--- OA_place: repository _id: '21422' article_processing_charge: No author: - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 citation: ama: Sunko V. Data underpinning “Magneto-optical Kerr effect in an A-type antiferromagnet.” 2026. doi:10.15479/AT-ISTA-21422 apa: Sunko, V. (2026). Data underpinning “Magneto-optical Kerr effect in an A-type antiferromagnet.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21422 chicago: Sunko, Veronika. “Data Underpinning ‘Magneto-Optical Kerr Effect in an A-Type Antiferromagnet.’” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21422. ieee: V. Sunko, “Data underpinning ‘Magneto-optical Kerr effect in an A-type antiferromagnet.’” Institute of Science and Technology Austria, 2026. ista: Sunko V. 2026. Data underpinning ‘Magneto-optical Kerr effect in an A-type antiferromagnet’, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21422. mla: Sunko, Veronika. Data Underpinning “Magneto-Optical Kerr Effect in an A-Type Antiferromagnet.” Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21422. short: V. Sunko, (2026). corr_author: '1' date_created: 2026-03-11T07:04:26Z date_published: 2026-03-11T00:00:00Z date_updated: 2026-07-27T13:59:27Z day: '11' department: - _id: VeSu doi: 10.15479/AT-ISTA-21422 file: - access_level: open_access checksum: 54db0b68f0cf919009317fd3da8f733b content_type: application/zip creator: vsunko date_created: 2026-03-11T10:28:34Z date_updated: 2026-03-11T10:28:34Z file_id: '21429' file_name: MBT_Data_Paper.zip file_size: 85004 relation: main_file success: 1 - access_level: open_access checksum: df1785b7ada7cd07f76a441ee4f52266 content_type: text/plain creator: vsunko date_created: 2026-03-11T10:28:37Z date_updated: 2026-03-11T10:28:37Z file_id: '21430' file_name: README.txt file_size: 2593 relation: main_file success: 1 file_date_updated: 2026-03-11T10:28:37Z has_accepted_license: '1' month: '03' oa: 1 oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '21872' relation: used_in_publication status: public status: public title: Data underpinning "Magneto-optical Kerr effect in an A-type antiferromagnet" 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: research_data user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '21759' abstract: - lang: eng text: 'Promoters and enhancers are cis-regulatory elements (CREs), DNA sequences that bind transcription factor (TF) proteins to up- or down-regulate target genes. Decades-long efforts yielded TF-DNA interaction models that predict how strongly an individual TF binds arbitrary DNA sequences and how individual binding events on the CRE combine to affect gene expression. These insights can be synthesized into a global, biophysically realistic, and quantitative genotype-phenotype (GP) map for gene regulation, a ‘holy grail’ for the application of evolutionary theory. A global map provides a rare opportunity to simulate the long-term evolution of regulatory sequences and pose several fundamental questions: How long does it take to evolve CREs de novo? How many non-trivial regulatory functions exist in sequence space? How connected are they? For which regulatory architecture is CRE evolution most rapid and evolvable? In this article, the second of a two-part series, we review the application of evolutionary concepts — epistasis, robustness, evolvability, tunability, plasticity, and bet-hedging — to the evolution of gene regulatory sequences. We then evaluate the potential for a unifying theory for the evolution of regulatory sequences and identify key open challenges.' acknowledgement: "We thank Calin Guet and Santiago Herrera-Álvarez for essential contributions to this manuscript.\r\nE.M. acknowledges support from the APART-USA fellowship, jointly funded by the Austrian Academy of Sciences (ÖAW) and the Institute of Science and Technology Austria (ISTA). N.B. acknowledges funding from the ERC Advanced Grant 101055327 “HaplotypeStructure”.\r\nThis study was also supported by the European Molecular Biology Laboratory (N.O.B., J.C.)." article_number: '102472' article_processing_charge: Yes (via OA deal) article_type: review author: - first_name: Elia full_name: Mascolo, Elia id: 776a6ed0-a053-11f0-8635-80b95e0e0d53 last_name: Mascolo orcid: 0000-0003-2977-7844 - first_name: Reka E full_name: Körei, Reka E id: 50FDE43E-AA30-11E9-A72B-8A12E6697425 last_name: Körei - first_name: Noa O. full_name: Borst, Noa O. last_name: Borst - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 - first_name: Justin full_name: Crocker, Justin last_name: Crocker - first_name: Gašper full_name: Tkačik, Gašper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkačik orcid: 0000-0002-6699-1455 citation: ama: 'Mascolo E, Körei RE, Borst NO, Barton NH, Crocker J, Tkačik G. Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges. Current Opinion in Genetics and Development. 2026;98. doi:10.1016/j.gde.2026.102472' apa: 'Mascolo, E., Körei, R. E., Borst, N. O., Barton, N. H., Crocker, J., & Tkačik, G. (2026). Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges. Current Opinion in Genetics and Development. Elsevier. https://doi.org/10.1016/j.gde.2026.102472' chicago: 'Mascolo, Elia, Reka E Körei, Noa O. Borst, Nicholas H Barton, Justin Crocker, and Gašper Tkačik. “Long-Term Evolution of Regulatory DNA Sequences. Part 2: Theory and Future Challenges.” Current Opinion in Genetics and Development. Elsevier, 2026. https://doi.org/10.1016/j.gde.2026.102472.' ieee: 'E. Mascolo, R. E. Körei, N. O. Borst, N. H. Barton, J. Crocker, and G. Tkačik, “Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges,” Current Opinion in Genetics and Development, vol. 98. Elsevier, 2026.' ista: 'Mascolo E, Körei RE, Borst NO, Barton NH, Crocker J, Tkačik G. 2026. Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges. Current Opinion in Genetics and Development. 98, 102472.' mla: 'Mascolo, Elia, et al. “Long-Term Evolution of Regulatory DNA Sequences. Part 2: Theory and Future Challenges.” Current Opinion in Genetics and Development, vol. 98, 102472, Elsevier, 2026, doi:10.1016/j.gde.2026.102472.' short: E. Mascolo, R.E. Körei, N.O. Borst, N.H. Barton, J. Crocker, G. Tkačik, Current Opinion in Genetics and Development 98 (2026). corr_author: '1' das_tickbox: '1' dataavailabilitystatement: No data were used for the research described in the article. date_created: 2026-04-26T22:01:46Z date_published: 2026-06-01T00:00:00Z date_updated: 2026-07-27T13:40:24Z day: '01' ddc: - '570' department: - _id: GaTk - _id: NiBa doi: 10.1016/j.gde.2026.102472 file: - access_level: open_access checksum: ac8bbee61717bfe7116e312cc6825259 content_type: application/pdf creator: dernst date_created: 2026-07-27T13:39:59Z date_updated: 2026-07-27T13:39:59Z file_id: '22590' file_name: 2026_CurrentOpinionGeneticsDev_Mascolo.pdf file_size: 3190001 relation: main_file success: 1 file_date_updated: 2026-07-27T13:39:59Z has_accepted_license: '1' intvolume: ' 98' language: - iso: eng month: '06' oa: 1 oa_version: Published Version project: - _id: bd6958e0-d553-11ed-ba76-86eba6a76c00 grant_number: '101055327' name: Understanding the evolution of continuous genomes publication: Current Opinion in Genetics and Development publication_identifier: eissn: - 1879-0380 issn: - 0959-437X publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: no title: 'Long-term evolution of regulatory DNA sequences. Part 2: Theory and future challenges' 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: 98 year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '21849' abstract: - lang: eng text: The development of complex tissues relies on the precise assignment of cell identity. At the molecular scale, this process depends on the deposition of epigenetic modifications—such as methylation—that are regulated by complex biochemical networks and occur at specific regions on the DNA and chromatin. Here we show that despite the complexity of epigenetic regulation, dynamical scaling and self-similarity of DNA methylation marks emerge in embryonic development. Drawing on single-cell multi-omics experiments, super-resolution microscopy and statistical physics, we demonstrate that these phenomena originate in dynamical feedback between DNA methylation and the formation of nanoscale dynamic chromatin aggregates. These nanoscale processes lead to genome-wide increase in DNA methylation marks following a power law and self-similar correlation functions. Using this framework, we identify methylation patterns that precede gene expression changes in embryonic symmetry breaking. Our work identifies linear sequencing measurements as a laboratory to study mesoscopic biophysical processes in vivo. acknowledgement: We thank all members of the W.R. and S.R. laboratories, F. Piazza, B. D. Simons, and F. Jülicher for helpful discussions. We thank M. Ciarchi for providing annotations for the chromatin compartments. S.R. is a member of the Center for Nano Science (CeNS). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement number 950349). Research in W.R.’s laboratory was supported by the Biotechnology and Biological Sciences Research Council (BB/K010867/1), Wellcome (095645/Z/11/Z) and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (EpiCell lineage 882798). F.O. received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement number 101034413. Open access funding provided by Max Planck Society. article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Fabrizio full_name: Olmeda, Fabrizio id: 69dbf5fb-8a76-11ed-866b-fb486d8b5689 last_name: Olmeda - first_name: Tim full_name: Lohoff, Tim last_name: Lohoff - first_name: Ioannis full_name: Kafetzopoulos, Ioannis last_name: Kafetzopoulos - first_name: Stephen J. full_name: Clark, Stephen J. last_name: Clark - first_name: Laura full_name: Benson, Laura last_name: Benson - first_name: Fatima full_name: Santos, Fatima last_name: Santos - first_name: Felix full_name: Krueger, Felix last_name: Krueger - first_name: Simon full_name: Walker, Simon last_name: Walker - first_name: Wolf full_name: Reik, Wolf last_name: Reik - first_name: Steffen full_name: Rulands, Steffen last_name: Rulands citation: ama: Olmeda F, Lohoff T, Kafetzopoulos I, et al. Scaling and self-similarity in the formation of the embryonic epigenome. Nature Physics. 2026;22:931-940. doi:10.1038/s41567-026-03263-x apa: Olmeda, F., Lohoff, T., Kafetzopoulos, I., Clark, S. J., Benson, L., Santos, F., … Rulands, S. (2026). Scaling and self-similarity in the formation of the embryonic epigenome. Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-026-03263-x chicago: Olmeda, Fabrizio, Tim Lohoff, Ioannis Kafetzopoulos, Stephen J. Clark, Laura Benson, Fatima Santos, Felix Krueger, Simon Walker, Wolf Reik, and Steffen Rulands. “Scaling and Self-Similarity in the Formation of the Embryonic Epigenome.” Nature Physics. Springer Nature, 2026. https://doi.org/10.1038/s41567-026-03263-x. ieee: F. Olmeda et al., “Scaling and self-similarity in the formation of the embryonic epigenome,” Nature Physics, vol. 22. Springer Nature, pp. 931–940, 2026. ista: Olmeda F, Lohoff T, Kafetzopoulos I, Clark SJ, Benson L, Santos F, Krueger F, Walker S, Reik W, Rulands S. 2026. Scaling and self-similarity in the formation of the embryonic epigenome. Nature Physics. 