[{"publication_identifier":{"issn":["0004-637X","1538-4357"]},"date_published":"2024-02-08T00:00:00Z","doi":"10.3847/1538-4357/ad1a17","month":"02","main_file_link":[{"url":"https://doi.org/10.3847/1538-4357/ad1a17","open_access":"1"}],"type":"journal_article","status":"public","title":"Eccentric minidisks in accreting binaries","year":"2024","abstract":[{"lang":"eng","text":"We show that gas disks around the components of an orbiting binary system (so-called minidisks) may be susceptible to a resonant instability that causes the minidisks to become significantly eccentric. Eccentricity is injected by, and also induces, regular impacts between the minidisks at roughly the orbital period of the binary. Such eccentric minidisks are seen in vertically integrated, two-dimensional simulations of a circular, equal-mass binary accreting from a circumbinary gas disk with a Γ-law equation of state. Minidisk eccentricity is suppressed by the use of an isothermal equation of state. However, the instability still operates and can be revealed in a minimal disk-binary simulation by removing the circumbinary disk and feeding the minidisks from the component positions. Minidisk eccentricity is also suppressed when the gravitational softening length is large (≳4% of the binary semimajor axis), suggesting that its absence could be an artifact of widely adopted numerical approximations; a follow-up study in three dimensions with well-resolved, geometrically thin minidisks (aspect ratios ≲0.02) may be needed to assess whether eccentric minidisks can occur in real astrophysical environments. If they can, the electromagnetic signature may be important for discriminating between binary and single black hole scenarios for quasiperiodic oscillations in active galactic nuclei; in turn, this might aid in targeted searches with pulsar timing arrays for individual supermassive black hole binary sources of low-frequency gravitational waves."}],"publication_status":"published","citation":{"ista":"Westernacher-Schneider JR, Zrake J, MacFadyen A, Haiman Z. 2024. Eccentric minidisks in accreting binaries. The Astrophysical Journal. 962(1), 76.","short":"J.R. Westernacher-Schneider, J. Zrake, A. MacFadyen, Z. Haiman, The Astrophysical Journal 962 (2024).","mla":"Westernacher-Schneider, John Ryan, et al. “Eccentric Minidisks in Accreting Binaries.” <i>The Astrophysical Journal</i>, vol. 962, no. 1, 76, American Astronomical Society, 2024, doi:<a href=\"https://doi.org/10.3847/1538-4357/ad1a17\">10.3847/1538-4357/ad1a17</a>.","chicago":"Westernacher-Schneider, John Ryan, Jonathan Zrake, Andrew MacFadyen, and Zoltán Haiman. “Eccentric Minidisks in Accreting Binaries.” <i>The Astrophysical Journal</i>. American Astronomical Society, 2024. <a href=\"https://doi.org/10.3847/1538-4357/ad1a17\">https://doi.org/10.3847/1538-4357/ad1a17</a>.","apa":"Westernacher-Schneider, J. R., Zrake, J., MacFadyen, A., &#38; Haiman, Z. (2024). Eccentric minidisks in accreting binaries. <i>The Astrophysical Journal</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/1538-4357/ad1a17\">https://doi.org/10.3847/1538-4357/ad1a17</a>","ieee":"J. R. Westernacher-Schneider, J. Zrake, A. MacFadyen, and Z. Haiman, “Eccentric minidisks in accreting binaries,” <i>The Astrophysical Journal</i>, vol. 962, no. 1. American Astronomical Society, 2024.","ama":"Westernacher-Schneider JR, Zrake J, MacFadyen A, Haiman Z. Eccentric minidisks in accreting binaries. <i>The Astrophysical Journal</i>. 2024;962(1). doi:<a href=\"https://doi.org/10.3847/1538-4357/ad1a17\">10.3847/1538-4357/ad1a17</a>"},"day":"08","quality_controlled":"1","publication":"The Astrophysical Journal","_id":"17546","article_number":"76","author":[{"full_name":"Westernacher-Schneider, John Ryan","last_name":"Westernacher-Schneider","first_name":"John Ryan"},{"full_name":"Zrake, Jonathan","last_name":"Zrake","first_name":"Jonathan"},{"first_name":"Andrew","full_name":"MacFadyen, Andrew","last_name":"MacFadyen"},{"last_name":"Haiman","full_name":"Haiman, Zoltán","id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36","first_name":"Zoltán"}],"article_processing_charge":"No","oa":1,"scopus_import":"1","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.3847/1538-4357/ad1a17","intvolume":"       962","issue":"1","extern":"1","date_updated":"2024-09-18T09:16:14Z","date_created":"2024-09-05T10:06:09Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publisher":"American Astronomical Society","oa_version":"Published Version","article_type":"original","volume":962},{"article_number":"149","article_processing_charge":"No","author":[{"full_name":"Xin, Chengcheng","last_name":"Xin","first_name":"Chengcheng"},{"first_name":"Zoltán","id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36","full_name":"Haiman, Zoltán","last_name":"Haiman"},{"first_name":"Rosalba","last_name":"Perna","full_name":"Perna, Rosalba"},{"first_name":"Yihan","full_name":"Wang, Yihan","last_name":"Wang"},{"first_name":"Taeho","full_name":"Ryu, Taeho","last_name":"Ryu"}],"scopus_import":"1","oa":1,"language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.3847/1538-4357/ad11d3","issue":"2","intvolume":"       961","extern":"1","date_updated":"2024-09-19T12:21:53Z","date_created":"2024-09-05T12:36:41Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publisher":"American Astronomical Society","article_type":"original","oa_version":"Published Version","volume":961,"publication_identifier":{"issn":["0004-637X","1538-4357"]},"doi":"10.3847/1538-4357/ad11d3","date_published":"2024-01-22T00:00:00Z","month":"01","type":"journal_article","main_file_link":[{"url":"https://doi.org/10.3847/1538-4357/ad11d3","open_access":"1"}],"status":"public","title":"“Tidal Peeling Events”: Low-eccentricity tidal disruption of a star by a stellar-mass black hole","year":"2024","abstract":[{"text":"Close encounters between stellar-mass black holes (BHs) and stars occur frequently in dense star clusters and in the disks of active galactic nuclei. Recent studies have shown that in highly eccentric close encounters, the star can be tidally disrupted by the BH in a microtidal disruption event (microTDE), resulting in rapid mass accretion and possibly bright electromagnetic signatures. Here we consider a scenario in which the star might approach the stellar-mass BH in a gradual, nearly circular inspiral, under the influence of dynamical friction in a circum-binary gas disk or three-body interactions in a star cluster. We perform hydrodynamics simulations of this scenario using the smoothed particle hydrodynamics code PHANTOM. We find that under certain circumstances (for initial eccentricity e0 ≳ 0.4 and penetration factor β = 1, or e0 < 0.4 and β ≲ 0.67), the mass of the star is slowly stripped away by the BH. We call this gradual tidal disruption a \"tidal-peeling event.