA deal) article_type: original arxiv: 1 author: - first_name: Victor full_name: Wang, Victor id: 76096395-aea4-11ed-a680-ab8ebbd3f1b9 last_name: Wang orcid: 0000-0002-0704-7026 citation: ama: Wang V. Special cubic zeros and the dual variety. Journal of the London Mathematical Society. 2024;110(3). doi:10.1112/jlms.12975 apa: Wang, V. (2024). Special cubic zeros and the dual variety. Journal of the London Mathematical Society. Wiley. https://doi.org/10.1112/jlms.12975 chicago: Wang, Victor. “Special Cubic Zeros and the Dual Variety.” Journal of the London Mathematical Society. Wiley, 2024. https://doi.org/10.1112/jlms.12975. ieee: V. Wang, “Special cubic zeros and the dual variety,” Journal of the London Mathematical Society, vol. 110, no. 3. Wiley, 2024. ista: Wang V. 2024. Special cubic zeros and the dual variety. Journal of the London Mathematical Society. 110(3), e12975. mla: Wang, Victor. “Special Cubic Zeros and the Dual Variety.” Journal of the London Mathematical Society, vol. 110, no. 3, e12975, Wiley, 2024, doi:10.1112/jlms.12975. short: V. Wang, Journal of the London Mathematical Society 110 (2024). corr_author: '1' date_created: 2024-08-20T08:41:40Z date_published: 2024-08-14T00:00:00Z date_updated: 2025-09-08T08:58:20Z day: '14' ddc: - '512' department: - _id: TiBr doi: 10.1112/jlms.12975 ec_funded: 1 external_id: arxiv: - '2108.03396' isi: - '001310529600001' file: - access_level: open_access checksum: 90437e19f57520b4d66ca62408f6c81e content_type: application/pdf creator: dernst date_created: 2024-08-21T06:36:40Z date_updated: 2024-08-21T06:36:40Z file_id: '17454' file_name: 2024_JourLondonMathSoc_Wang.pdf file_size: 438751 relation: main_file success: 1 file_date_updated: 2024-08-21T06:36:40Z has_accepted_license: '1' intvolume: ' 110' isi: 1 issue: '3' language: - iso: eng month: '08' oa: 1 oa_version: Published Version project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Journal of the London Mathematical Society publication_identifier: eissn: - 1469-7750 issn: - 0024-6107 publication_status: published publisher: Wiley quality_controlled: '1' scopus_import: '1' status: public title: Special cubic zeros and the dual variety tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 110 year: '2024' ... --- _id: '17449' abstract: - lang: eng text: We prove that the $k$-th positive integer moment of partial sums of Steinhaus random multiplicative functions over the interval $(x, x+H]$ matches the corresponding Gaussian moment, as long as $H\ll x/(\log x)^{2k^2+2+o(1)}$ and $H$ tends to infinity with $x$. We show that properly normalized partial sums of typical multiplicative functions arising from realizations of random multiplicative functions have Gaussian limiting distribution in short moving intervals $(x, x+H]$ with $H\ll X/(\log X)^{W(X)}$ tending to infinity with $X$, where $x$ is uniformly chosen from $\{1,2,\dots, X\}$, and $W(X)$ tends to infinity with $X$ arbitrarily slowly. This makes some initial progress on a recent question of Harper. acknowledgement: "We thank Andrew Granville and the anonymous referee for many detailed comments that led us to significantly improve the results and presentation of our work. We thank and Adam Harper for helpful discussions and useful comments and corrections on earlier versions. We also thank Yuqiu Fu, Larry Guth, Kannan Soundararajan, Katharine Woo, and Liyang Yang for helpful discussions. Finally, we thank Peter Sarnak for introducing us (the authors) to each other during the “50 Years of Number Theory and Random Matrix Theory” Conference at IAS and making the collaboration possible. \r\nOpen Access made possible by participating institutions via Subscribe to Open." article_processing_charge: Yes (via OA deal) article_type: original arxiv: 1 author: - first_name: Mayank full_name: Pandey, Mayank last_name: Pandey - first_name: Victor full_name: Wang, Victor id: 76096395-aea4-11ed-a680-ab8ebbd3f1b9 last_name: Wang orcid: 0000-0002-0704-7026 - first_name: Max Wenqiang full_name: Xu, Max Wenqiang last_name: Xu citation: ama: Pandey M, Wang V, Xu MW. Partial sums of typical multiplicative functions over short moving intervals. Algebra & Number Theory. 