22, 931–940. mla: Olmeda, Fabrizio, et al. “Scaling and Self-Similarity in the Formation of the Embryonic Epigenome.” Nature Physics, vol. 22, Springer Nature, 2026, pp. 931–40, doi:10.1038/s41567-026-03263-x. short: F. Olmeda, T. Lohoff, I. Kafetzopoulos, S.J. Clark, L. Benson, F. Santos, F. Krueger, S. Walker, W. Reik, S. Rulands, Nature Physics 22 (2026) 931–940. das_tickbox: '1' dataavailabilitystatement: All sequencing datasets reported in this paper are available on Gene Expression Omnibus (GEO) under accession GSE166226. STORM localization data are available on Zenodo (https://doi.org/10.5281/zenodo.18965309)57. Raw images are available upon request. Code for computing the correlation functions and STORM analysis are available via GitHub at https://github.com/srulands/inference_of_spatio-temporal_processes. date_created: 2026-05-10T22:02:16Z date_published: 2026-06-01T00:00:00Z date_updated: 2026-07-27T13:56:09Z day: '01' ddc: - '570' department: - _id: EdHa doi: 10.1038/s41567-026-03263-x ec_funded: 1 external_id: pmid: - '42318073' file: - access_level: open_access checksum: 58e7734f1ebaf6def642140cb489f08f content_type: application/pdf creator: dernst date_created: 2026-07-27T13:54:58Z date_updated: 2026-07-27T13:54:58Z file_id: '22591' file_name: 2026_NaturePhysics_Olmeda.pdf file_size: 7932222 relation: main_file success: 1 file_date_updated: 2026-07-27T13:54:58Z has_accepted_license: '1' intvolume: ' 22' language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: 931-940 pmid: 1 project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Nature Physics publication_identifier: eissn: - 1745-2481 issn: - 1745-2473 publication_status: published publisher: Springer Nature quality_controlled: '1' researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: Scaling and self-similarity in the formation of the embryonic epigenome 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: 22 year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '21883' abstract: - lang: eng text: Three-dimensional (3D) printing has rapidly developed from a niche hobbyist activity into a widely accessible and indispensable technology across multiple scientific disciplines. Within microscopy, optical engineering laboratories and imaging core facilities, 3D printing enables creating customised solutions for sample holders, optical components and everyday laboratory tools that traditionally required specialised machining. By providing rapid prototyping, low-cost production and reproducibility, 3D printing facilitates innovation and efficiency in facility operations. This article provides a perspective on the possibilities, challenges, and practical aspects of implementing 3D printing within microscopy core facilities. Instead of providing technical review about 3D printing, we focus on service organisation, user engagement, resource management and community-driven repositories for design dissemination. Our aim is to share insights with those considering the implementation of 3D printing as a service for developing add-on components to ease the operation of different aspects of the machine-park driven services and those who are managing advanced instrumentation within research groups. acknowledged_ssus: - _id: Bio - _id: M-Shop acknowledgement: "This work was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Imaging & Optics Facility (IOF) and the MiBa Machine Shop. Specifically; Robert Hauschild (IOF), sharing designs, insights and pioneering 3D printing activities at the Imaging and Optics Facility; Bernhard Hochreiter (IOF), for support and testing of anoxic chamber. We also thank Ana Rita Carvalho Faria and Oliver Biehlmaier (Biozentrum University of Basel, Imaging Core Facility) for sharing the design of the adopted power meter.\r\nOpen Access funding provided by Institute of Science and Technology Austria." article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Mohammad full_name: Goudarzi, Mohammad id: 3384113A-F248-11E8-B48F-1D18A9856A87 last_name: Goudarzi - first_name: Maximilian full_name: Schuster, Maximilian id: 37e65def-d415-11eb-ae59-a7b67be103db last_name: Schuster - first_name: Arthur full_name: Milberger, Arthur last_name: Milberger - first_name: Manuel full_name: Gunkel, Manuel last_name: Gunkel - first_name: Stefan full_name: Terjung, Stefan last_name: Terjung - first_name: Gabriel full_name: Krens, Gabriel id: 2B819732-F248-11E8-B48F-1D18A9856A87 last_name: Krens orcid: 0000-0003-4761-5996 citation: ama: Goudarzi M, Schuster M, Milberger A, Gunkel M, Terjung S, Krens G. 3D printing in core facilities – Low pain, high gain. Journal of Microscopy. 2026;302(3):382-395. doi:10.1111/jmi.70106 apa: Goudarzi, M., Schuster, M., Milberger, A., Gunkel, M., Terjung, S., & Krens, G. (2026). 3D printing in core facilities – Low pain, high gain. Journal of Microscopy. Wiley. https://doi.org/10.1111/jmi.70106 chicago: Goudarzi, Mohammad, Maximilian Schuster, Arthur Milberger, Manuel Gunkel, Stefan Terjung, and Gabriel Krens. “3D Printing in Core Facilities – Low Pain, High Gain.” Journal of Microscopy. Wiley, 2026. https://doi.org/10.1111/jmi.70106. ieee: M. Goudarzi, M. Schuster, A. Milberger, M. Gunkel, S. Terjung, and G. Krens, “3D printing in core facilities – Low pain, high gain,” Journal of Microscopy, vol. 302, no. 3. Wiley, pp. 382–395, 2026. ista: Goudarzi M, Schuster M, Milberger A, Gunkel M, Terjung S, Krens G. 2026. 3D printing in core facilities – Low pain, high gain. Journal of Microscopy. 302(3), 382–395. mla: Goudarzi, Mohammad, et al. “3D Printing in Core Facilities – Low Pain, High Gain.” Journal of Microscopy, vol. 302, no. 3, Wiley, 2026, pp. 382–95, doi:10.1111/jmi.70106. short: M. Goudarzi, M. Schuster, A. Milberger, M. Gunkel, S. Terjung, G. Krens, Journal of Microscopy 302 (2026) 382–395. corr_author: '1' das_tickbox: '0' date_created: 2026-05-17T22:02:11Z date_published: 2026-06-01T00:00:00Z date_updated: 2026-07-27T14:02:46Z day: '01' ddc: - '600' department: - _id: Bio doi: 10.1111/jmi.70106 external_id: pmid: - '42104760' file: - access_level: open_access checksum: 06dfad92b1465ed614a1201b4129960a content_type: application/pdf creator: dernst date_created: 2026-07-27T14:01:34Z date_updated: 2026-07-27T14:01:34Z file_id: '22593' file_name: 2026_JourMicroscopy_Goudarzi.pdf file_size: 4625767 relation: main_file success: 1 file_date_updated: 2026-07-27T14:01:34Z has_accepted_license: '1' intvolume: ' 302' issue: '3' language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: 382-395 pmid: 1 publication: Journal of Microscopy publication_identifier: eissn: - 1365-2818 issn: - 0022-2720 publication_status: published publisher: Wiley quality_controlled: '1' researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: no title: 3D printing in core facilities – Low pain, high gain 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: 302 year: '2026' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold PlanS_conform: '1' _id: '21872' abstract: - lang: eng text: Magneto-optic Kerr effect (MOKE) is a powerful probe of broken time-reversal symmetry (T), typically used to study ferromagnets. While MOKE has been observed in some antiferromagnets (AFMs) with vanishing magnetization, it is often associated with structures whose symmetry is lower than basic collinear, bipartite order. In contrast, theory predicts a mechanism for MOKE intrinsic to all AFMs of A-type, i.e. layered AFMs in which ferromagnetic layers are antiferromagnetically aligned. Here we report the experimental confirmation of this mechanism in a bulk AFM. We achieve this by measuring the imaginary component of MOKE as a function of photon energy in MnBi2Te4, an A-type AFM where T is preserved in combination with a translation, and comparing the experimental results with model calculations. Our model suggests that observable MOKE should be expected in all collinear A-type AFMs with out-of-plane spin order, thus enabling optical detection of AFM domains and expanding the scope of MOKE to few-layer AFMs. acknowledgement: We thank Christine Kuntscher for providing optical conductivity and reflectance data published in ref. 33, and Nicola Spaldin, Joel Moore and Bevin Huang for useful discussions. V.S. and J.O. received support from the Gordon and Betty Moore Foundation’s EPiQS Initiative through Grant GBMF4537 awarded to J.O. at UC Berkeley. Experimental and theoretical work at LBNL and UC Berkeley was funded by the Quantum Materials (KC2202) program under the U.S. Department of Energy, Office of Science, Office of Basic Energy Sciences, Materials Sciences and Engineering Division under Contract No. DE-AC02-05CH11231. Work at the University of Kansas was supported by the U.S. Department of Energy, Office of Science, Basic Energy Sciences, EPSCoR, and Materials Sciences and Engineering Division under Award No. DE-SC0025319. Parts of device fabrication were performed in the KU Nanofabrication Facility, which is supported by the National Institutes of Health NIGMS P30GM145499. Work at ORNL was supported by the U. S. Department of Energy, Office of Science, Basic Energy Sciences, Materials Sciences and Engineering Division. For the DFT calculations we used resources provided by the Swedish National Infrastructure for Computing (SNIC) at C3SE. We acknowledge support from the US National Science Foundation (NSF) Grant Number 2201516 under the Accelnet program of Office of International Science and Engineering (OISE). This publication is funded in part by a QuantEmX grant from ICAM and the Gordon and Betty Moore Foundation through Grant GBMF9616 to S. K. article_number: '7364' article_processing_charge: Yes article_type: original arxiv: 1 author: - first_name: Veronika full_name: Sunko, Veronika id: 23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3 last_name: Sunko orcid: 0000-0003-2724-3523 - first_name: Salman full_name: Ahsanullah, Salman last_name: Ahsanullah - first_name: Vivek full_name: Jain, Vivek last_name: Jain - first_name: Sophie full_name: Weber, Sophie last_name: Weber - first_name: Sivaloganathan full_name: Kumaran, Sivaloganathan last_name: Kumaran - first_name: Jiaqiang full_name: Yan, Jiaqiang last_name: Yan - first_name: Joseph full_name: Orenstein, Joseph last_name: Orenstein - first_name: Dmitry full_name: Ovchinnikov, Dmitry last_name: Ovchinnikov citation: ama: Sunko V, Ahsanullah S, Jain V, et al. Magneto-optical Kerr effect in an A-type antiferromagnet. Nature Communications. 2026;17. doi:10.1038/s41467-026-72577-4 apa: Sunko, V., Ahsanullah, S., Jain, V., Weber, S., Kumaran, S., Yan, J., … Ovchinnikov, D. (2026). Magneto-optical Kerr effect in an A-type antiferromagnet. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-026-72577-4 chicago: Sunko, Veronika, Salman Ahsanullah, Vivek Jain, Sophie Weber, Sivaloganathan Kumaran, Jiaqiang Yan, Joseph Orenstein, and Dmitry Ovchinnikov. “Magneto-Optical Kerr Effect in an A-Type Antiferromagnet.” Nature Communications. Springer Nature, 2026. https://doi.org/10.1038/s41467-026-72577-4. ieee: V. Sunko et al., “Magneto-optical Kerr effect in an A-type antiferromagnet,” Nature Communications, vol. 17. Springer Nature, 2026. ista: Sunko V, Ahsanullah S, Jain V, Weber S, Kumaran S, Yan J, Orenstein J, Ovchinnikov D. 2026. Magneto-optical Kerr effect in an A-type antiferromagnet. Nature Communications. 17, 7364. mla: Sunko, Veronika, et al. “Magneto-Optical Kerr Effect in an A-Type Antiferromagnet.” Nature Communications, vol. 17, 7364, Springer Nature, 2026, doi:10.1038/s41467-026-72577-4. short: V. Sunko, S. Ahsanullah, V. Jain, S. Weber, S. Kumaran, J. Yan, J. Orenstein, D. Ovchinnikov, Nature Communications 17 (2026). corr_author: '1' das_tickbox: '1' dataavailabilitystatement: The datasets generated and analyzed during the study of “Magneto-optical Kerr effect in an A-type antiferromagnet" are available in the ISTA REx repository with https://doi.org/10.15479/AT-ISTA-21422. date_created: 2026-05-12T21:31:27Z date_published: 2026-07-27T00:00:00Z date_updated: 2026-07-27T13:59:27Z day: '27' ddc: - '530' department: - _id: VeSu doi: 10.1038/s41467-026-72577-4 external_id: arxiv: - '2504.16167' file: - access_level: open_access checksum: bde19c4342933c05fe801c2bef7dc732 content_type: application/pdf creator: dernst date_created: 2026-07-27T13:58:06Z date_updated: 2026-07-27T13:58:06Z file_id: '22592' file_name: 2026_NatureComm_Sunko.pdf file_size: 1054779 relation: main_file success: 1 file_date_updated: 2026-07-27T13:58:06Z has_accepted_license: '1' intvolume: ' 17' language: - iso: eng month: '07' oa: 1 oa_version: Published Version publication: Nature Communications publication_identifier: eissn: - 2041-1723 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '21422' relation: research_data status: public researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: Magneto-optical Kerr effect in an A-type antiferromagnet 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: 17 year: '2026' ... --- OA_type: closed access _id: '21950' abstract: - lang: eng text: One Health initiatives are modern paradigms for research and health care practices in various fields. Concrete definitions of the One Health framework, however, remain heterogeneous, leading to conceptual problems and uncertainties in the application of the framework. This article discusses several approaches to the One Health concept, and their associated consequences, with special focus on animal experimentation. The first issue addressed is how One Health should be defined, as well as what (and who) should be considered within a One Health approach. In order to shed further light on this, we explore the history of animals in biomedical science, highlighting historical milestones in the use of animal models, as well as the development and current state of ethical considerations in the field of animal experimentation. The second issue comes with the inclusion of animal experimentation per se as part of the One Health concept. Therefore, particular attention is paid to bioethical principles and the resulting problems that can arise when applying them to the One Health concept. Arguments such as the idea of inequality between humans and non-human animals, and the premise that all actions are done for the benefit of humans, are raised and then used to explore the question of whether the One Health concept is compatible with existing bioethical principles. Based on the bioethical principles of protecting the environment, the biodiversity and biosphere, this paper seeks an inclusive perspective of the One Health concept. Successful solutions will be based on this concept, which embraces all living beings. The authors conclude that a multispecies ethics approach could help create a more ethical ecosystem that is aligned with the wellbeing of all life on a shared planet. article_processing_charge: No article_type: original author: - first_name: Yesim Isil full_name: Ulman, Yesim Isil last_name: Ulman - first_name: Nikos full_name: Kostomitsopoulos, Nikos last_name: Kostomitsopoulos - first_name: Samuel full_name: Camenzind, Samuel last_name: Camenzind - first_name: Maria full_name: Kitsara, Maria last_name: Kitsara - first_name: Ilja Richard full_name: Pavone, Ilja Richard last_name: Pavone - first_name: Sophie full_name: Schober, Sophie id: 80b0a0ef-4b9f-11ec-b119-8d9d94c4a1d8 last_name: Schober citation: ama: 'Ulman YI, Kostomitsopoulos N, Camenzind S, Kitsara M, Pavone IR, Schober S. Emerging bioethical conflicts: One Health and animal experimentation. Alternatives to Laboratory Animals. 