\" Additionally, we discover that some low-eccentricity microTDEs (e0 < 0.4 and β = 1) are a new form of fast luminous transients similar to parabolic microTDEs. Depending on the initial distance and eccentricity of the encounter, these low-eccentricity microTDEs might exhibit significant accretion rates and orbital evolution distinct from those of a typical (eccentric) microTDE.","lang":"eng"}],"publication_status":"published","publication":"The Astrophysical Journal","quality_controlled":"1","citation":{"ista":"Xin C, Haiman Z, Perna R, Wang Y, Ryu T. 2024. “Tidal Peeling Events”: Low-eccentricity tidal disruption of a star by a stellar-mass black hole. The Astrophysical Journal. 961(2), 149.","short":"C. Xin, Z. Haiman, R. Perna, Y. Wang, T. Ryu, The Astrophysical Journal 961 (2024).","mla":"Xin, Chengcheng, et al. “‘Tidal Peeling Events’: Low-Eccentricity Tidal Disruption of a Star by a Stellar-Mass Black Hole.” <i>The Astrophysical Journal</i>, vol. 961, no. 2, 149, American Astronomical Society, 2024, doi:<a href=\"https://doi.org/10.3847/1538-4357/ad11d3\">10.3847/1538-4357/ad11d3</a>.","chicago":"Xin, Chengcheng, Zoltán Haiman, Rosalba Perna, Yihan Wang, and Taeho Ryu. “‘Tidal Peeling Events’: Low-Eccentricity Tidal Disruption of a Star by a Stellar-Mass Black Hole.” <i>The Astrophysical Journal</i>. American Astronomical Society, 2024. <a href=\"https://doi.org/10.3847/1538-4357/ad11d3\">https://doi.org/10.3847/1538-4357/ad11d3</a>.","apa":"Xin, C., Haiman, Z., Perna, R., Wang, Y., &#38; Ryu, T. (2024). “Tidal Peeling Events”: Low-eccentricity tidal disruption of a star by a stellar-mass black hole. <i>The Astrophysical Journal</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/1538-4357/ad11d3\">https://doi.org/10.3847/1538-4357/ad11d3</a>","ieee":"C. Xin, Z. Haiman, R. Perna, Y. Wang, and T. Ryu, “‘Tidal Peeling Events’: Low-eccentricity tidal disruption of a star by a stellar-mass black hole,” <i>The Astrophysical Journal</i>, vol. 961, no. 2. American Astronomical Society, 2024.","ama":"Xin C, Haiman Z, Perna R, Wang Y, Ryu T. “Tidal Peeling Events”: Low-eccentricity tidal disruption of a star by a stellar-mass black hole. <i>The Astrophysical Journal</i>. 2024;961(2). doi:<a href=\"https://doi.org/10.3847/1538-4357/ad11d3\">10.3847/1538-4357/ad11d3</a>"},"day":"22","_id":"17590"},{"publication_status":"published","_id":"17852","quality_controlled":"1","publication":"Nature Communications","citation":{"apa":"Lee, W., Li, L., Camarasa-Gómez, M., Hernangómez-Pérez, D., Roy, X., Evers, F., … Venkataraman, L. (2024). Photooxidation driven formation of Fe-Au linked ferrocene-based single-molecule junctions. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-45707-z\">https://doi.org/10.1038/s41467-024-45707-z</a>","ama":"Lee W, Li L, Camarasa-Gómez M, et al. Photooxidation driven formation of Fe-Au linked ferrocene-based single-molecule junctions. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-45707-z\">10.1038/s41467-024-45707-z</a>","ieee":"W. Lee <i>et al.</i>, “Photooxidation driven formation of Fe-Au linked ferrocene-based single-molecule junctions,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","ista":"Lee W, Li L, Camarasa-Gómez M, Hernangómez-Pérez D, Roy X, Evers F, Inkpen MS, Venkataraman L. 2024. Photooxidation driven formation of Fe-Au linked ferrocene-based single-molecule junctions. Nature Communications. 15, 1439.","short":"W. Lee, L. Li, M. Camarasa-Gómez, D. Hernangómez-Pérez, X. Roy, F. Evers, M.S. Inkpen, L. Venkataraman, Nature Communications 15 (2024).","chicago":"Lee, Woojung, Liang Li, María Camarasa-Gómez, Daniel Hernangómez-Pérez, Xavier Roy, Ferdinand Evers, Michael S. Inkpen, and Latha Venkataraman. “Photooxidation Driven Formation of Fe-Au Linked Ferrocene-Based Single-Molecule Junctions.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-45707-z\">https://doi.org/10.1038/s41467-024-45707-z</a>.","mla":"Lee, Woojung, et al. “Photooxidation Driven Formation of Fe-Au Linked Ferrocene-Based Single-Molecule Junctions.” <i>Nature Communications</i>, vol. 15, 1439, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-45707-z\">10.1038/s41467-024-45707-z</a>."},"day":"16","DOAJ_listed":"1","OA_place":"publisher","abstract":[{"lang":"eng","text":"Metal-metal contacts, though not yet widely realized, may provide exciting opportunities to serve as tunable and functional interfaces in single-molecule devices. One of the simplest components which might facilitate such binding interactions is the ferrocene group. Notably, direct bonds between the ferrocene iron center and metals such as Pd or Co have been demonstrated in molecular complexes comprising coordinating ligands attached to the cyclopentadienyl rings. Here, we demonstrate that ferrocene-based single-molecule devices with Fe-Au interfacial contact geometries form at room temperature in the absence of supporting coordinating ligands. Applying a photoredox reaction, we propose that ferrocene only functions effectively as a contact group when oxidized, binding to gold through a formal Fe<jats:sup>3+</jats:sup> center. This observation is further supported by a series of control measurements and density functional theory calculations. Our findings extend the scope of junction contact chemistries beyond those involving main group elements, lay the foundation for light switchable ferrocene-based single-molecule devices, and highlight new potential mechanistic function(s) of unsubstituted ferrocenium groups in synthetic processes."