2024;18(2):389-408. doi:10.2140/ant.2024.18.389 apa: Pandey, M., Wang, V., & Xu, M. W. (2024). Partial sums of typical multiplicative functions over short moving intervals. Algebra & Number Theory. Mathematical Sciences Publishers. https://doi.org/10.2140/ant.2024.18.389 chicago: Pandey, Mayank, Victor Wang, and Max Wenqiang Xu. “Partial Sums of Typical Multiplicative Functions over Short Moving Intervals.” Algebra & Number Theory. Mathematical Sciences Publishers, 2024. https://doi.org/10.2140/ant.2024.18.389. ieee: M. Pandey, V. Wang, and M. W. Xu, “Partial sums of typical multiplicative functions over short moving intervals,” Algebra & Number Theory, vol. 18, no. 2. Mathematical Sciences Publishers, pp. 389–408, 2024. ista: Pandey M, Wang V, Xu MW. 2024. Partial sums of typical multiplicative functions over short moving intervals. Algebra & Number Theory. 18(2), 389–408. mla: Pandey, Mayank, et al. “Partial Sums of Typical Multiplicative Functions over Short Moving Intervals.” Algebra & Number Theory, vol. 18, no. 2, Mathematical Sciences Publishers, 2024, pp. 389–408, doi:10.2140/ant.2024.18.389. short: M. Pandey, V. Wang, M.W. Xu, Algebra & Number Theory 18 (2024) 389–408. date_created: 2024-08-20T08:48:26Z date_published: 2024-02-06T00:00:00Z date_updated: 2024-08-21T06:58:43Z day: '06' ddc: - '510' doi: 10.2140/ant.2024.18.389 extern: '1' external_id: arxiv: - '2207.11758' file: - access_level: open_access checksum: 1e3467a14de754bf8d3bff03a015e1ce content_type: application/pdf creator: dernst date_created: 2024-08-21T06:46:56Z date_updated: 2024-08-21T06:46:56Z file_id: '17455' file_name: 2024_AlgebraNumberTheory_Pandey.pdf file_size: 1401725 relation: main_file success: 1 file_date_updated: 2024-08-21T06:46:56Z has_accepted_license: '1' intvolume: ' 18' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.48550/arXiv.2207.11758 month: '02' oa: 1 oa_version: Published Version page: 389-408 publication: Algebra & Number Theory publication_identifier: eissn: - 1944-7833 issn: - 1937-0652 publication_status: published publisher: Mathematical Sciences Publishers quality_controlled: '1' scopus_import: '1' status: public title: Partial sums of typical multiplicative functions over short moving intervals tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 18 year: '2024' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '17457' abstract: - lang: eng text: "Autoantibodies against the protein leucine-rich glioma inactivated 1 (LGI1) cause the most\r\ncommon subtype of autoimmune encephalitis with predominant involvement of the limbic\r\nsystem, associated with seizures and memory deficits. LGI1 and its receptor ADAM22 are part\r\nof a transsynaptic protein complex that includes several proteins involved in presynaptic\r\nneurotransmitter release and postsynaptic glutamate sensing. Autoantibodies against LGI1\r\nincrease excitatory synaptic strength, but studies that genetically disrupt the LGI1-ADAM22\r\ncomplex report a reduction in postsynaptic glutamate receptor-mediated responses. Thus, the\r\nmechanisms underlying the increased synaptic strength induced by LGI1 autoantibodies remain elusive, and the contributions of presynaptic molecules to the LGI1-transsynaptic complex remain unclear. We therefore investigated the presynaptic mechanisms that mediate\r\nautoantibody-induced synaptic strengthening." acknowledged_ssus: - _id: Bio - _id: EM-Fac acknowledgement: 'The authors thank Claudia Sommer for expert technical assistance, the Electron Microscopy Facility of IST-Austria for resources, and Tereza Belinova in the Imaging and Optics Facility of IST-Austria for 3D reconstruction. ' article_processing_charge: Yes article_type: original author: - first_name: Andreas full_name: Ritzau-Jost, Andreas last_name: Ritzau-Jost - first_name: Felix full_name: Gsell, Felix last_name: Gsell - first_name: Josefine full_name: Sell, Josefine last_name: Sell - first_name: Stefan full_name: Sachs, Stefan last_name: Sachs - first_name: Jacqueline-Claire full_name: Montanaro-Punzengruber, Jacqueline-Claire id: 3786AB44-F248-11E8-B48F-1D18A9856A87 