2026;54(4):226-235. doi:10.1177/02611929261453330' apa: 'Ulman, Y. I., Kostomitsopoulos, N., Camenzind, S., Kitsara, M., Pavone, I. R., & Schober, S. (2026). Emerging bioethical conflicts: One Health and animal experimentation. Alternatives to Laboratory Animals. SAGE Publications. https://doi.org/10.1177/02611929261453330' chicago: 'Ulman, Yesim Isil, Nikos Kostomitsopoulos, Samuel Camenzind, Maria Kitsara, Ilja Richard Pavone, and Sophie Schober. “Emerging Bioethical Conflicts: One Health and Animal Experimentation.” Alternatives to Laboratory Animals. SAGE Publications, 2026. https://doi.org/10.1177/02611929261453330.' ieee: 'Y. I. Ulman, N. Kostomitsopoulos, S. Camenzind, M. Kitsara, I. R. Pavone, and S. Schober, “Emerging bioethical conflicts: One Health and animal experimentation,” Alternatives to Laboratory Animals, vol. 54, no. 4. SAGE Publications, pp. 226–235, 2026.' ista: 'Ulman YI, Kostomitsopoulos N, Camenzind S, Kitsara M, Pavone IR, Schober S. 2026. Emerging bioethical conflicts: One Health and animal experimentation. Alternatives to Laboratory Animals. 54(4), 226–235.' mla: 'Ulman, Yesim Isil, et al. “Emerging Bioethical Conflicts: One Health and Animal Experimentation.” Alternatives to Laboratory Animals, vol. 54, no. 4, SAGE Publications, 2026, pp. 226–35, doi:10.1177/02611929261453330.' short: Y.I. Ulman, N. Kostomitsopoulos, S. Camenzind, M. Kitsara, I.R. Pavone, S. Schober, Alternatives to Laboratory Animals 54 (2026) 226–235. corr_author: '1' das_tickbox: '1' date_created: 2026-06-07T22:01:36Z date_published: 2026-07-01T00:00:00Z date_updated: 2026-07-27T14:13:17Z day: '01' department: - _id: PreCl doi: 10.1177/02611929261453330 external_id: pmid: - '42185081' intvolume: ' 54' issue: '4' language: - iso: eng month: '07' oa_version: None page: 226-235 pmid: 1 publication: Alternatives to Laboratory Animals publication_identifier: eissn: - 2632-3559 issn: - 0261-1929 publication_status: published publisher: SAGE Publications quality_controlled: '1' scopus_import: '1' status: public title: 'Emerging bioethical conflicts: One Health and animal experimentation' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 54 year: '2026' ... --- OA_type: closed access _id: '21900' abstract: - lang: eng text: Individually silencing 125 fruit fly genes reveals opposing fitness effects of mutations between females and males, as well as between germline and somatic tissues. article_processing_charge: No article_type: comment author: - first_name: Filip full_name: Ruzicka, Filip id: 347955dd-57b0-11ee-9095-c28bdd368f4b last_name: Ruzicka citation: ama: Ruzicka F. Reverse genetics of sexual antagonism. Nature Ecology & Evolution. 2026;10:1035-1036. doi:10.1038/s41559-026-03036-y apa: Ruzicka, F. (2026). Reverse genetics of sexual antagonism. Nature Ecology & Evolution. Springer Nature. https://doi.org/10.1038/s41559-026-03036-y chicago: Ruzicka, Filip. “Reverse Genetics of Sexual Antagonism.” Nature Ecology & Evolution. Springer Nature, 2026. https://doi.org/10.1038/s41559-026-03036-y. ieee: F. Ruzicka, “Reverse genetics of sexual antagonism,” Nature Ecology & Evolution, vol. 10. Springer Nature, pp. 1035–1036, 2026. ista: Ruzicka F. 2026. Reverse genetics of sexual antagonism. Nature Ecology & Evolution. 10, 1035–1036. mla: Ruzicka, Filip. “Reverse Genetics of Sexual Antagonism.” Nature Ecology & Evolution, vol. 10, Springer Nature, 2026, pp. 1035–36, doi:10.1038/s41559-026-03036-y. short: F. Ruzicka, Nature Ecology & Evolution 10 (2026) 1035–1036. corr_author: '1' das_tickbox: '0' date_created: 2026-05-20T14:36:45Z date_published: 2026-06-01T00:00:00Z date_updated: 2026-07-27T14:05:02Z day: '01' department: - _id: BeVi doi: 10.1038/s41559-026-03036-y external_id: pmid: - '42067637 ' intvolume: ' 10' language: - iso: eng month: '06' oa_version: None page: 1035-1036 pmid: 1 publication: Nature Ecology & Evolution publication_identifier: eissn: - 2397-334X publication_status: published publisher: Springer Nature quality_controlled: '1' researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: no title: Reverse genetics of sexual antagonism type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 10 year: '2026' ... --- OA_place: publisher _id: '21957' abstract: - lang: eng text: "This thesis investigates algorithmic certification and approximation methods for degenerate semidefinite programs (SDPs) and the singular roots of polynomial systems. In the first part, we present a hybrid symbolic-numeric algorithm for certifying the feasibility of weakly feasible, degenerate SDPs. By reformulating linear matrix inequalities (LMIs) into a structured polynomial system via facial reduction and incidence varieties, we guarantee the existence of an isolated exact solution. This algebraic reduction enables the certification of maximum-rank numerical approximations using methods from algebraic geometry.\r\n\r\nIn the second part, we address the severe ill-conditioning and loss of quadratic convergence that plague standard path-tracking methods near isolated singular roots. To overcome this, we propose tracking algorithms that achieve superlinear convergence without the computational bloat characteristic of classical deflation techniques. By modeling the solution path as a generalized fractional Puiseux series, our approach combines an explicitly derived algebraic predictor with a localized hyperplane desingularization phase during the corrector step. Furthermore, we introduce a continuous path-limit method and an extension of the geometric sequence rule to directly extract exact fractional exponents. This bypasses traditional heuristic trial-and-error methods and explicitly accommodates sparse series expansions. Numerical experiments confirm that our method significantly reduces the cumulative number of matrix inversions while achieving high-accuracy root approximations, even for heavily degenerate systems exhibiting higher coranks." acknowledgement: 'Funding: Vienna Graduate School on Computational Optimization (FWF), grant DOI: 10.55776/W1260.' alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Jeferson full_name: Zapata, Jeferson id: 00223538-AF8F-11E9-A4C7-F729E6697425 last_name: Zapata citation: ama: 'Zapata J. Overcoming degeneracy and singularity: Techniques for semidefinite programs and homotopy continuation endgames. 2026. doi:10.15479/AT-ISTA-21957' apa: 'Zapata, J. (2026). Overcoming degeneracy and singularity: Techniques for semidefinite programs and homotopy continuation endgames. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21957' chicago: 'Zapata, Jeferson. “Overcoming Degeneracy and Singularity: Techniques for Semidefinite Programs and Homotopy Continuation Endgames.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21957.' ieee: 'J. Zapata, “Overcoming degeneracy and singularity: Techniques for semidefinite programs and homotopy continuation endgames,” Institute of Science and Technology Austria, 2026.' ista: 'Zapata J. 2026. Overcoming degeneracy and singularity: Techniques for semidefinite programs and homotopy continuation endgames. Institute of Science and Technology Austria.' mla: 'Zapata, Jeferson. Overcoming Degeneracy and Singularity: Techniques for Semidefinite Programs and Homotopy Continuation Endgames. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21957.' short: 'J. Zapata, Overcoming Degeneracy and Singularity: Techniques for Semidefinite Programs and Homotopy Continuation Endgames, Institute of Science and Technology Austria, 2026.' corr_author: '1' das_tickbox: '1' date_created: 2026-06-08T13:29:52Z date_published: 2026-06-09T00:00:00Z date_updated: 2026-07-27T14:30:42Z day: '09' ddc: - '500' degree_awarded: PhD department: - _id: GradSch - _id: VlKo doi: 10.15479/AT-ISTA-21957 doi_confirm: '1' file: - access_level: closed checksum: b11a959e99d3dcf61040282b5c837141 content_type: application/zip creator: jzapata date_created: 2026-06-08T13:20:02Z date_updated: 2026-06-08T13:20:02Z file_id: '21958' file_name: istaustriathesis_JZapata.zip file_size: 40811933 relation: source_file - access_level: open_access checksum: edf1e5899b2e31505cd1aa3fe8bd4b7f content_type: application/pdf creator: jzapata date_created: 2026-06-10T13:33:25Z date_updated: 2026-06-10T13:33:25Z file_id: '21992' file_name: 4_Final_Thesis_JZapata_REX.pdf file_size: 2207892 relation: main_file success: 1 file_date_updated: 2026-06-10T13:33:25Z has_accepted_license: '1' language: - iso: eng month: '06' oa: 1 oa_version: Published Version page: '89' project: - _id: 9B9290DE-BA93-11EA-9121-9846C619BF3A grant_number: W1260-N35 name: Vienna Graduate School on Computational Optimization publication_identifier: isbn: - 978-3-99078-079-4 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '21144' relation: part_of_dissertation status: public status: public supervisor: - first_name: Vladimir full_name: Kolmogorov, Vladimir id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov title: 'Overcoming degeneracy and singularity: Techniques for semidefinite programs and homotopy continuation endgames' 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: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2026' ... --- OA_place: repository _id: '21360' acknowledged_ssus: - _id: LifeSc - _id: Bio acknowledgement: "I would like to acknowledge the Austrian Academy of Sciences (ÖAW) and European\r\nResearch Executive Agency (REA) for funding my research (DOC ÖAW Fellowship\r\n26130, Horizon Europe BOLERO Project 101060393). " alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Stefan full_name: Riegler, Stefan id: FF6018E0-D806-11E9-8E43-0B14E6697425 last_name: Riegler orcid: 0000-0003-3413-1343 citation: ama: 'Riegler S. Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21360' apa: 'Riegler, S. (2026). Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21360' chicago: 'Riegler, Stefan. “Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21360.' ieee: 'S. Riegler, “Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species,” Institute of Science and Technology Austria, 2026.' ista: 'Riegler S. 2026. Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria.' mla: 'Riegler, Stefan. Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21360.' short: 'S. Riegler, Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species, Institute of Science and Technology Austria, 2026.' corr_author: '1' das_tickbox: '1' date_created: 2026-02-27T09:08:14Z date_published: 2026-02-26T00:00:00Z date_updated: 2026-07-27T14:30:08Z day: '26' ddc: - '570' - '575' - '583' degree_awarded: PhD department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-21360 doi_confirm: '1' file: - access_level: closed checksum: 2f1f44e8536c2538f94a440217452c9f content_type: application/x-zip-compressed creator: sriegler date_created: 2026-03-02T10:59:50Z date_updated: 2026-03-02T10:59:50Z file_id: '21386' file_name: 2026_Riegler_Stefan_Thesis.zip file_size: 31430022 relation: source_file - access_level: closed checksum: 2e8dc39640bc26ae5684c944c619719b content_type: application/pdf creator: sriegler date_created: 2026-03-02T10:59:49Z date_updated: 2026-03-02T10:59:49Z embargo: 2027-02-27 embargo_to: open_access file_id: '21387' file_name: 2026_Riegler_Stefan_Thesis.pdf file_size: 11635090 relation: main_file file_date_updated: 2026-03-02T10:59:50Z has_accepted_license: '1' language: - iso: eng month: '02' oa_version: Published Version page: '185' project: - _id: 34afa094-11ca-11ed-8bc3-a375845a59fb grant_number: '101060393' name: Breeding for coffee and cocoa root resilience in low input farming systems based on improved rootstocks publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '21363' relation: research_data status: public status: public supervisor: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: 'Root system plasticity under nutrient limitation: Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea species' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2026' ... --- _id: '21363' abstract: - lang: eng text: The data contains information on coffee differential gene expression as well as co-expression and trait correlations in two separate experiments. First, contrasting nitrogen supply, second, intra- and interspecific grafting. article_processing_charge: No author: - first_name: Stefan full_name: Riegler, Stefan id: FF6018E0-D806-11E9-8E43-0B14E6697425 last_name: Riegler orcid: 0000-0003-3413-1343 citation: ama: 'Riegler S. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21363' apa: 'Riegler, S. (2026). Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21363' chicago: 'Riegler, Stefan. “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21363.' ieee: 'S. Riegler, “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species.” Institute of Science and Technology Austria, 2026.' ista: 'Riegler S. 2026. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21363.' mla: 'Riegler, Stefan. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21363.' short: S. Riegler, (2026). contributor: - contributor_type: supervisor first_name: Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 corr_author: '1' date_created: 2026-02-27T09:18:41Z date_published: 2026-02-27T00:00:00Z date_updated: 2026-07-27T14:30:07Z day: '27' ddc: - '575' department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-21363 file: - access_level: closed checksum: de9145fa166a28c588b5184a2d3d4fee content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet creator: sriegler date_created: 2026-02-27T09:11:33Z date_updated: 2026-02-27T09:11:33Z embargo: 2027-02-27 embargo_to: open_access file_id: '21364' file_name: SupplementaryTables.xlsx file_size: 63749444 relation: main_file - access_level: closed checksum: ce1f163551c96cee45943a8ea29720b6 content_type: text/plain creator: sriegler date_created: 2026-02-27T09:13:11Z date_updated: 2026-02-27T09:13:11Z embargo: 2027-02-27 embargo_to: open_access file_id: '21365' file_name: ReadMe.txt file_size: 124 relation: main_file file_date_updated: 2026-02-27T09:13:11Z has_accepted_license: '1' month: '02' oa_version: Published Version publisher: Institute of Science and Technology Austria related_material: record: - id: '21360' relation: used_in_publication status: public status: public title: 'Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea species' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d year: '2026' ... --- OA_place: publisher _id: '22334' abstract: - lang: eng text: "Characterizing protein dynamics at the atomic level is essential for our understanding of biological mechanisms. Whether it is to facilitate metabolite transport, catalyze reactions, transmit signals, or regulate metabolism – proteins are constantly in motion and sample multiple conformational states to fulfill their function. Nuclear magnetic resonance (NMR) spectroscopy is particularly well suited to elucidate the dynamics of biomolecules on their complex free-energy landscape. In particular, solid-state magic-angle spinning (MAS) NMR enables the study of large molecular assemblies, protein crystals, or insoluble proteins at atomic resolution without an inherent molecular size limitation. MAS NMR experiments to probe protein dynamics are extremely versatile and sensitive to motional timescales from picoseconds to seconds. Over the past decades, technological advances, developments in experimental design, and new isotope-labeling approaches have further expanded the possibilities of this technique and significantly improved the accuracy of the determined motional parameters.\r\nFunctionally important sites of proteins often contain aromatic residues. Their side-chain motions have therefore long served as valuable indicators of mechanistically relevant dynamics in NMR studies. In this thesis, site-specifically labeled aromatic residues act as sensitive reporters for MAS NMR studies of protein dynamics. The first part addresses how different environments impact side-chain motion by probing ring flips of phenylalanines and tyrosines in crystalline proteins and amyloid fibrils. It provides important insights for the analysis of dynamics obtained in non-native protein environments and emphasizes the complex factors that determine the timescale of internal dynamics. In the second part, the focus shifts towards methodological questions regarding the investigation of protein dynamics by 19F MAS NMR. The fluorine nucleus exhibits promising characteristics for NMR studies but also presents significant challenges, which is why the full methodological potential of 19F MAS NMR has not been fully realized yet. This work demonstrates that paramagnetic doping can considerably reduce the measurement time and improve the sensitivity of fluorinated samples. Finally, 19F MAS NMR is evaluated as a tool for studying protein side-chain dynamics on the example of tryptophans. The results illustrate the challenges in analyzing such experiments and lay the foundation for further development of 19F MAS NMR relaxation studies.\r\nTaken together, this thesis highlights the potential of combining specific isotope labeling, MAS NMR, and complementary methods such as crystallography and computational simulations to elucidate internal protein dynamics. The further development of such integrative approaches will be crucial to improving our understanding of complex mechanisms and protein function.\r\n" acknowledged_ssus: - _id: LifeSc - _id: NMR acknowledgement: "During the work on this thesis, I was the recipient of a DOC Fellowship of the Austrian\r\nAcademy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01)." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Lea Marie full_name: Becker, Lea Marie id: 36336939-eb97-11eb-a6c2-c83f1214ca79 last_name: Becker orcid: 0000-0002-6401-5151 citation: ama: Becker LM. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. 2026. doi:10.15479/AT-ISTA-22334 apa: Becker, L. M. (2026). Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22334 chicago: Becker, Lea Marie. “Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22334. ieee: L. M. Becker, “Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR,” Institute of Science and Technology Austria, 2026. ista: Becker LM. 2026. Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR. Institute of Science and Technology Austria. mla: Becker, Lea Marie. Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22334. short: L.M. Becker, Exploring Protein Dynamics Using Specific Labeling Approaches for Solid-State MAS NMR, Institute of Science and Technology Austria, 2026. corr_author: '1' das_tickbox: '1' date_created: 2026-07-14T08:08:51Z date_published: 2026-07-13T00:00:00Z date_updated: 2026-07-28T06:59:15Z day: '13' ddc: - '572' degree_awarded: PhD department: - _id: GradSch - _id: PaSc doi: 10.15479/AT-ISTA-22334 doi_confirm: '1' file: - access_level: closed checksum: 8b85114eff543916c0e1445cd2189555 content_type: application/zip creator: lbecker date_created: 2026-07-16T09:17:08Z date_updated: 2026-07-16T09:17:08Z file_id: '22346' file_name: 2026_Becker_Lea_source_files.zip file_size: 99472908 relation: source_file - access_level: open_access checksum: 6c526862bc6dbd1e4c80ecb34580bc58 content_type: application/pdf creator: lbecker date_created: 2026-07-16T09:17:05Z date_updated: 2026-07-16T09:17:05Z file_id: '22347' file_name: 2026_Becker_Lea_Thesis.pdf file_size: 74647289 relation: main_file success: 1 file_date_updated: 2026-07-16T09:17:08Z has_accepted_license: '1' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: '205' project: - _id: 7be609c4-9f16-11ee-852c-85015ce2b9b0 grant_number: '26777' name: Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches publication_identifier: isbn: - 978-3-99078-084-8 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '12675' relation: part_of_dissertation status: public - id: '21777' relation: part_of_dissertation status: public - id: '12114' relation: part_of_dissertation status: public - id: '22105' relation: part_of_dissertation status: public status: public supervisor: - first_name: Paul full_name: Schanda, Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 title: Exploring protein dynamics using specific labeling approaches for solid-state MAS NMR tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '22105' abstract: - lang: eng text: Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein–protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labelling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a crystal structure of a GB1 variant reported in this work, reproduce these elevated barriers and reveal how the crystal restrains motions. acknowledged_ssus: - _id: NMR - _id: LifeSc acknowledgement: We thank N. R. Skrynnikov and O. O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to T. Schubeis (Lyon) for advice on GB1 crystallization and R. Schmid for initial crystallization trials. We thank C. Mueller-Dieckmann for assistance with room-temperature X-ray crystallography data collection on beamline ID30B at the ESRF, which is acknowledged for providing beamtime through its In-House Research programme. We thank S. Falkner for assistance with constructing the structural model of the IgG:GB1 complex. We thank J. Lewandowski for providing feedback on the paper and granting access to backbone relaxation data of IgG:GB1T2Q and GB1T2Q microcrystals. This research was supported by the Scientific Service Units (SSU) of the Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank P. Rovó and M. V. Falcón for excellent support of the NMR facility. L.M.B. is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant number PR10660EAW01). C.C. acknowledges the European Research Council (grant project 101097272 ‘MilliInMicro’) and the Métropole du Grand Nancy (grant project ‘ARC’). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.Open access funding provided by Institute of Science and Technology (IST Austria). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Lea Marie full_name: Becker, Lea Marie id: 36336939-eb97-11eb-a6c2-c83f1214ca79 last_name: Becker orcid: 0000-0002-6401-5151 - first_name: Haohao full_name: Fu, Haohao last_name: Fu - first_name: Benjamin full_name: Tatman, Benjamin id: 71cda2f3-e604-11ee-a1df-da10587eda3f last_name: Tatman - first_name: Matthias full_name: Dreydoppel, Matthias last_name: Dreydoppel - first_name: Anna full_name: Kapitonova, Anna id: 9fb2a840-89e1-11ee-a8b7-cc5c7ba62471 last_name: Kapitonova - first_name: Daniel full_name: Balazs, Daniel id: 302BADF6-85FC-11EA-9E3B-B9493DDC885E last_name: Balazs orcid: 0000-0001-7597-043X - first_name: Ulrich full_name: Weininger, Ulrich last_name: Weininger - first_name: Sylvain full_name: Engilberge, Sylvain last_name: Engilberge - first_name: Christophe full_name: Chipot, Christophe last_name: Chipot - first_name: Paul full_name: Schanda, Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 citation: ama: Becker LM, Fu H, Tatman B, et al. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. 2026;18:1221-1230. doi:10.1038/s41557-026-02155-0 apa: Becker, L. M., Fu, H., Tatman, B., Dreydoppel, M., Kapitonova, A., Balazs, D., … Schanda, P. (2026). Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. Springer Nature. https://doi.org/10.1038/s41557-026-02155-0 chicago: Becker, Lea Marie, Haohao Fu, Benjamin Tatman, Matthias Dreydoppel, Anna Kapitonova, Daniel Balazs, Ulrich Weininger, Sylvain Engilberge, Christophe Chipot, and Paul Schanda. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Nature Chemistry. Springer Nature, 2026. https://doi.org/10.1038/s41557-026-02155-0. ieee: L. M. Becker et al., “Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes,” Nature Chemistry, vol. 18. Springer Nature, pp. 1221–1230, 2026. ista: Becker LM, Fu H, Tatman B, Dreydoppel M, Kapitonova A, Balazs D, Weininger U, Engilberge S, Chipot C, Schanda P. 2026. Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes. Nature Chemistry. 