}],"year":"2024","status":"public","title":"Photooxidation driven formation of Fe-Au linked ferrocene-based single-molecule junctions","month":"02","type":"journal_article","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41467-024-45707-z"}],"external_id":{"pmid":["38365892"]},"publication_identifier":{"issn":["2041-1723"]},"date_published":"2024-02-16T00:00:00Z","doi":"10.1038/s41467-024-45707-z","article_type":"original","oa_version":"Published Version","pmid":1,"publisher":"Springer Nature","volume":15,"date_updated":"2024-11-18T10:47:10Z","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-06T12:38:44Z","language":[{"iso":"eng"}],"intvolume":"        15","fulldoi":"https://doi.org/10.1038/s41467-024-45707-z","article_number":"1439","oa":1,"scopus_import":"1","article_processing_charge":"Yes","OA_type":"gold","author":[{"last_name":"Lee","full_name":"Lee, Woojung","first_name":"Woojung"},{"first_name":"Liang","last_name":"Li","full_name":"Li, Liang"},{"last_name":"Camarasa-Gómez","full_name":"Camarasa-Gómez, María","first_name":"María"},{"last_name":"Hernangómez-Pérez","full_name":"Hernangómez-Pérez, Daniel","first_name":"Daniel"},{"first_name":"Xavier","full_name":"Roy, Xavier","last_name":"Roy"},{"full_name":"Evers, Ferdinand","last_name":"Evers","first_name":"Ferdinand"},{"last_name":"Inkpen","full_name":"Inkpen, Michael S.","first_name":"Michael S."},{"id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha","orcid":"0000-0002-6957-6089","last_name":"Venkataraman","full_name":"Venkataraman, Latha"}]},{"pmid":1,"publisher":"American Chemical Society","article_type":"original","oa_version":"None","volume":146,"extern":"1","date_updated":"2024-11-18T10:51:21Z","date_created":"2024-09-06T12:40:17Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1021/jacs.4c05699","issue":"24","intvolume":"       146","article_processing_charge":"No","OA_type":"closed access","author":[{"last_name":"Li","full_name":"Li, Liang","first_name":"Liang"},{"first_name":"Shayan","full_name":"Louie, Shayan","last_name":"Louie"},{"full_name":"Orchanian, Nicholas M.","last_name":"Orchanian","first_name":"Nicholas M."},{"first_name":"Colin","full_name":"Nuckolls, Colin","last_name":"Nuckolls"},{"orcid":"0000-0002-6957-6089","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha","last_name":"Venkataraman","full_name":"Venkataraman, Latha"}],"scopus_import":"1","publication_status":"published","publication":"Journal of the American Chemical Society","quality_controlled":"1","citation":{"apa":"Li, L., Louie, S., Orchanian, N. M., Nuckolls, C., &#38; Venkataraman, L. (2024). Long-range gating in single-molecule one-dimensional topological insulators. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.4c05699\">https://doi.org/10.1021/jacs.4c05699</a>","ieee":"L. Li, S. Louie, N. M. Orchanian, C. Nuckolls, and L. Venkataraman, “Long-range gating in single-molecule one-dimensional topological insulators,” <i>Journal of the American Chemical Society</i>, vol. 146, no. 24. American Chemical Society, pp. 16920–16925, 2024.","ama":"Li L, Louie S, Orchanian NM, Nuckolls C, Venkataraman L. Long-range gating in single-molecule one-dimensional topological insulators. <i>Journal of the American Chemical Society</i>. 2024;146(24):16920-16925. doi:<a href=\"https://doi.org/10.1021/jacs.4c05699\">10.1021/jacs.4c05699</a>","short":"L. Li, S. Louie, N.M. Orchanian, C. Nuckolls, L. Venkataraman, Journal of the American Chemical Society 146 (2024) 16920–16925.","ista":"Li L, Louie S, Orchanian NM, Nuckolls C, Venkataraman L. 2024. Long-range gating in single-molecule one-dimensional topological insulators. Journal of the American Chemical Society. 146(24), 16920–16925.","chicago":"Li, Liang, Shayan Louie, Nicholas M. Orchanian, Colin Nuckolls, and Latha Venkataraman. “Long-Range Gating in Single-Molecule One-Dimensional Topological Insulators.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/jacs.4c05699\">https://doi.org/10.1021/jacs.4c05699</a>.","mla":"Li, Liang, et al. “Long-Range Gating in Single-Molecule One-Dimensional Topological Insulators.” <i>Journal of the American Chemical Society</i>, vol. 146, no. 24, American Chemical Society, 2024, pp. 16920–25, doi:<a href=\"https://doi.org/10.1021/jacs.4c05699\">10.1021/jacs.4c05699</a>."},"day":"24","_id":"17853","title":"Long-range gating in single-molecule one-dimensional topological insulators","status":"public","year":"2024","abstract":[{"lang":"eng","text":"Single-molecule one-dimensional topological insulator (1D TI) is a class of molecular wires that exhibit increasing conductance with wire length. This unique trend is due to the coupling between the two low-lying topological edge states of 1D TIs described by the Su–Schrieffer–Heeger model. In principle, this quantum phenomenon within 1D TIs can be utilized to achieve long-range gating in molecular conductors. Here, we study electron transport through a single-edge state of doubly oxidized oligophenylene bis(triarylamine) to understand the effect of the edge state coupling on conductance. We find that conductance is elevated by approximately 1 order of magnitude compared to a control molecule with the same conductance pathway. Density function theory calculations further support that the increase in conductance is due to the interaction between the edge states of 1D TIs. This work demonstrates a new gating paradigm in molecular electronics, while also providing a deeper understanding of how edge states interact and affect electron transport within 1D TIs."}],"month":"06","page":"16920-16925","type":"journal_article","publication_identifier":{"eissn":["1520-5126"],"issn":["0002-7863"]},"external_id":{"pmid":["38832840"]},"doi":"10.1021/jacs.4c05699","date_published":"2024-06-24T00:00:00Z"},{"scopus_import":"1","OA_type":"closed access","author":[{"first_name":"Claudia R.","full_name":"Prindle, Claudia R.","last_name":"Prindle"},{"first_name":"Nicholas M.","last_name":"Orchanian","full_name":"Orchanian, Nicholas M."},{"id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha","orcid":"0000-0002-6957-6089","last_name":"Venkataraman","full_name":"Venkataraman, Latha"},{"first_name":"Colin","last_name":"Nuckolls","full_name":"Nuckolls, Colin"}],"article_processing_charge":"No","intvolume":"       101","issue":"3","fulldoi":"https://doi.org/10.1021/acs.jchemed.3c01185","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-06T12:43:20Z","extern":"1","date_updated":"2024-11-18T10:55:30Z","volume":101,"article_type":"original","oa_version":"None","publisher":"American Chemical Society","date_published":"2024-02-14T00:00:00Z","doi":"10.1021/acs.jchemed.3c01185","publication_identifier":{"eissn":["1938-1328"],"issn":["0021-9584"]},"type":"journal_article","page":"1319-1324","month":"02","year":"2024","abstract":[{"lang":"eng","text":"As social media platforms continue to grow in popularity, there is an increasing need for science outreach teams to bring STEM content to the virtual landscape. Here, we highlight the use of short-form videos on our TikTok channel─@IvyLeagueScience─as a new way to approach science outreach. Through a combination of content production and data analytics, we were able to build an online platform with >150k followers, 3.6 million likes, and 18 million views. By bringing science to social media, we engage with students across the world, allowing them to experience science-based content. In this case study, we hope to encourage other scientific outreach teams to employ social media as a means of increasing visibility of scientists and STEM careers."