last_name: Montanaro-Punzengruber - first_name: Toni full_name: Kirmann, Toni last_name: Kirmann - first_name: Sebastian full_name: Maaß, Sebastian last_name: Maaß - first_name: Sarosh R. full_name: Irani, Sarosh R. last_name: Irani - first_name: Christian full_name: Werner, Christian last_name: Werner - first_name: Christian full_name: Geis, Christian last_name: Geis - first_name: Markus full_name: Sauer, Markus last_name: Sauer - first_name: Ryuichi full_name: Shigemoto, Ryuichi id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Stefan full_name: Hallermann, Stefan last_name: Hallermann citation: ama: Ritzau-Jost A, Gsell F, Sell J, et al. LGI1 autoantibodies enhance synaptic transmission by presynaptic Kv1 loss and increased action potential broadening. Neurology, Neuroimmunology and Neuroinflammation. 2024;11(5):e200284. doi:10.1212/NXI.0000000000200284 apa: Ritzau-Jost, A., Gsell, F., Sell, J., Sachs, S., Montanaro-Punzengruber, J.-C., Kirmann, T., … Hallermann, S. (2024). LGI1 autoantibodies enhance synaptic transmission by presynaptic Kv1 loss and increased action potential broadening. Neurology, Neuroimmunology and Neuroinflammation. Wolters Kluwer. https://doi.org/10.1212/NXI.0000000000200284 chicago: Ritzau-Jost, Andreas, Felix Gsell, Josefine Sell, Stefan Sachs, Jacqueline-Claire Montanaro-Punzengruber, Toni Kirmann, Sebastian Maaß, et al. “LGI1 Autoantibodies Enhance Synaptic Transmission by Presynaptic Kv1 Loss and Increased Action Potential Broadening.” Neurology, Neuroimmunology and Neuroinflammation. Wolters Kluwer, 2024. https://doi.org/10.1212/NXI.0000000000200284. ieee: A. Ritzau-Jost et al., “LGI1 autoantibodies enhance synaptic transmission by presynaptic Kv1 loss and increased action potential broadening,” Neurology, Neuroimmunology and Neuroinflammation, vol. 11, no. 5. Wolters Kluwer, p. e200284, 2024. ista: Ritzau-Jost A, Gsell F, Sell J, Sachs S, Montanaro-Punzengruber J-C, Kirmann T, Maaß S, Irani SR, Werner C, Geis C, Sauer M, Shigemoto R, Hallermann S. 2024. LGI1 autoantibodies enhance synaptic transmission by presynaptic Kv1 loss and increased action potential broadening. Neurology, Neuroimmunology and Neuroinflammation. 11(5), e200284. mla: Ritzau-Jost, Andreas, et al. “LGI1 Autoantibodies Enhance Synaptic Transmission by Presynaptic Kv1 Loss and Increased Action Potential Broadening.” Neurology, Neuroimmunology and Neuroinflammation, vol. 11, no. 5, Wolters Kluwer, 2024, p. e200284, doi:10.1212/NXI.0000000000200284. short: A. Ritzau-Jost, F. Gsell, J. Sell, S. Sachs, J.-C. Montanaro-Punzengruber, T. Kirmann, S. Maaß, S.R. Irani, C. Werner, C. Geis, M. Sauer, R. Shigemoto, S. Hallermann, Neurology, Neuroimmunology and Neuroinflammation 11 (2024) e200284. date_created: 2024-08-25T22:01:07Z date_published: 2024-09-01T00:00:00Z date_updated: 2025-09-08T08:59:37Z day: '01' ddc: - '570' department: - _id: RySh doi: 10.1212/NXI.0000000000200284 external_id: isi: - '001291908600001' pmid: - '39141878' file: - access_level: open_access checksum: 1e6d1230e0387f72752e3268f5330c9e content_type: application/pdf creator: dernst date_created: 2025-01-09T13:42:42Z date_updated: 2025-01-09T13:42:42Z file_id: '18815' file_name: 2024_NeurologyNeuroimmNeuroinflamm_RitzauJost.pdf file_size: 855818 relation: main_file success: 1 file_date_updated: 2025-01-09T13:42:42Z has_accepted_license: '1' intvolume: ' 11' isi: 1 issue: '5' language: - iso: eng month: '09' oa: 1 oa_version: Published Version page: e200284 pmid: 1 project: - _id: 05970B30-7A3F-11EA-A408-12923DDC885E grant_number: I04638 name: LGI1 antibody-induced pathophysiology in synapses publication: Neurology, Neuroimmunology and Neuroinflammation publication_identifier: eissn: - 2332-7812 publication_status: published publisher: Wolters Kluwer quality_controlled: '1' related_material: link: - relation: earlier_version url: https://doi.org/10.1101/2023.10.04.560631 scopus_import: '1' status: public title: LGI1 autoantibodies enhance synaptic transmission by presynaptic Kv1 loss and increased action potential broadening tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 11 year: '2024' ... --- _id: '17458' abstract: - lang: eng text: Changes in gene dosage can have tremendous evolutionary potential (e.g. whole-genome duplications), but without compensatory mechanisms, they can also lead to gene dysregulation and pathologies. Sex chromosomes are a paradigmatic example of naturally occurring gene dosage differences and their compensation. In species with chromosome-based sex determination, individuals within the same population necessarily show ‘natural’ differences in gene dosage for the sex chromosomes. In this Review, we focus on the mammalian X chromosome and discuss recent new insights into the dosage-compensation mechanisms that evolved along with the emergence of sex chromosomes, namely X-inactivation and X-upregulation. We also discuss the evolution of the genetic loci and molecular players involved, as well as the regulatory diversity and potentially different requirements for dosage compensation across mammalian species. acknowledgement: We thank Estelle Nicolas for critical feedback on the manuscript and Ikuhiro Okamoto for critical feedback on the figures. We apologise to authors whose work we overlooked or did not discuss or cite due to limits in the number of references. We thank the anonymous reviewers for pointing us to additional literature and for their constructive feedback. Figures were prepared with BioRender.com. D.C. is supported by a fellowship from Ligue Contre le Cancer (LNCC_TAJT25850) and R.G. holds a tenured research position from the Centre National de la Recherche Scientifique (France). Research in the Galupa lab is supported by a grant from the Fondation pour la Recherche Médicale (AJE202305017142). Open Access funding provided by Fondation pour la Recherche Médicale. Deposited in PMC for immediate release. article_number: dev202891 article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Daniela full_name: Cecalev, Daniela last_name: Cecalev - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 - first_name: Rafael full_name: Galupa, Rafael last_name: Galupa citation: ama: Cecalev D, Vicoso B, Galupa R. Compensation of gene dosage on the mammalian X. Development. 2024;151(15). doi:10.1242/dev.202891 apa: Cecalev, D., Vicoso, B., & Galupa, R. (2024). Compensation of gene dosage on the mammalian X. Development. The Company of Biologists. https://doi.org/10.1242/dev.202891 chicago: Cecalev, Daniela, Beatriz Vicoso, and Rafael Galupa. “Compensation of Gene Dosage on the Mammalian X.” Development. The Company of Biologists, 2024. https://doi.org/10.1242/dev.202891. ieee: D. Cecalev, B. Vicoso, and R. Galupa, “Compensation of gene dosage on the mammalian X,” Development, vol. 151, no. 15. The Company of Biologists, 2024. ista: Cecalev D, Vicoso B, Galupa R. 2024. Compensation of gene dosage on the mammalian X. Development. 151(15), dev202891. mla: Cecalev, Daniela, et al. “Compensation of Gene Dosage on the Mammalian X.” Development, vol. 151, no. 15, dev202891, The Company of Biologists, 2024, doi:10.1242/dev.202891. short: D. Cecalev, B. Vicoso, R. Galupa, Development 151 (2024). date_created: 2024-08-25T22:01:07Z date_published: 2024-08-14T00:00:00Z date_updated: 2025-09-08T08:58:58Z day: '14' ddc: - '599' department: - _id: BeVi doi: 10.1242/dev.202891 external_id: isi: - '001292608800003' pmid: - '39140247' file: - access_level: open_access checksum: 5e428bda0440d3f957c694b315a8f2a9 content_type: application/pdf creator: cchlebak date_created: 2024-08-28T10:32:16Z date_updated: 2024-08-28T10:32:16Z file_id: '17464' file_name: 2024_Development_Cecalev.pdf file_size: 2085135 relation: main_file success: 1 file_date_updated: 2024-08-28T10:32:16Z has_accepted_license: '1' intvolume: ' 151' isi: 1 issue: '15' language: - iso: eng month: '08' oa: 1 oa_version: Published Version pmid: 1 publication: Development publication_identifier: eissn: - 1477-9129 issn: - 0950-1991 publication_status: published publisher: The Company of Biologists quality_controlled: '1' scopus_import: '1' status: public title: Compensation of gene dosage on the mammalian X tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 151 year: '2024' ...