18, 1221–1230. mla: Becker, Lea Marie, et al. “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Nature Chemistry, vol. 18, Springer Nature, 2026, pp. 1221–30, doi:10.1038/s41557-026-02155-0. short: L.M. Becker, H. Fu, B. Tatman, M. Dreydoppel, A. Kapitonova, D. Balazs, U. Weininger, S. Engilberge, C. Chipot, P. Schanda, Nature Chemistry 18 (2026) 1221–1230. corr_author: '1' das_tickbox: '1' dataavailabilitystatement: The cryo and room-temperature crystal structures of GB1QDD are deposited at the PDB under the access codes 9I2I and 9T8Z, respectively. The solid-state NMR backbone assignment of GB1QDD is deposited at the BMRB under the access code 53330. NMR spectra, analysis scripts and raw data are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-20641)120. Files to reproduce the enhanced-sampling MD simulations are publicly available at the ISTA research explorer (https://doi.org/10.15479/AT-ISTA-21145)121. date_created: 2026-06-21T22:03:01Z date_published: 2026-07-01T00:00:00Z date_updated: 2026-07-28T06:59:16Z day: '01' ddc: - '540' department: - _id: PaSc - _id: LifeSc doi: 10.1038/s41557-026-02155-0 external_id: pmid: - '42271006' file: - access_level: open_access checksum: 1069fb27949fd2cb641b043b3a96a580 content_type: application/pdf creator: dernst date_created: 2026-07-28T06:58:35Z date_updated: 2026-07-28T06:58:35Z file_id: '22595' file_name: 2026_NatureChemistry_Becker.pdf file_size: 2618184 relation: main_file success: 1 file_date_updated: 2026-07-28T06:58:35Z has_accepted_license: '1' intvolume: ' 18' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: 1221-1230 pmid: 1 project: - _id: 7be609c4-9f16-11ee-852c-85015ce2b9b0 grant_number: '26777' name: Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches publication: Nature Chemistry publication_identifier: eissn: - '17554349' issn: - '17554330' publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '20641' relation: research_data status: public - id: '21145' relation: research_data status: public - id: '22334' relation: dissertation_contains status: public researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: Aromatic ring flips reveal reshaping of protein dynamics in crystals and complexes 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: '2026' ... --- OA_type: closed access _id: '21164' abstract: - lang: eng text: 'Global emission inventories often fail to capture the complexities of vehicular pollution in regions with unique fuel mixes, such as Brazil’s extensive biofuel use, leading to significant uncertainties in atmospheric modeling. This study presents a century-long (1960–2100) bottom-up vehicular emission inventory for Brazil, leveraging locally derived emission factors. Our estimates reveal substantial discrepancies in magnitude, timing, and speciation of non-CO2 pollutants (CO, NMHC, PM2.5) compared to leading global inventories (EDGAR, CEDS, CAMS), highlighting critical inaccuracies in widely used data sets. More critically, future projections under Shared Socioeconomic Pathways (SSPs) uncover a novel positive feedback mechanism: rising temperatures significantly enhance vehicular evaporative nonmethane hydrocarbon (NMHC) emissions. This temperature-dependent increase and subsequent NMHC oxidation to CO2 suggest an overlooked pathway that could amplify climate warming and air pollution globally, particularly after a breakpoint around 2050 (p < 0.05). While historical emissions peaked in the 1990s–2000s, nonexhaust PM becomes increasingly important. Air quality simulations using our inventory in the MUSICA model show good regional PM2.5 agreement but highlight challenges in resolving local primary pollutant peaks. This comprehensive inventory provides crucial data for Brazil and uncovers globally relevant climate–chemistry interactions, urging a re-evaluation of regional specificities in global emission assessments.' acknowledgement: Part of this material is based upon work supported by the NSF National Center for Atmospheric Research, which is a major facility sponsored by the National Science Foundation under Cooperative Agreement No. 1852977. Casallas was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement No. 101034413. E. D. Freitas thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 313210/2022–5). Silva gratefully acknowledges the financial support from the National Council for Scientific and Technological Development (CNPq), process number 140512/2021–7. P. Lichtig was supported by base funding from the National Commission for Atomic Energy (CNEA, Arg.) and by NSF NCAR. R.Y. Ynoue thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 406728/2022–4). M. A. Franco thanks the support provided by the National Council for Scientific and Technological Development (CNPq, Process number 407752/2023–4). G. M. Pereira thanks the support by the Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP; Process numbers 2018/07848–9, 2016/18438–0, and 2019/01316–80) and Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES; Process number 88887.103225/2025–00). M.F. Andrade thanks the support by FAPESP (Process number 2016/18438–0) and CNPQ (Klimapolis INCT). article_number: 5c08400 article_processing_charge: No article_type: original author: - first_name: Sergio full_name: Ibarra-Espinosa, Sergio last_name: Ibarra-Espinosa - first_name: Edmilson full_name: Dias de Freitas, Edmilson last_name: Dias de Freitas - first_name: Benjamin full_name: Gaubert, Benjamin last_name: Gaubert - first_name: Pablo full_name: Lichtig, Pablo last_name: Lichtig - first_name: Karl full_name: Ropkins, Karl last_name: Ropkins - first_name: Iara full_name: da Silva, Iara last_name: da Silva - first_name: Guilherme full_name: Martins Pereira, Guilherme last_name: Martins Pereira - first_name: Daniel full_name: Schuch, Daniel last_name: Schuch - first_name: Janaina full_name: Nascimento, Janaina last_name: Nascimento - first_name: Leonardo full_name: Hoinaski, Leonardo last_name: Hoinaski - first_name: Leila Droprinchinski full_name: Martins, Leila Droprinchinski last_name: Martins - first_name: Mario full_name: Gavidia-Calderón, Mario last_name: Gavidia-Calderón - first_name: Angel full_name: Vara-Vela, Angel last_name: Vara-Vela - first_name: Taciana full_name: Toledo de Almeida Albuquerque, Taciana last_name: Toledo de Almeida Albuquerque - first_name: Rita Yuri full_name: Ynoue, Rita Yuri last_name: Ynoue - first_name: Sebastian full_name: Diez, Sebastian last_name: Diez - first_name: Zamir full_name: Mera, Zamir last_name: Mera - first_name: Alejandro full_name: Casallas Garcia, Alejandro id: 92081129-2d75-11ef-a48d-b04dd7a2385a last_name: Casallas Garcia orcid: 0000-0002-1988-5035 - first_name: Fidel full_name: Vallejo, Fidel last_name: Vallejo - first_name: Valeria full_name: Diaz, Valeria last_name: Diaz - first_name: Rizzieri full_name: Pedruzzi, Rizzieri last_name: Pedruzzi - first_name: Rosana full_name: Abrutzky, Rosana last_name: Abrutzky - first_name: Marco A. full_name: Franco, Marco A. last_name: Franco - first_name: Nicolas full_name: Huneeus, Nicolas last_name: Huneeus - first_name: Hector full_name: Jorquera, Hector last_name: Jorquera - first_name: Luis Carlos full_name: Belalcázar-Cerón, Luis Carlos last_name: Belalcázar-Cerón - first_name: Néstor Y. full_name: Rojas, Néstor Y. last_name: Rojas - first_name: Maria full_name: de Fatima Andrade, Maria last_name: de Fatima Andrade - first_name: Louisa full_name: Emmons, Louisa last_name: Emmons - first_name: Guy full_name: Brasseur, Guy last_name: Brasseur citation: ama: 'Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, et al. A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. 2026;60(6). doi:10.1021/acs.est.5c08400' apa: 'Ibarra-Espinosa, S., Dias de Freitas, E., Gaubert, B., Lichtig, P., Ropkins, K., da Silva, I., … Brasseur, G. (2026). A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. American Chemical Society. https://doi.org/10.1021/acs.est.5c08400' chicago: 'Ibarra-Espinosa, Sergio, Edmilson Dias de Freitas, Benjamin Gaubert, Pablo Lichtig, Karl Ropkins, Iara da Silva, Guilherme Martins Pereira, et al. “A Century of Vehicular Emissions in Brazil: Unveiling the Impacts of Unique Fuel Mix on Air Quality.” Environmental Science &amp; Technology. American Chemical Society, 2026. https://doi.org/10.1021/acs.est.5c08400.' ieee: 'S. Ibarra-Espinosa et al., “A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality,” Environmental Science &amp; Technology, vol. 60, no. 6. American Chemical Society, 2026.' ista: 'Ibarra-Espinosa S, Dias de Freitas E, Gaubert B, Lichtig P, Ropkins K, da Silva I, Martins Pereira G, Schuch D, Nascimento J, Hoinaski L, Martins LD, Gavidia-Calderón M, Vara-Vela A, Toledo de Almeida Albuquerque T, Ynoue RY, Diez S, Mera Z, Casallas Garcia A, Vallejo F, Diaz V, Pedruzzi R, Abrutzky R, Franco MA, Huneeus N, Jorquera H, Belalcázar-Cerón LC, Rojas NY, de Fatima Andrade M, Emmons L, Brasseur G. 2026. A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality. Environmental Science &amp; Technology. 60(6), 5c08400.' mla: 'Ibarra-Espinosa, Sergio, et al. “A Century of Vehicular Emissions in Brazil: Unveiling the Impacts of Unique Fuel Mix on Air Quality.” Environmental Science &amp; Technology, vol. 60, no. 6, 5c08400, American Chemical Society, 2026, doi:10.1021/acs.est.5c08400.' short: S. Ibarra-Espinosa, E. Dias de Freitas, B. Gaubert, P. Lichtig, K. Ropkins, I. da Silva, G. Martins Pereira, D. Schuch, J. Nascimento, L. Hoinaski, L.D. Martins, M. Gavidia-Calderón, A. Vara-Vela, T. Toledo de Almeida Albuquerque, R.Y. Ynoue, S. Diez, Z. Mera, A. Casallas Garcia, F. Vallejo, V. Diaz, R. Pedruzzi, R. Abrutzky, M.A. Franco, N. Huneeus, H. Jorquera, L.C. Belalcázar-Cerón, N.Y. Rojas, M. de Fatima Andrade, L. Emmons, G. Brasseur, Environmental Science &amp; Technology 60 (2026). das_tickbox: '1' dataavailabilitystatement: Scripts available here https://github.com/ibarraespinosa/musica_vein and here https://github.com/atmoschem/vein. date_created: 2026-02-09T06:54:10Z date_published: 2026-02-17T00:00:00Z date_updated: 2026-07-28T07:03:54Z day: '17' ddc: - '550' department: - _id: CaMu doi: 10.1021/acs.est.5c08400 ec_funded: 1 external_id: pmid: - '41636708' has_accepted_license: '1' intvolume: ' 60' issue: '6' language: - iso: eng month: '02' oa_version: None pmid: 1 project: - _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c call_identifier: H2020 grant_number: '101034413' name: 'IST-BRIDGE: International postdoctoral program' publication: Environmental Science & Technology publication_identifier: eissn: - 1520-5851 issn: - 0013-936X publication_status: published publisher: American Chemical Society quality_controlled: '1' researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: 'A century of vehicular emissions in Brazil: Unveiling the impacts of unique fuel mix on air quality' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 60 year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20971' abstract: - lang: eng text: Mountain glaciers are among the natural systems most vulnerable to climate change. However, their interactions with the atmosphere are complex and not fully understood. These interactions can trigger rapid adjustments and climate feedbacks that either amplify or attenuate atmospheric signals, influencing both glacier response and large-scale atmospheric circulation. Observing this functional coupling in nature is challenging because the key processes occur over a wide range of spatial and temporal scales. However, recent advances in observational techniques and modeling have provided new insights into these interactions. In this review, we summarize the current state of knowledge on glacier-atmosphere interactions in high-mountain regions at different scales, and highlight recent advances in observational and numerical modeling. We also highlight important knowledge gaps and outline future research directions to improve the prediction of glacier change in a warming world. acknowledgement: This work is the result of collaboration and discussions within HEFEX II, and we are grateful to all colleagues who have contributed to and enriched these discussions in various ways. T. Sauter acknowledges funding from the German Research Foundation (DFG) (Grant 543257843). This research was funded in part by the Austrian Science Fund (FWF) (Grant https://doi.org/10.55776/P36624 and https://doi.org/10.55776/P36306) for which E. Collier and R. Prinz are grateful. A. R. Groos, T. E. Shaw, R. Mott and M. Haugeneder acknowledge Transnational Access from the European Union's H2020 project INTERACT III (Grant 871120) for participation in the HEFEX II campaign and working group. I. Stiperski (Grant Agreement No. 101001691) and A. R. Groos (Grant Agreement No. 948290) acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program. R. Mott acknowledges funding from the Swiss National Science Foundation (SNSF) (Grant 200021_219918). B. Goger is supported by EXCLAIM, a project funded by ETH Zurich. J.E. Sicart acknowledges LabEx OSUG@2020 (Investissements d'avenir - ANR10 LABX56) for participation in the HEFEX II campaign and working group. T. E. Shaw acknowledges funding from the EU Horizon 2020 Marie Skłodowska-Curie Grant 101026058 and 101034413. K. F. Haualand and T. Sauter are supported by the JOSTICE project funded by the Research Council of Norway (RCN Grant 302458). article_number: e2024RG000869 article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: T. full_name: Sauter, T. last_name: Sauter - first_name: B. W. full_name: Brock, B. W. last_name: Brock - first_name: E. full_name: Collier, E. last_name: Collier - first_name: B. full_name: Goger, B. last_name: Goger - first_name: A. R. full_name: Groos, A. R. last_name: Groos - first_name: K. F. full_name: Haualand, K. F. last_name: Haualand - first_name: R. full_name: Mott, R. last_name: Mott - first_name: L. full_name: Nicholson, L. last_name: Nicholson - first_name: R. full_name: Prinz, R. last_name: Prinz - first_name: Thomas full_name: Shaw, Thomas id: 3caa3f91-1f03-11ee-96ce-e0e553054d6e last_name: Shaw orcid: 0000-0001-7640-6152 - first_name: I. full_name: Stiperski, I. last_name: Stiperski - first_name: A. full_name: Georgi, A. last_name: Georgi - first_name: M. full_name: Haugeneder, M. last_name: Haugeneder - first_name: A. full_name: Mandal, A. last_name: Mandal - first_name: D. full_name: Reynolds, D. last_name: Reynolds - first_name: M. full_name: Saigger, M. last_name: Saigger - first_name: J. E. full_name: Sicart, J. E. last_name: Sicart - first_name: A. full_name: Voordendag, A. last_name: Voordendag citation: ama: Sauter T, Brock BW, Collier E, et al. Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. 2026;64(1). doi:10.1029/2024RG000869 apa: Sauter, T., Brock, B. W., Collier, E., Goger, B., Groos, A. R., Haualand, K. F., … Voordendag, A. (2026). Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. Wiley. https://doi.org/10.1029/2024RG000869 chicago: Sauter, T., B. W. Brock, E. Collier, B. Goger, A. R. Groos, K. F. Haualand, R. Mott, et al. “Glacier-Atmosphere Interactions and Feedbacks in High-Mountain Regions - A Review.” Reviews of Geophysics. Wiley, 2026. https://doi.org/10.1029/2024RG000869. ieee: T. Sauter et al., “Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review,” Reviews of Geophysics, vol. 64, no. 1. Wiley, 2026. ista: Sauter T, Brock BW, Collier E, Goger B, Groos AR, Haualand KF, Mott R, Nicholson L, Prinz R, Shaw T, Stiperski I, Georgi A, Haugeneder M, Mandal A, Reynolds D, Saigger M, Sicart JE, Voordendag A. 2026. Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review. Reviews of Geophysics. 64(1), e2024RG000869. mla: Sauter, T., et al. “Glacier-Atmosphere Interactions and Feedbacks in High-Mountain Regions - A Review.” Reviews of Geophysics, vol. 64, no. 1, e2024RG000869, Wiley, 2026, doi:10.1029/2024RG000869. short: T. Sauter, B.W. Brock, E. Collier, B. Goger, A.R. Groos, K.F. Haualand, R. Mott, L. Nicholson, R. Prinz, T. Shaw, I. Stiperski, A. Georgi, M. Haugeneder, A. Mandal, D. Reynolds, M. Saigger, J.E. Sicart, A. Voordendag, Reviews of Geophysics 64 (2026). das_tickbox: '1' dataavailabilitystatement: Data were not used, nor created for this research. Software (other than for typesetting) was not used for this research. date_created: 2026-01-11T23:01:33Z date_published: 2026-03-01T00:00:00Z date_updated: 2026-07-28T06:49:58Z day: '01' ddc: - '550' department: - _id: FrPe doi: 10.1029/2024RG000869 ec_funded: 1 file: - access_level: open_access checksum: 9d46167619be91210c45ee9e1f187395 content_type: application/pdf creator: dernst date_created: 2026-07-28T06:48:08Z date_updated: 2026-07-28T06:48:08Z file_id: '22594' file_name: 2026_ReviewsGeophysics_Sauter.pdf file_size: 3012737 relation: main_file success: 1 file_date_updated: 2026-07-28T06:48:08Z has_accepted_license: '1' intvolume: ' 64' issue: '1' language: - iso: eng month: '03' 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: Reviews of Geophysics publication_identifier: eissn: - 1944-9208 issn: - 8755-1209 publication_status: published publisher: Wiley quality_controlled: '1' researchdata_availability: no scopus_import: '1' status: public supplementarymaterial: no title: Glacier-atmosphere interactions and feedbacks in high-mountain regions - A review 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: 64 year: '2026' ... --- _id: '21145' abstract: - lang: eng text: 'Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein-protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labeling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a new crystal structure, reproduce these elevated barriers and reveal how the crystal restrains motions. ' acknowledged_ssus: - _id: NMR - _id: LifeSc acknowledgement: "We thank Nikolai R. Skrynnikov and Olga O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to Tobias Schubeis (Lyon) for advice with GB1 crystallization, and Rebecca Schmid for initial crystallization trials.\r\nWe thank Sebastian Falkner for assistance with constructing the structural model of the IgG:GB1 complex.\r\nThis research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank Petra Rovó and Margarita Valhondo Falcón for excellent support of the NMR facility.\r\nLea M. Becker is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01). Christophe Chipot acknowledges the European Research Council (grant project 101097272 ``MilliInMicro'') and the Métropole du Grand Nancy (grant project ``ARC''). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011." article_processing_charge: No author: - first_name: Lea Marie full_name: Becker, Lea Marie id: 36336939-eb97-11eb-a6c2-c83f1214ca79 last_name: Becker orcid: 0000-0002-6401-5151 - first_name: Paul full_name: Schanda, Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 - first_name: Christophe full_name: Chipot, Christophe last_name: Chipot citation: ama: Becker LM, Schanda P, Chipot C. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” 2026. doi:10.15479/AT-ISTA-21145 apa: Becker, L. M., Schanda, P., & Chipot, C. (2026). Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21145 chicago: Becker, Lea Marie, Paul Schanda, and Christophe Chipot. “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21145. ieee: L. M. Becker, P. Schanda, and C. Chipot, “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026. ista: Becker LM, Schanda P, Chipot C. 2026. Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes’, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21145. mla: Becker, Lea Marie, et al. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21145. short: L.M. Becker, P. Schanda, C. Chipot, (2026). contributor: - contributor_type: researcher first_name: Haohao last_name: Fu - contributor_type: researcher first_name: Benjamin id: 71cda2f3-e604-11ee-a1df-da10587eda3f last_name: Tatman - contributor_type: researcher first_name: Matthias last_name: Dreydoppel - contributor_type: researcher first_name: Anna id: 9fb2a840-89e1-11ee-a8b7-cc5c7ba62471 last_name: Kapitonova - contributor_type: researcher first_name: Daniel id: 302BADF6-85FC-11EA-9E3B-B9493DDC885E last_name: Balazs orcid: 0000-0001-7597-043X - contributor_type: researcher first_name: Ulrich last_name: Weininger - contributor_type: researcher first_name: Sylvain last_name: Engilberge corr_author: '1' date_created: 2026-02-05T13:54:39Z date_published: 2026-02-09T00:00:00Z date_updated: 2026-07-28T06:59:15Z day: '09' ddc: - '572' department: - _id: GradSch - _id: PaSc doi: 10.15479/AT-ISTA-21145 file: - access_level: open_access checksum: 02a419cce8cea450bc952f35488d2df5 content_type: text/plain creator: lbecker date_created: 2026-02-05T13:52:37Z date_updated: 2026-02-05T13:52:37Z file_id: '21146' file_name: README.txt file_size: 4263 relation: table_of_contents - access_level: open_access checksum: b0b82b1aa73985b0b308a3fa52d21aea content_type: application/zip creator: lbecker date_created: 2026-02-05T13:52:41Z date_updated: 2026-02-05T13:52:41Z file_id: '21147' file_name: Research_Data.zip file_size: 50647107 relation: main_file success: 1 file_date_updated: 2026-02-05T13:52:41Z has_accepted_license: '1' month: '02' oa: 1 oa_version: Published Version project: - _id: 7be609c4-9f16-11ee-852c-85015ce2b9b0 grant_number: '26777' name: Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches publisher: Institute of Science and Technology Austria related_material: record: - id: '20641' relation: earlier_version status: public - id: '22105' relation: used_in_publication status: public status: public title: Additional Data for "Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes" 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: research_data user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2026' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20935' abstract: - lang: eng text: In situ cryo-electron tomography (cryo-ET) has emerged as the method of choice to investigate the structures of biomolecules in their native context. However, challenges remain for the efficient production and sharing of large-scale cryo-ET datasets. Here, we combined cryogenic plasma-based focused ion beam (cryo-PFIB) milling with recent advances in cryo-ET acquisition and processing to generate a dataset of 1,829 annotated tomograms of the green alga Chlamydomonas reinhardtii, which we provide as a community resource to drive method development and inspire biological discovery. To assay data quality, we performed subtomogram averaging of both soluble and membrane-bound complexes ranging in size from >3 MDa to ∼200 kDa, including 80S ribosomes, Rubisco, nucleosomes, microtubules, clathrin, photosystem II, and mitochondrial ATP synthase. The majority of these density maps reached sub-nanometer resolution, demonstrating the potential of this C. reinhardtii dataset as well as the promise of modern cryo-ET workflows and open data sharing to empower visual proteomics. acknowledgement: Calculations were performed at the Max Planck Institute of Biochemistry and the Raven Supercomputer of the Max Planck Computing and Data Facility (MPCDF) in Garching, Germany; at the sciCORE (http://scicore.unibas.ch/) scientific computing center at the University of Basel, Switzerland; and at Thermo Fisher Scientific, in Eindhoven, the Netherlands. This work was supported by Thermo Fisher Scientific. All lamella preparations and tilt-series collections used in this work were conducted at Thermo Fisher R&D facilities in Brno and Eindhoven, utilizing Arctis and Krios microscopes. This work was also supported by the ERC consolidator grant “cryOcean” (fulfilled by the Swiss State Secretariat for Education, Research and Innovation, M822.00045) as well as a Swiss Nanoscience Institute PhD school grant to B.D.E. and P.V.d.S., an EMBO long-term postdoctoral fellowship (ALTF-383-2022) to G.T., an SNSF Postdoctoral Fellowship (project 210561) to F.W., a Boehringer Ingelheim Fonds fellowship to L.L., and by the Max Planck Society to J.A.G.B. and J.M.P. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Ron full_name: Kelley, Ron last_name: Kelley - first_name: Sagar full_name: Khavnekar, Sagar last_name: Khavnekar - first_name: Ricardo D. full_name: Righetto, Ricardo D. last_name: Righetto - first_name: Jessica full_name: Heebner, Jessica last_name: Heebner - first_name: Martin full_name: Obr, Martin id: 4741CA5A-F248-11E8-B48F-1D18A9856A87 last_name: Obr orcid: 0000-0003-1756-6564 - first_name: Xianjun full_name: Zhang, Xianjun last_name: Zhang - first_name: Saikat full_name: Chakraborty, Saikat last_name: Chakraborty - first_name: Grigory full_name: Tagiltsev, Grigory last_name: Tagiltsev - first_name: Alicia full_name: Michael, Alicia id: 6437c950-2a03-11ee-914d-d6476dd7b75c last_name: Michael orcid: 0000-0002-6080-839X - first_name: Sofie full_name: Van Dorst, Sofie last_name: Van Dorst - first_name: Florent full_name: Waltz, Florent last_name: Waltz - first_name: Caitlyn L. full_name: Mccafferty, Caitlyn L. last_name: Mccafferty - first_name: Lorenz full_name: Lamm, Lorenz last_name: Lamm - first_name: Simon full_name: Zufferey, Simon last_name: Zufferey - first_name: Philippe full_name: Van Der Stappen, Philippe last_name: Van Der Stappen - first_name: Hugo full_name: Van Den Hoek, Hugo last_name: Van Den Hoek - first_name: Wojciech full_name: Wietrzynski, Wojciech last_name: Wietrzynski - first_name: Pavol full_name: Harar, Pavol id: e03d953a-6e8c-11ef-99e4-f0717d385cd5 last_name: Harar orcid: 0000-0001-5206-1794 - first_name: William full_name: Wan, William last_name: Wan - first_name: John A.G. full_name: Briggs, John A.G. last_name: Briggs - first_name: Jürgen M. full_name: Plitzko, Jürgen M. last_name: Plitzko - first_name: Benjamin D. full_name: Engel, Benjamin D. last_name: Engel - first_name: Abhay full_name: Kotecha, Abhay last_name: Kotecha citation: ama: Kelley R, Khavnekar S, Righetto RD, et al. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 2026;86(1):213-230.e7. doi:10.1016/j.molcel.2025.11.029 apa: Kelley, R., Khavnekar, S., Righetto, R. D., Heebner, J., Obr, M., Zhang, X., … Kotecha, A. (2026). Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. Elsevier. https://doi.org/10.1016/j.molcel.2025.11.029 chicago: Kelley, Ron, Sagar Khavnekar, Ricardo D. Righetto, Jessica Heebner, Martin Obr, Xianjun Zhang, Saikat Chakraborty, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell. Elsevier, 2026. https://doi.org/10.1016/j.molcel.2025.11.029. ieee: R. Kelley et al., “Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii,” Molecular Cell, vol. 86, no. 1. Elsevier, p. 213–230.e7, 2026. ista: Kelley R, Khavnekar S, Righetto RD, Heebner J, Obr M, Zhang X, Chakraborty S, Tagiltsev G, Michael AK, Van Dorst S, Waltz F, Mccafferty CL, Lamm L, Zufferey S, Van Der Stappen P, Van Den Hoek H, Wietrzynski W, Harar P, Wan W, Briggs JAG, Plitzko JM, Engel BD, Kotecha A. 2026. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 86(1), 213–230.e7. mla: Kelley, Ron, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell, vol. 86, no. 1, Elsevier, 2026, p. 213–230.e7, doi:10.1016/j.molcel.2025.11.029. short: R. Kelley, S. Khavnekar, R.D. Righetto, J. Heebner, M. Obr, X. Zhang, S. Chakraborty, G. Tagiltsev, A.K. Michael, S. Van Dorst, F. Waltz, C.L. Mccafferty, L. Lamm, S. Zufferey, P. Van Der Stappen, H. Van Den Hoek, W. Wietrzynski, P. Harar, W. Wan, J.A.G. Briggs, J.M. Plitzko, B.D. Engel, A. Kotecha, Molecular Cell 86 (2026) 213–230.e7. das_tickbox: '1' dataavailabilitystatement: "Raw EM data are available at the EMPIAR under accession code EMPIAR: EMPIAR-11830. Annotation and processing information for all 1,829 tomograms are provided in spreadsheet format.153 The following subtomogram averages have been deposited at the Electron Microscopy Data Bank (EMDB): 80S ribosome (EMDB: EMD-51847), nucleosome (EMDB: EMD-19906), PSII (EMDB: EMD-51731), Rubisco (EMDB: EMD-51848), microtubule (EMDB: EMD-51804), clathrin (EMDB: EMD-51789), and ATP synthase (EMDB: EMD-51802). Segmentations shown in Figures 2 and 3 are deposited on Zenodo (https://doi.org/10.5281/zenodo.15875785). Particle positions and orientations used for STA, along with all resources derived from this work, are available on GitHub (https://github.com/Chromatin-Structure-Rhythms-Lab/ChlamyAnnotations). Reconstructed tomograms and annotations are also available to explore interactively at the CZII Cryo-ET Data Portal (DS-10302, https://cryoetdataportal.czscience.com/datasets/10302/). Raw data for cryo-PFIB/SEM slice-and-view of a whole C. reinhardtii cell has also been deposited (EMPIAR: EMPIAR-11275).\r\n\r\nThis paper does not report original code.\r\n\r\nAny additional information required to reanalyze the data reported in this paper is available from the lead contact upon request." date_created: 2026-01-04T23:01:36Z date_published: 2026-01-08T00:00:00Z date_updated: 2026-07-28T07:39:23Z day: '08' ddc: - '570' department: - _id: AlMi doi: 10.1016/j.molcel.2025.11.029 file: - access_level: open_access checksum: 96a2f8519124d1a0d9de8d2594bf7147 content_type: application/pdf creator: dernst date_created: 2026-07-28T07:38:45Z date_updated: 2026-07-28T07:38:45Z file_id: '22599' file_name: 2026_MolecularCell_Kelley.pdf file_size: 26749637 relation: main_file success: 1 file_date_updated: 2026-07-28T07:38:45Z has_accepted_license: '1' intvolume: ' 86' issue: '1' language: - iso: eng month: '01' oa: 1 oa_version: Published Version page: 213-230.e7 publication: Molecular Cell publication_identifier: eissn: - 1097-4164 issn: - 1097-2765 publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii 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: 86 year: '2026' ... --- OA_place: repository OA_type: green _id: '20858' abstract: - lang: eng text: Targeted antigen delivery to immune cells, particularly dendritic cells, has emerged as a promising strategy to enhance therapeutic efficacy of vaccines, while minimizing adverse effects associated with conventional immunization. In this study, we use our previously described small glycomimetic molecule that is selectively recognized by the Langerhans cell (LC)-specific surface receptor Langerin and demonstrate specific delivery of protein antigens to these specialized dendritic cells. Our results show that Langerin-mediated antigen delivery significantly enhances the immune response in vivo, resulting in increased expansion and activation of antigen-specific T cells, compared to immunization with unmodified antigen. We demonstrate the feasibility of our LC-targeted platform for immune cell-specific immunization with protein antigen and underscore the potential of LCs as an access point for next-generation vaccines and immunotherapies. acknowledgement: This project was generously supported by Seedfinancing (grant no. P2282679) of the Austrian Bundesministerium für Digitalisierung und Wirtschaftsstandort and the Bundesministerium für Klimaschutz, Umwelt, Energie, Mobilität, Innovation, und Technologie, handled by the Austrian Wirtschaftsservice (aws), as well as by Life Science Call 2022 (grant no. FO999896442) of the Austrian Research Promotion Agency (FFG). We thank Mag. Michael Schunn from the PCF of the Institute of Science and Technology Austria for his continuous technical support. article_processing_charge: No article_type: original author: - first_name: Ramona full_name: Rica, Ramona last_name: Rica - first_name: Klara full_name: Klein, Klara last_name: Klein - first_name: Litty full_name: Johnson, Litty last_name: Johnson - first_name: Gabriele full_name: Carta, Gabriele last_name: Carta - first_name: Mirza full_name: Sarcevic, Mirza last_name: Sarcevic - first_name: Freyja full_name: Langer, Freyja id: 3C1BE782-F248-11E8-B48F-1D18A9856A87 last_name: Langer - first_name: Christoph full_name: Rademacher, Christoph last_name: Rademacher - first_name: Robert full_name: Wawrzinek, Robert last_name: Wawrzinek - first_name: Federica full_name: Quattrone, Federica last_name: Quattrone - first_name: Florian full_name: Sparber, Florian last_name: Sparber biorxivid: 1 citation: ama: Rica R, Klein K, Johnson L, et al. Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. 2026;34(1):397-406. doi:10.1016/j.ymthe.2025.10.008 apa: Rica, R., Klein, K., Johnson, L., Carta, G., Sarcevic, M., Langer, F., … Sparber, F. (2026). Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. Elsevier. https://doi.org/10.1016/j.ymthe.2025.10.008 chicago: Rica, Ramona, Klara Klein, Litty Johnson, Gabriele Carta, Mirza Sarcevic, Freyja Langer, Christoph Rademacher, Robert Wawrzinek, Federica Quattrone, and Florian Sparber. “Langerhans Cell-Targeted Protein Delivery Enhances Antigen-Specific Cellular Immune Response.” Molecular Therapy. Elsevier, 2026. https://doi.org/10.1016/j.ymthe.2025.10.008. ieee: R. Rica et al., “Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response,” Molecular Therapy, vol. 34, no. 1. Elsevier, pp. 397–406, 2026. ista: Rica R, Klein K, Johnson L, Carta G, Sarcevic M, Langer F, Rademacher C, Wawrzinek R, Quattrone F, Sparber F. 2026. Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response. Molecular Therapy. 34(1), 397–406. mla: Rica, Ramona, et al. “Langerhans Cell-Targeted Protein Delivery Enhances Antigen-Specific Cellular Immune Response.” Molecular Therapy, vol. 34, no. 1, Elsevier, 2026, pp. 397–406, doi:10.1016/j.ymthe.2025.10.008. short: R. Rica, K. Klein, L. Johnson, G. Carta, M. Sarcevic, F. Langer, C. Rademacher, R. Wawrzinek, F. Quattrone, F. Sparber, Molecular Therapy 34 (2026) 397–406. dataavailabilitystatement: The data that support the findings of this study are available on request from the corresponding authors. date_created: 2025-12-28T23:01:26Z date_published: 2026-01-07T00:00:00Z date_updated: 2026-07-28T07:37:08Z day: '07' department: - _id: PreCl doi: 10.1016/j.ymthe.2025.10.008 external_id: biorxivid: - 10.1101/2025.05.05.652195 intvolume: ' 34' issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1101/2025.05.05.652195 month: '01' oa: 1 oa_version: Preprint page: 397-406 publication: Molecular Therapy publication_identifier: eissn: - 1525-0024 issn: - 1525-0016 publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: upon request scopus_import: '1' status: public supplementarymaterial: yes title: Langerhans cell-targeted protein delivery enhances antigen-specific cellular immune response type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2026' ... --- OA_type: closed access _id: '20537' abstract: - lang: eng text: In this personal account, I describe the work performed in my research group on the development of methods that harness heterogeneous photocatalysts for light-mediated nickel-catalyzed cross-couplings. This includes catalytic systems using carbon nitride materials, dye-sensitized TiO₂, covalent organic frameworks (COFs), and conjugated polymers. The rationale behind the selection of materials and how their use led to the identification of catalyst deactivation, structure–activity relationships, and future opportunities is discussed. article_processing_charge: No article_type: original author: - first_name: Bartholomäus full_name: Pieber, Bartholomäus id: 93e5e5b2-0da6-11ed-8a41-af589a024726 last_name: Pieber orcid: 0000-0001-8689-388X citation: ama: Pieber B. Photochemical cross-couplings using semiconducting materials. Synlett. 2026;37(1):43-54. doi:10.1055/a-2690-9269 apa: Pieber, B. (2026). Photochemical cross-couplings using semiconducting materials. Synlett. Georg Thieme Verlag. https://doi.org/10.1055/a-2690-9269 chicago: Pieber, Bartholomäus. “Photochemical Cross-Couplings Using Semiconducting Materials.” Synlett. Georg Thieme Verlag, 2026. https://doi.org/10.1055/a-2690-9269. ieee: B. Pieber, “Photochemical cross-couplings using semiconducting materials,” Synlett, vol. 37, no. 1. Georg Thieme Verlag, pp. 43–54, 2026. ista: Pieber B. 2026. Photochemical cross-couplings using semiconducting materials. Synlett. 37(1), 43–54. mla: Pieber, Bartholomäus. “Photochemical Cross-Couplings Using Semiconducting Materials.” Synlett, vol. 37, no. 1, Georg Thieme Verlag, 2026, pp. 43–54, doi:10.1055/a-2690-9269. short: B. Pieber, Synlett 37 (2026) 43–54. corr_author: '1' das_tickbox: '1' date_created: 2025-10-26T23:01:35Z date_published: 2026-01-01T00:00:00Z date_updated: 2026-07-28T07:42:47Z day: '01' department: - _id: BaPi doi: 10.1055/a-2690-9269 external_id: isi: - '001582268500001' intvolume: ' 37' isi: 1 issue: '1' language: - iso: eng month: '01' oa_version: None page: 43-54 publication: Synlett publication_identifier: eissn: - 1437-2096 issn: - 0936-5214 publication_status: published publisher: Georg Thieme Verlag quality_controlled: '1' scopus_import: '1' status: public title: Photochemical cross-couplings using semiconducting materials type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 37 year: '2026' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '21987' abstract: - lang: eng text: 'We introduce JODIE, a genetic joint modeling approach that estimates how DNA loci influence human traits by partitioning genetic effects into four components: direct effects (from a child’s alleles), indirect maternal and paternal effects (from parents’ alleles), and parent-of-origin (PofO) effects (dependent on parental transmission of alleles), while uniquely accounting for assortative mating. We analyze 30,000 child-mother-father trios from the Estonian Biobank and the Norwegian Mother, Father, and Child Cohort, focusing on height, body mass index, and childhood educational test scores. We find direct effects to be the largest contributor to trait variation, but combined, indirect parental and PofO effects are similarly substantial. We support our results by within-family genome-wide association testing and identify 276 independently associated DNA regions with a complex interplay between direct, indirect, and PofO effects. By joint modeling, we show that direct, indirect, and PofO effects collectively shape human phenotypic variation across loci genome-wide.' acknowledged_ssus: - _id: ScienComp acknowledgement: "We thank Zoltan Kutalik, Peter Visscher, and members of the Robinson group at ISTA for their comments, which improved this manuscript. This work was funded by an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181) and by core funding from the Institute of Science and Technology Austria.\r\nThe Norwegian Mother, Father, and Child Cohort Study is supported by the Norwegian Ministry of Health and Care Services and the Ministry of Education and Research. We are grateful to all the participating families in Norway who take part in this on-going cohort study. We thank the Norwegian Institute of Public Health (NIPH) for generating high-quality genomic data. The research is part of the HARVEST collaboration, supported by the Research Council of Norway (#229624). We also thank the NORMENT Center for providing genotype data, funded by the Research Council of Norway (#223273), South East Norway Health Authorities, and Stiftelsen Kristian Gerhard Jebsen, and in collaboration with deCODE Genetics. We further thank the Center for Diabetes Research, the University of Bergen for providing genotype data funded by the ERC AdG project SELECTionPREDISPOSED, Stiftelsen Kristian Gerhard Jebsen, Trond Mohn Foundation, the Research Council of Norway, the Novo Nordisk Foundation, the University of Bergen, and the Western Norway Health Authorities. The MoBa work was performed on the TSD (Tjeneste for Sensitive Data) facilities, owned by the University of Oslo, operated and developed by the TSD service group at the University of Oslo, IT Department (USIT, tsd-drift@usit.uio.no). E.Y. is supported by the European Union (grant numbers 101045526 and 101073237) and the Research Council of Norway (grant numbers 336078, 288083, and 331640).