}],"title":"Short-form videos as an emerging social media tool for STEM edutainment","status":"public","_id":"17854","quality_controlled":"1","publication":"Journal of Chemical Education","day":"14","citation":{"short":"C.R. Prindle, N.M. Orchanian, L. Venkataraman, C. Nuckolls, Journal of Chemical Education 101 (2024) 1319–1324.","ista":"Prindle CR, Orchanian NM, Venkataraman L, Nuckolls C. 2024. Short-form videos as an emerging social media tool for STEM edutainment. Journal of Chemical Education. 101(3), 1319–1324.","mla":"Prindle, Claudia R., et al. “Short-Form Videos as an Emerging Social Media Tool for STEM Edutainment.” <i>Journal of Chemical Education</i>, vol. 101, no. 3, American Chemical Society, 2024, pp. 1319–24, doi:<a href=\"https://doi.org/10.1021/acs.jchemed.3c01185\">10.1021/acs.jchemed.3c01185</a>.","chicago":"Prindle, Claudia R., Nicholas M. Orchanian, Latha Venkataraman, and Colin Nuckolls. “Short-Form Videos as an Emerging Social Media Tool for STEM Edutainment.” <i>Journal of Chemical Education</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/acs.jchemed.3c01185\">https://doi.org/10.1021/acs.jchemed.3c01185</a>.","apa":"Prindle, C. R., Orchanian, N. M., Venkataraman, L., &#38; Nuckolls, C. (2024). Short-form videos as an emerging social media tool for STEM edutainment. <i>Journal of Chemical Education</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.jchemed.3c01185\">https://doi.org/10.1021/acs.jchemed.3c01185</a>","ama":"Prindle CR, Orchanian NM, Venkataraman L, Nuckolls C. Short-form videos as an emerging social media tool for STEM edutainment. <i>Journal of Chemical Education</i>. 2024;101(3):1319-1324. doi:<a href=\"https://doi.org/10.1021/acs.jchemed.3c01185\">10.1021/acs.jchemed.3c01185</a>","ieee":"C. R. Prindle, N. M. Orchanian, L. Venkataraman, and C. Nuckolls, “Short-form videos as an emerging social media tool for STEM edutainment,” <i>Journal of Chemical Education</i>, vol. 101, no. 3. American Chemical Society, pp. 1319–1324, 2024."},"publication_status":"published"},{"month":"02","page":"1931-1935","type":"journal_article","publication_identifier":{"issn":["1530-6984","1530-6992"]},"external_id":{"pmid":["38315038"]},"date_published":"2024-02-05T00:00:00Z","doi":"10.1021/acs.nanolett.3c04207","publication_status":"published","quality_controlled":"1","publication":"Nano Letters","citation":{"ieee":"A. L. Paoletta and L. Venkataraman, “Determining transmission characteristics from shot-noise-driven electroluminescence in single-molecule junctions,” <i>Nano Letters</i>, vol. 24, no. 6. American Chemical Society, pp. 1931–1935, 2024.","ama":"Paoletta AL, Venkataraman L. Determining transmission characteristics from shot-noise-driven electroluminescence in single-molecule junctions. <i>Nano Letters</i>. 2024;24(6):1931-1935. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.3c04207\">10.1021/acs.nanolett.3c04207</a>","apa":"Paoletta, A. L., &#38; Venkataraman, L. (2024). Determining transmission characteristics from shot-noise-driven electroluminescence in single-molecule junctions. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.3c04207\">https://doi.org/10.1021/acs.nanolett.3c04207</a>","chicago":"Paoletta, Angela L., and Latha Venkataraman. “Determining Transmission Characteristics from Shot-Noise-Driven Electroluminescence in Single-Molecule Junctions.” <i>Nano Letters</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/acs.nanolett.3c04207\">https://doi.org/10.1021/acs.nanolett.3c04207</a>.","mla":"Paoletta, Angela L., and Latha Venkataraman. “Determining Transmission Characteristics from Shot-Noise-Driven Electroluminescence in Single-Molecule Junctions.” <i>Nano Letters</i>, vol. 24, no. 6, American Chemical Society, 2024, pp. 1931–35, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.3c04207\">10.1021/acs.nanolett.3c04207</a>.","ista":"Paoletta AL, Venkataraman L. 2024. Determining transmission characteristics from shot-noise-driven electroluminescence in single-molecule junctions. Nano Letters. 24(6), 1931–1935.","short":"A.L. Paoletta, L. Venkataraman, Nano Letters 24 (2024) 1931–1935."},"day":"05","_id":"17855","status":"public","title":"Determining transmission characteristics from shot-noise-driven electroluminescence in single-molecule junctions","year":"2024","abstract":[{"text":"Biased metal–molecule–metal junctions emit light through electroluminescence, a phenomenon at the intersection of molecular electronics and nanoplasmonics. This can occur when the junction plasmon mode is excited by inelastic electron current fluctuations. Here, we simultaneously measure the conductance and electroluminescence intensity from single-molecule junctions with time resolution in a solution environment at room temperature. We use current versus bias data to determine the molecular junction transport parameters and then relate these to the expected current shot noise. We find that the electroluminescence signal accurately matches the theoretical prediction of shot-noise-driven emission in a large fraction of the molecular junctions studied. This introduces a novel experimental method for qualitatively estimating finite-frequency shot noise in single-molecule junctions under ambient conditions. We further demonstrate that electroluminescence can be used to obtain the level alignment of the frontier orbital dominating transport in the molecular junction.","lang":"eng"}],"language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1021/acs.nanolett.3c04207","intvolume":"        24","issue":"6","article_processing_charge":"No","author":[{"full_name":"Paoletta, Angela L.","last_name":"Paoletta","first_name":"Angela L."},{"full_name":"Venkataraman, Latha","last_name":"Venkataraman","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","orcid":"0000-0002-6957-6089"}],"scopus_import":"1","publisher":"American Chemical Society","pmid":1,"article_type":"letter_note","oa_version":"None","volume":24,"date_updated":"2024-11-18T10:58:19Z","extern":"1","date_created":"2024-09-06T12:44:24Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"doi":"10.1021/jacs.3c14226","date_published":"2024-01-31T00:00:00Z","publication_identifier":{"eissn":["1520-5126"],"issn":["0002-7863"]},"external_id":{"pmid":["38293735"]},"page":"3646-3650","type":"journal_article","month":"01","status":"public","title":"Effective gating in single-molecule junctions through fano resonances","abstract":[{"lang":"eng","text":"The successful incorporation of molecules as active circuit elements relies on the ability to tune their electronic properties through chemical design. A synthetic strategy that has been used to manipulate and gate circuit conductance involves attaching a pendant substituent along the molecular conduction pathway. However, such a chemical gate has not yet been shown to significantly modify conductance. Here, we report a novel series of triarylmethylium and triangulenium carbocations gated by different substituents coupled to the delocalized conducting orbitals on the molecular backbone through a Fano resonance. By changing the pendant substituents to modulate the position of the Fano resonance and its coupling to the conducting orbitals, we can regulate the junction conductance by a remarkable factor of 450. This work thus provides a new design principle to enable effective chemical gating of single-molecule devices toward effective molecular transistors."}],"year":"2024","publication":"Journal of the American Chemical Society","quality_controlled":"1","citation":{"ieee":"C. R. Prindle <i>et al.</i>, “Effective gating in single-molecule junctions through fano resonances,” <i>Journal of the American Chemical Society</i>, vol. 146, no. 6. American Chemical Society, pp. 3646–3650, 2024.","ama":"Prindle CR, Shi W, Li L, et al. Effective gating in single-molecule junctions through fano resonances. <i>Journal of the American Chemical Society</i>. 2024;146(6):3646-3650. doi:<a href=\"https://doi.org/10.1021/jacs.3c14226\">10.1021/jacs.3c14226</a>","apa":"Prindle, C. R., Shi, W., Li, L., Dahl Jensen, J., Laursen, B. W., Steigerwald, M. L., … Venkataraman, L. (2024). Effective gating in single-molecule junctions through fano resonances. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.3c14226\">https://doi.org/10.1021/jacs.3c14226</a>","mla":"Prindle, Claudia R., et al. “Effective Gating in Single-Molecule Junctions through Fano Resonances.” <i>Journal of the American Chemical Society</i>, vol. 146, no. 6, American Chemical Society, 2024, pp. 3646–50, doi:<a href=\"https://doi.org/10.1021/jacs.3c14226\">10.1021/jacs.3c14226</a>.","chicago":"Prindle, Claudia R., Wanzhuo Shi, Liang Li, Jesper Dahl Jensen, Bo W. Laursen, Michael L. Steigerwald, Colin Nuckolls, and Latha Venkataraman. “Effective Gating in Single-Molecule Junctions through Fano Resonances.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/jacs.3c14226\">https://doi.org/10.1021/jacs.3c14226</a>.","short":"C.R. Prindle, W. Shi, L. Li, J. Dahl Jensen, B.W. Laursen, M.L. Steigerwald, C. Nuckolls, L. Venkataraman, Journal of the American Chemical Society 146 (2024) 3646–3650.","ista":"Prindle CR, Shi W, Li L, Dahl Jensen J, Laursen BW, Steigerwald ML, Nuckolls C, Venkataraman L. 2024. Effective gating in single-molecule junctions through fano resonances. Journal of the American Chemical Society. 146(6), 3646–3650."},"day":"31","_id":"17856","publication_status":"published","author":[{"full_name":"Prindle, Claudia R.","last_name":"Prindle","first_name":"Claudia R."},{"first_name":"Wanzhuo","full_name":"Shi, Wanzhuo","last_name":"Shi"},{"last_name":"Li","full_name":"Li, Liang","first_name":"Liang"},{"first_name":"Jesper","last_name":"Dahl Jensen","full_name":"Dahl Jensen, Jesper"},{"last_name":"Laursen","full_name":"Laursen, Bo W.","first_name":"Bo W."},{"full_name":"Steigerwald, Michael L.","last_name":"Steigerwald","first_name":"Michael L."},{"full_name":"Nuckolls, Colin","last_name":"Nuckolls","first_name":"Colin"},{"orcid":"0000-0002-6957-6089","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","first_name":"Latha","last_name":"Venkataraman","full_name":"Venkataraman, Latha"}],"article_processing_charge":"No","scopus_import":"1","fulldoi":"https://doi.org/10.1021/jacs.3c14226","intvolume":"       146","issue":"6","language":[{"iso":"eng"}],"date_created":"2024-09-06T12:45:11Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-11-18T11:02:24Z","extern":"1","volume":146,"pmid":1,"publisher":"American Chemical Society","article_type":"letter_note","oa_version":"None"},{"intvolume":"        24","issue":"2","fulldoi":"https://doi.org/10.1021/acs.nanolett.3c04058","language":[{"iso":"eng"}],"scopus_import":"1","article_processing_charge":"No","OA_type":"closed access","author":[{"first_name":"Johnson","full_name":"Dalmieda, Johnson","last_name":"Dalmieda"},{"first_name":"Wanzhuo","last_name":"Shi","full_name":"Shi, Wanzhuo"},{"last_name":"Li","full_name":"Li, Liang","first_name":"Liang"},{"orcid":"0000-0002-6957-6089","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","full_name":"Venkataraman, Latha","last_name":"Venkataraman"}],"volume":24,"oa_version":"None","article_type":"letter_note","pmid":1,"publisher":"American Chemical Society","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-06T12:46:39Z","date_updated":"2024-11-19T12:50:27Z","extern":"1","type":"journal_article","page":"703-707","month":"01","date_published":"2024-01-04T00:00:00Z","doi":"10.1021/acs.nanolett.3c04058","external_id":{"pmid":["38175934"]},"publication_identifier":{"eissn":["1530-6992"],"issn":["1530-6984"]},"_id":"17857","citation":{"apa":"Dalmieda, J., Shi, W., Li, L., &#38; Venkataraman, L. (2024). Solvent-mediated modulation of the Au–S bond in dithiol molecular junctions. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.3c04058\">https://doi.org/10.1021/acs.nanolett.3c04058</a>","ama":"Dalmieda J, Shi W, Li L, Venkataraman L. Solvent-mediated modulation of the Au–S bond in dithiol molecular junctions. <i>Nano Letters</i>. 2024;24(2):703-707. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.3c04058\">10.1021/acs.nanolett.3c04058</a>","ieee":"J. Dalmieda, W. Shi, L. Li, and L. Venkataraman, “Solvent-mediated modulation of the Au–S bond in dithiol molecular junctions,” <i>Nano Letters</i>, vol. 24, no. 2. American Chemical Society, pp. 703–707, 2024.","ista":"Dalmieda J, Shi W, Li L, Venkataraman L. 2024. Solvent-mediated modulation of the Au–S bond in dithiol molecular junctions. Nano Letters. 