\r\nWe would like to acknowledge the participants and investigators of the Generation Scotland Cohort study. Generation Scotland received core support from the Chief Scientist Office of the Scottish Government Health Directorates (CZD/16/6) and the Scottish Funding Council (HR03006). Genotyping and methylation typing of the GS:SFHS samples was carried out by the Genetics Core Laboratory at the Wellcome Trust Clinical Research Facility, Edinburgh, Scotland and was funded by the Medical Research Council UK and the Wellcome Trust (Wellcome Trust Strategic Award “STratifying Resilience and Depression Longitudinally” [STRADL] ref. 104036/Z/14/Z).\r\nWe would like to thank and acknowledge the participants and investigators of the Estonian Biobank (EstBB) study. The research was conducted using the Estonian Center of Genomics/Roadmap II funded by the Estonian Research Council (project number TT17).\r\nNorwegian analyses were performed on resources provided by Sigma2 - the National Infrastructure for High-Performance Computing and Data Storage in Norway. Estonian Data analysis was carried out in the High-Performance Computing Center cloud provided by University of Tartu. Analysis of the Generation Scotland data and the summary statistics obtained from the other analyses was conducted at IST Austria and is supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp)." article_number: '101277' article_processing_charge: Yes article_type: original author: - first_name: Ilse full_name: Krätschmer, Ilse id: 30d4014e-7753-11eb-b44b-db6d61112e73 last_name: Krätschmer orcid: 0000-0002-5636-9259 - first_name: Laura full_name: Hegemann, Laura last_name: Hegemann - first_name: Robin J. full_name: Hofmeister, Robin J. last_name: Hofmeister - first_name: Elizabeth C. full_name: Corfield, Elizabeth C. last_name: Corfield - first_name: Mahdi full_name: Mahmoudi, Mahdi last_name: Mahmoudi - first_name: Olivier full_name: Delaneau, Olivier last_name: Delaneau - first_name: Ole A. full_name: Andreassen, Ole A. last_name: Andreassen - first_name: Archie full_name: Campbell, Archie last_name: Campbell - first_name: Caroline full_name: Hayward, Caroline last_name: Hayward - first_name: Riccardo E. full_name: Marioni, Riccardo E. last_name: Marioni - first_name: Eivind full_name: Ystrom, Eivind last_name: Ystrom - first_name: Alexandra full_name: Havdahl, Alexandra last_name: Havdahl - first_name: Matthew Richard full_name: Robinson, Matthew Richard id: E5D42276-F5DA-11E9-8E24-6303E6697425 last_name: Robinson orcid: 0000-0001-8982-8813 citation: ama: Krätschmer I, Hegemann L, Hofmeister RJ, et al. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 2026;6(7). doi:10.1016/j.xgen.2026.101277 apa: Krätschmer, I., Hegemann, L., Hofmeister, R. J., Corfield, E. C., Mahmoudi, M., Delaneau, O., … Robinson, M. R. (2026). Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. Elsevier. https://doi.org/10.1016/j.xgen.2026.101277 chicago: Krätschmer, Ilse, Laura Hegemann, Robin J. Hofmeister, Elizabeth C. Corfield, Mahdi Mahmoudi, Olivier Delaneau, Ole A. Andreassen, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics. Elsevier, 2026. https://doi.org/10.1016/j.xgen.2026.101277. ieee: I. Krätschmer et al., “Separating direct, indirect, and parent-of-origin genetic effects in the human population,” Cell Genomics, vol. 6, no. 7. Elsevier, 2026. ista: Krätschmer I, Hegemann L, Hofmeister RJ, Corfield EC, Mahmoudi M, Delaneau O, Andreassen OA, Campbell A, Hayward C, Marioni RE, Ystrom E, Havdahl A, Robinson MR. 2026. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 6(7), 101277. mla: Krätschmer, Ilse, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics, vol. 6, no. 7, 101277, Elsevier, 2026, doi:10.1016/j.xgen.2026.101277. short: I. Krätschmer, L. Hegemann, R.J. Hofmeister, E.C. Corfield, M. Mahmoudi, O. Delaneau, O.A. Andreassen, A. Campbell, C. Hayward, R.E. Marioni, E. Ystrom, A. Havdahl, M.R. Robinson, Cell Genomics 6 (2026). corr_author: '1' das_tickbox: '1' dataavailabilitystatement: "Information on how to access the MoBaPsychGen post-imputation QC data are available here: https://www.fhi.no/en/me/the-psychgen-centre-for-genetic-epidemiology-and-mental-health/access-to-genetic-data-after-quality-control-by-the-mobapsychgen-pipeline-v/.\r\nEstonian Biobank data (https://genomics.ut.ee/en/content/estonian-biobank) were used in this project. For access to be granted to the Estonian Biobank genotypic and corresponding phenotypic data, a preliminary application must be presented to the oversight committee, who must first approve the project. Ethics permission must then be obtained from the Estonian Committee on Bioethics and Human Research. Finally, a full project must be submitted and approved by the Estonian Biobank.\r\nAccess to the Generation Scotland data is available with appropriate permission from the Generation Scotland Access Committee. Applications should be made to access@generationscotland.org (https://genscot.ed.ac.uk/).\r\nThe code for JODIE developed in this work is open source and is publicly available on zenodo (https://doi.org/10.5281/zenodo.19593928) and GitHub (https://github.com/medical-genomics-group/JODIE).\r\nHaplotype Reference Consortium Release 1.1 data (https://ega-archive.org/datasets/EGAD00001002729) are available by application to a Data Access Committee (DAC) of the Wellcome Trust Sanger Institute.\r\nThe Common Metabolic Diseases Atlas can be accessed here: https://cmdga.org." date_created: 2026-06-10T07:39:08Z date_published: 2026-07-08T00:00:00Z date_updated: 2026-07-28T07:27:01Z day: '08' ddc: - '570' department: - _id: MaRo doi: 10.1016/j.xgen.2026.101277 external_id: pmid: - '40909755' file: - access_level: open_access checksum: f896b510480d2d4e4a7fd46c2e2761f4 content_type: application/pdf creator: dernst date_created: 2026-07-28T07:24:50Z date_updated: 2026-07-28T07:24:50Z file_id: '22597' file_name: 2026_CellGenomics_Kraetschmer.pdf file_size: 3679297 relation: main_file success: 1 file_date_updated: 2026-07-28T07:24:50Z has_accepted_license: '1' intvolume: ' 6' issue: '7' keyword: - direct genetic effects - DGE - indirect genetic effects - IGE - parent-of-origin effects - phenotypic variation - assortative mating - within-family GWAS - MoBa - EstBB language: - iso: eng month: '07' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 9B8D11D6-BA93-11EA-9121-9846C619BF3A grant_number: PCEGP3_181181 name: Improving estimation and prediction of common complex disease risk publication: Cell Genomics publication_identifier: eissn: - 2666-979X publication_status: published publisher: Elsevier quality_controlled: '1' researchdata_availability: yes scopus_import: '1' status: public supplementarymaterial: yes title: Separating direct, indirect, and parent-of-origin genetic effects in the human population tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6 year: '2026' ... --- OA_place: publisher _id: '22258' abstract: - lang: eng text: "Uncovering the genetic architecture of complex traits and pinpointing causal molecular drivers require the ability to distinguish true signals from noise within massive, high-dimensional omics datasets. To extract meaningful biological insights from these datasets, such as identifying causal genetic variants and proteins, scalable and accurate inference methods are essential. To this end, this thesis develops novel Bayesian inference frameworks based on Vector Approximate Message Passing and demonstrates their effectiveness in the modeling of disease onset times and quantitative physical and clinical measures.\r\n\r\nFirst, we introduce gVAMP, a Bayesian framework tailored for Genome-Wide Association Studies that enables the joint modeling of quantitative complex traits across millions of genetic variants. gVAMP demonstrates superior accuracy in variable selection and out-of-sample polygenic risk prediction compared to state-of-the-art approaches. We model human height using 17 million whole-genome sequence variants from the UK Biobank, incorporating a vast number of rare variants and revealing novel associations. gVAMP achieves a prediction accuracy of approximately 46% for human height, representing the highest reported performance for this trait to date. \r\n\r\nSecond, we present vampW, a Bayesian framework for survival analysis applied to proteomic data. By effectively handling right-censoring and complex protein dependencies within the UK Biobank Pharma Proteomics Project dataset, vampW identifies 219 protein associations across 24 disease outcomes, the majority of which are not among the top marginal discoveries. We further adjust protein levels for exponential age effects, yielding 1,308 associations and highlighting the sensitivity of the analysis to the chosen age-correction methodology. Finally, vampW improves upon the variable selection capabilities of the commonly used (penalized) variants of the Cox proportional hazards model and delivers state-of-the-art out-of-sample prediction of disease onset times.\r\n\r\nCollectively, these methods provide powerful tools for dissecting the genetic architecture of complex traits and the proteomic drivers of disease onset. Furthermore, by delivering accurate polygenic risk scores and precise predictions of onset times, this work advances the capabilities of personalized medicine and clinical risk stratification." acknowledged_ssus: - _id: ScienComp acknowledgement: "This work was supported in part by the Swiss National Science Foundation through the\r\nEccellenza Grant \"Improving estimation and prediction of common complex disease risk\"\r\n(grant number PCEGP3_181181); the European Research Council through the grant\r\n\"Inference in High Dimensions: Light-speed Algorithms and Information Limits\" (grant\r\nnumber 101161364); and the Fondation Jean-Jacques et Felicia Lopez-Loreta through the\r\nPrix Lopez-Loretta 2019.\r\n" alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Al full_name: Depope, Al id: 0b77531d-dbcd-11ea-9d1d-a8eee0bf3830 last_name: Depope citation: ama: 'Depope A. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. 2026. doi:10.15479/AT-ISTA-22258' apa: 'Depope, A. (2026). From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22258' chicago: 'Depope, Al. “From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22258.' ieee: 'A. Depope, “From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics,” Institute of Science and Technology Austria, 2026.' ista: 'Depope A. 2026. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria.' mla: 'Depope, Al. From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22258.' short: 'A. Depope, From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics, Institute of Science and Technology Austria, 2026.' corr_author: '1' das_tickbox: '1' date_created: 2026-07-10T13:27:20Z date_published: 2026-07-11T00:00:00Z date_updated: 2026-07-28T07:08:15Z day: '11' ddc: - '576' - '610' - '006' degree_awarded: PhD department: - _id: GradSch - _id: MaRo - _id: MaMo doi: 10.15479/AT-ISTA-22258 doi_confirm: '1' file: - access_level: open_access checksum: 9ab386790515628d957a194f30a7ccb4 content_type: application/pdf creator: adepope date_created: 2026-07-13T14:52:19Z date_updated: 2026-07-13T14:52:19Z file_id: '22316' file_name: 2026_Depope_Al_Thesis.pdf file_size: 25109878 relation: main_file - access_level: closed checksum: 8ed8fb63f76a695d5b6fec35343f4b90 content_type: application/zip creator: adepope date_created: 2026-07-13T14:56:41Z date_updated: 2026-07-13T14:56:41Z file_id: '22317' file_name: 2026_Depope_Al_Thesis.zip file_size: 1203199939 relation: source_file file_date_updated: 2026-07-13T14:56:41Z has_accepted_license: '1' keyword: - Approximate Message Passing - GWAS - Genomics - Proteomics - Survival modeling language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: '169' project: - _id: 059876FA-7A3F-11EA-A408-12923DDC885E name: Prix Lopez-Loretta 2019 - Marco Mondelli - _id: 911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf grant_number: '101161364' name: 'Inference in High Dimensions: Light-speed Algorithms and Information Limits' - _id: 9B8D11D6-BA93-11EA-9121-9846C619BF3A grant_number: PCEGP3_181181 name: Improving estimation and prediction of common complex disease risk publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '21488' relation: part_of_dissertation status: public status: public supervisor: - first_name: Matthew Richard full_name: Robinson, Matthew Richard id: E5D42276-F5DA-11E9-8E24-6303E6697425 last_name: Robinson orcid: 0000-0001-8982-8813 - first_name: Marco full_name: Mondelli, Marco id: 27EB676C-8706-11E9-9510-7717E6697425 last_name: Mondelli orcid: 0000-0002-3242-7020 title: 'From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics' type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2026' ...