24(2), 703–707.","short":"J. Dalmieda, W. Shi, L. Li, L. Venkataraman, Nano Letters 24 (2024) 703–707.","mla":"Dalmieda, Johnson, et al. “Solvent-Mediated Modulation of the Au–S Bond in Dithiol Molecular Junctions.” <i>Nano Letters</i>, vol. 24, no. 2, American Chemical Society, 2024, pp. 703–07, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.3c04058\">10.1021/acs.nanolett.3c04058</a>.","chicago":"Dalmieda, Johnson, Wanzhuo Shi, Liang Li, and Latha Venkataraman. “Solvent-Mediated Modulation of the Au–S Bond in Dithiol Molecular Junctions.” <i>Nano Letters</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/acs.nanolett.3c04058\">https://doi.org/10.1021/acs.nanolett.3c04058</a>."},"day":"04","quality_controlled":"1","publication":"Nano Letters","publication_status":"published","abstract":[{"text":"Gold–dithiol molecular junctions have been studied both experimentally and theoretically. However, the nature of the gold–thiolate bond as it relates to the solvent has seldom been investigated. It is known that solvents can impact the electronic structure of single-molecule junctions, but the correlation between the solvent and dithiol-linked single-molecule junction conductance is not well understood. We study molecular junctions formed with thiol-terminated phenylenes from both 1-chloronaphthalene and 1-bromonaphthalene solutions. We find that the most probable conductance and the distribution of conductances are both affected by the solvent. First-principles calculations show that junction conductance depends on the binding configurations (adatom, atop, and bridge) of the thiolate on the Au surface, as has been shown previously. More importantly, we find that brominated solvents can restrict the binding of thiols to specific Au sites. This mechanism offers new insight into the effects of the solvent environment on covalent bonding in molecular junctions.","lang":"eng"}],"year":"2024","title":"Solvent-mediated modulation of the Au–S bond in dithiol molecular junctions","status":"public"},{"publisher":"American Chemical Society","pmid":1,"oa_version":"None","article_type":"original","volume":24,"date_updated":"2024-11-20T15:24:37Z","extern":"1","date_created":"2024-09-06T12:48:34Z","user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1021/acs.nanolett.4c02103","intvolume":"        24","issue":"30","author":[{"first_name":"Wanzhuo","full_name":"Shi, Wanzhuo","last_name":"Shi"},{"first_name":"Julia E.","full_name":"Greenwald, Julia E.","last_name":"Greenwald"},{"full_name":"Venkataraman, Latha","last_name":"Venkataraman","orcid":"0000-0002-6957-6089","first_name":"Latha","id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf"}],"article_processing_charge":"No","OA_type":"closed access","scopus_import":"1","publication_status":"published","day":"18","citation":{"apa":"Shi, W., Greenwald, J. E., &#38; Venkataraman, L. (2024). Impact of solvent electrostatic environment on molecular junctions probed via electrochemical impedance spectroscopy. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.4c02103\">https://doi.org/10.1021/acs.nanolett.4c02103</a>","ama":"Shi W, Greenwald JE, Venkataraman L. Impact of solvent electrostatic environment on molecular junctions probed via electrochemical impedance spectroscopy. <i>Nano Letters</i>. 2024;24(30):9283-9288. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.4c02103\">10.1021/acs.nanolett.4c02103</a>","ieee":"W. Shi, J. E. Greenwald, and L. Venkataraman, “Impact of solvent electrostatic environment on molecular junctions probed via electrochemical impedance spectroscopy,” <i>Nano Letters</i>, vol. 24, no. 30. American Chemical Society, pp. 9283–9288, 2024.","short":"W. Shi, J.E. Greenwald, L. Venkataraman, Nano Letters 24 (2024) 9283–9288.","ista":"Shi W, Greenwald JE, Venkataraman L. 2024. Impact of solvent electrostatic environment on molecular junctions probed via electrochemical impedance spectroscopy. Nano Letters. 24(30), 9283–9288.","chicago":"Shi, Wanzhuo, Julia E. Greenwald, and Latha Venkataraman. “Impact of Solvent Electrostatic Environment on Molecular Junctions Probed via Electrochemical Impedance Spectroscopy.” <i>Nano Letters</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/acs.nanolett.4c02103\">https://doi.org/10.1021/acs.nanolett.4c02103</a>.","mla":"Shi, Wanzhuo, et al. “Impact of Solvent Electrostatic Environment on Molecular Junctions Probed via Electrochemical Impedance Spectroscopy.” <i>Nano Letters</i>, vol. 24, no. 30, American Chemical Society, 2024, pp. 9283–88, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.4c02103\">10.1021/acs.nanolett.4c02103</a>."},"quality_controlled":"1","publication":"Nano Letters","_id":"17859","status":"public","title":"Impact of solvent electrostatic environment on molecular junctions probed via electrochemical impedance spectroscopy","year":"2024","abstract":[{"text":"The electrostatic environment around nanoscale molecular junctions modulates charge transport; solvents alter this environment. Methods to directly probe solvent effects require correlating measurements of the local electrostatic environment with charge transport across the metal–molecule–metal junction. Here, we measure the conductance and current–voltage characteristics of molecular wires using a scanning tunneling microscope–break junction (STM-BJ) setup in two commonly used solvents. Our results show that the solvent environment induces shifts in molecular conductance, which we quantify, but more importantly we find that the solvent also impacts the magnitude of current rectification in molecular junctions. By incorporating electrochemical impedance spectroscopy into the STM-BJ setup, we measure the capacitance of the dipole layer formed at the metal–solvent interface and show that rectification can be correlated with solvent capacitance. These results provide a method of quantifying the impact of the solvent environment and a path toward improved environmental control of molecular devices.","lang":"eng"}],"month":"07","page":"9283-9288","type":"journal_article","publication_identifier":{"eissn":["1530-6992"],"issn":["1530-6984"]},"external_id":{"pmid":["39023006"]},"date_published":"2024-07-18T00:00:00Z","doi":"10.1021/acs.nanolett.4c02103"},{"extern":"1","date_updated":"2024-10-01T07:14:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-09-28T06:59:03Z","oa_version":"Published Version","article_type":"original","publisher":"Springer Nature","pmid":1,"ddc":["570"],"file_date_updated":"2024-10-01T07:13:36Z","volume":15,"article_number":"5559","oa":1,"scopus_import":"1","author":[{"first_name":"Márton Albert","last_name":"Hajnal","full_name":"Hajnal, Márton Albert"},{"last_name":"Tran","full_name":"Tran, Duy","first_name":"Duy"},{"first_name":"Zsombor","id":"47757b1e-3f56-11ef-9908-8ddefb4d05eb","orcid":"0009-0003-8524-4994","full_name":"Szabó, Zsombor","last_name":"Szabó"},{"first_name":"Andrea","last_name":"Albert","full_name":"Albert, Andrea"},{"first_name":"Karen","last_name":"Safaryan","full_name":"Safaryan, Karen"},{"first_name":"Michael","full_name":"Einstein, Michael","last_name":"Einstein"},{"last_name":"Vallejo Martelo","full_name":"Vallejo Martelo, Mauricio","first_name":"Mauricio"},{"full_name":"Polack, Pierre-Olivier","last_name":"Polack","first_name":"Pierre-Olivier"},{"last_name":"Golshani","full_name":"Golshani, Peyman","first_name":"Peyman"},{"first_name":"Gergő","full_name":"Orbán, Gergő","last_name":"Orbán"}],"article_processing_charge":"Yes","language":[{"iso":"eng"}],"intvolume":"        15","fulldoi":"https://doi.org/10.1038/s41467-024-49845-2","abstract":[{"text":"Attention supports decision making by selecting the features that are relevant for decisions. Selective enhancement of the relevant features and inhibition of distractors has been proposed as potential neural mechanisms driving this selection process. Yet, how attention operates when relevance cannot be directly determined, and the attention signal needs to be internally constructed is less understood. Here we recorded from populations of neurons in the anterior cingulate cortex (ACC) of mice in an attention-shifting task where relevance of stimulus modalities changed across blocks of trials. In contrast with V1 recordings, decoding of the irrelevant modality gradually declined in ACC after an initial transient. Our analytical proof and a recurrent neural network model of the task revealed mutually inhibiting connections that produced context-gated suppression as observed in mice. Using this RNN model we predicted a correlation between contextual modulation of individual neurons and their stimulus drive, which we confirmed in ACC but not in V1.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by/4.0/","year":"2024","title":"Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making","status":"public","has_accepted_license":"1","publication_status":"published","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"checksum":"22caa17a6691884c66c650c61227e903","relation":"main_file","file_id":"18163","success":1,"file_name":"2024_NatureComm_Hajnal.pdf","date_updated":"2024-10-01T07:13:36Z","file_size":4346510,"date_created":"2024-10-01T07:13:36Z","access_level":"open_access","content_type":"application/pdf","creator":"dernst"}],"_id":"18153","day":"02","citation":{"ama":"Hajnal MA, Tran D, Szabó Z, et al. Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-49845-2\">10.1038/s41467-024-49845-2</a>","ieee":"M. A. Hajnal <i>et al.</i>, “Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","apa":"Hajnal, M. A., Tran, D., Szabó, Z., Albert, A., Safaryan, K., Einstein, M., … Orbán, G. (2024). Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-49845-2\">https://doi.org/10.1038/s41467-024-49845-2</a>","mla":"Hajnal, Márton Albert, et al. “Shifts in Attention Drive Context-Dependent Subspace Encoding in Anterior Cingulate Cortex in Mice during Decision Making.” <i>Nature Communications</i>, vol. 15, 5559, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-49845-2\">10.1038/s41467-024-49845-2</a>.","chicago":"Hajnal, Márton Albert, Duy Tran, Zsombor Szabó, Andrea Albert, Karen Safaryan, Michael Einstein, Mauricio Vallejo Martelo, Pierre-Olivier Polack, Peyman Golshani, and Gergő Orbán. “Shifts in Attention Drive Context-Dependent Subspace Encoding in Anterior Cingulate Cortex in Mice during Decision Making.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-49845-2\">https://doi.org/10.1038/s41467-024-49845-2</a>.","short":"M.A. Hajnal, D. Tran, Z. Szabó, A. Albert, K. Safaryan, M. Einstein, M. Vallejo Martelo, P.-O. Polack, P. Golshani, G. Orbán, Nature Communications 15 (2024).","ista":"Hajnal MA, Tran D, Szabó Z, Albert A, Safaryan K, Einstein M, Vallejo Martelo M, Polack P-O, Golshani P, Orbán G. 2024. Shifts in attention drive context-dependent subspace encoding in anterior cingulate cortex in mice during decision making. Nature Communications. 15, 5559."},"quality_controlled":"1","publication":"Nature Communications","external_id":{"pmid":["37873364"]},"publication_identifier":{"issn":["2041-1723"]},"doi":"10.1038/s41467-024-49845-2","date_published":"2024-07-02T00:00:00Z","month":"07","type":"journal_article"},{"language":[{"iso":"eng"}],"intvolume":"       707","fulldoi":"https://doi.org/10.1016/bs.mie.2024.07.051","scopus_import":"1","department":[{"_id":"PaSc"}],"author":[{"id":"bb74f472-ae54-11eb-9835-bc9c22fb1183","first_name":"Undina","last_name":"Guillerm","full_name":"Guillerm, Undina"},{"full_name":"Sučec, Iva","last_name":"Sučec","first_name":"Iva"},{"full_name":"Schanda, Paul","last_name":"Schanda","first_name":"Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606"}],"article_processing_charge":"No","OA_type":"closed access","oa_version":"None","pmid":1,"publisher":"Elsevier","volume":707,"date_updated":"2025-10-22T06:40:54Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-10-01T10:58:27Z","month":"09","type":"book_chapter","page":"391-422","external_id":{"pmid":["39488384"]},"publication_identifier":{"issn":["0076-6879"]},"doi":"10.1016/bs.mie.2024.07.051","date_published":"2024-09-13T00:00:00Z","publication_status":"published","_id":"18167","publication":"Methods in Enzymology","quality_controlled":"1","day":"13","citation":{"apa":"Guillerm, U., Sučec, I., &#38; Schanda, P. (2024). Generation of TIM chaperone substrate complexes. In <i>Methods in Enzymology</i> (Vol. 707, pp. 391–422). Elsevier. <a href=\"https://doi.org/10.1016/bs.mie.2024.07.051\">https://doi.org/10.1016/bs.mie.2024.07.051</a>","ieee":"U. Guillerm, I. Sučec, and P. Schanda, “Generation of TIM chaperone substrate complexes,” in <i>Methods in Enzymology</i>, vol. 707, Elsevier, 2024, pp. 391–422.","ama":"Guillerm U, Sučec I, Schanda P. Generation of TIM chaperone substrate complexes. In: <i>Methods in Enzymology</i>. Vol 707. Elsevier; 2024:391-422. doi:<a href=\"https://doi.org/10.1016/bs.mie.2024.07.051\">10.1016/bs.mie.2024.07.051</a>","ista":"Guillerm U, Sučec I, Schanda P. 2024.Generation of TIM chaperone substrate complexes. In: Methods in Enzymology. vol. 707, 391–422.","short":"U. Guillerm, I. Sučec, P. Schanda, in:, Methods in Enzymology, Elsevier, 2024, pp. 391–422.","mla":"Guillerm, Undina, et al. “Generation of TIM Chaperone Substrate Complexes.” <i>Methods in Enzymology</i>, vol. 707, Elsevier, 2024, pp. 391–422, doi:<a href=\"https://doi.org/10.1016/bs.mie.2024.07.051\">10.1016/bs.mie.2024.07.051</a>.","chicago":"Guillerm, Undina, Iva Sučec, and Paul Schanda. “Generation of TIM Chaperone Substrate Complexes.” In <i>Methods in Enzymology</i>, 707:391–422. Elsevier, 2024. <a href=\"https://doi.org/10.1016/bs.mie.2024.07.051\">https://doi.org/10.1016/bs.mie.2024.07.051</a>."},"abstract":[{"lang":"eng","text":"Holdase chaperones are essential in the mitochondrial membrane-protein biogenesis as they stabilize preproteins and keep them in an import-competent state as they travel through the aqueous cytosol and intermembrane space. The small TIM chaperones of the mitochondrial intermembrane space function within a fine balance of client promiscuity and high affinity binding, while being also able to release their client proteins without significant energy barrier to the downstream insertases/translocases. The tendency of the preproteins to aggregate and the dynamic nature of the preprotein—chaperone complexes makes the preparation of these complexes challenging. Here we present two optimized methods for complex formation of highly hydrophobic precursor proteins and chaperones: a pull-down approach and an in-vitro translation strategy. In the former, attaching the client protein to an affinity resin keeps the individual client protein copies apart from each other and decreases the client self-aggregation probability, thereby favouring complex formation. In the latter approach, a purified chaperone, added to the cell-free protein synthesis, captures the nascent precursor protein. The choice of method will depend on the desired client-chaperone complex amount, or the need for specific labeling scheme."}],"year":"2024","corr_author":"1","status":"public","title":"Generation of TIM chaperone substrate complexes"},{"month":"01","type":"journal_article","page":"351-352","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"date_published":"2024-01-19T00:00:00Z","doi":"10.1038/s41567-023-02357-0","publication_status":"published","_id":"18187","citation":{"ista":"Leonard J. 2024. A kicked quasicrystal. Nature Physics. 20(3), 351–352.","short":"J. Leonard, Nature Physics 20 (2024) 351–352.","mla":"Leonard, Julian. “A Kicked Quasicrystal.” <i>Nature Physics</i>, vol. 20, no. 3, Springer Nature, 2024, pp. 351–52, doi:<a href=\"https://doi.org/10.1038/s41567-023-02357-0\">10.1038/s41567-023-02357-0</a>.","chicago":"Leonard, Julian. “A Kicked Quasicrystal.” <i>Nature Physics</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41567-023-02357-0\">https://doi.org/10.1038/s41567-023-02357-0</a>.","apa":"Leonard, J. (2024). A kicked quasicrystal. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-023-02357-0\">https://doi.org/10.1038/s41567-023-02357-0</a>","ieee":"J. Leonard, “A kicked quasicrystal,” <i>Nature Physics</i>, vol. 20, no. 3. Springer Nature, pp. 351–352, 2024.","ama":"Leonard J. A kicked quasicrystal. <i>Nature Physics</i>. 2024;20(3):351-352. doi:<a href=\"https://doi.org/10.1038/s41567-023-02357-0\">10.1038/s41567-023-02357-0</a>"},"day":"19","publication":"Nature Physics","quality_controlled":"1","year":"2024","abstract":[{"lang":"eng","text":"Quasicrystals are ordered but not periodic, which makes them fascinating objects at the interface between order and disorder. Experiments with ultracold atoms zoom in on this interface by driving a quasicrystal and exploring its fractal properties."}],"title":"A kicked quasicrystal","status":"public","language":[{"iso":"eng"}],"issue":"3","intvolume":"        20","fulldoi":"https://doi.org/10.1038/s41567-023-02357-0","scopus_import":"1","article_processing_charge":"No","author":[{"orcid":"0000-0003-3696-6870","id":"b75b3f45-7995-11ef-9bfd-9a9cd02c3577","first_name":"Julian","last_name":"Leonard","full_name":"Leonard, Julian"}],"oa_version":"None","article_type":"letter_note","publisher":"Springer Nature","volume":20,"date_updated":"2024-10-14T07:54:20Z","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-10-07T11:45:17Z"},{"quality_controlled":"1","publication":"Quantum","day":"27","citation":{"short":"T. Blatz, J. Kwan, J. Leonard, A. Bohrdt, Quantum 8 (2024).","ista":"Blatz T, Kwan J, Leonard J, Bohrdt A. 2024. Bayesian optimization for robust state preparation in quantum many-body systems. Quantum. 8, 1388.","mla":"Blatz, Tizian, et al. “Bayesian Optimization for Robust State Preparation in Quantum Many-Body Systems.” <i>Quantum</i>, vol. 8, 1388, Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften, 2024, doi:<a href=\"https://doi.org/10.22331/q-2024-06-27-1388\">10.22331/q-2024-06-27-1388</a>.","chicago":"Blatz, Tizian, Joyce Kwan, Julian Leonard, and Annabelle Bohrdt. “Bayesian Optimization for Robust State Preparation in Quantum Many-Body Systems.” <i>Quantum</i>. Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften, 2024. <a href=\"https://doi.org/10.22331/q-2024-06-27-1388\">https://doi.org/10.22331/q-2024-06-27-1388</a>.","apa":"Blatz, T., Kwan, J., Leonard, J., &#38; Bohrdt, A. (2024). Bayesian optimization for robust state preparation in quantum many-body systems. <i>Quantum</i>. Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften. <a href=\"https://doi.org/10.22331/q-2024-06-27-1388\">https://doi.org/10.22331/q-2024-06-27-1388</a>","ieee":"T. Blatz, J. Kwan, J. Leonard, and A. Bohrdt, “Bayesian optimization for robust state preparation in quantum many-body systems,” <i>Quantum</i>, vol. 8. Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften, 2024.","ama":"Blatz T, Kwan J, Leonard J, Bohrdt A. Bayesian optimization for robust state preparation in quantum many-body systems. <i>Quantum</i>. 2024;8. doi:<a href=\"https://doi.org/10.22331/q-2024-06-27-1388\">10.22331/q-2024-06-27-1388</a>"},"_id":"18188","publication_status":"published","status":"public","title":"Bayesian optimization for robust state preparation in quantum many-body systems","year":"2024","abstract":[{"text":"New generations of ultracold-atom experiments are continually raising the demand for efficient solutions to optimal control problems. Here, we apply Bayesian optimization to improve a state-preparation protocol recently implemented in an ultracold-atom system to realize a two-particle fractional quantum Hall state. Compared to manual ramp design, we demonstrate the superior performance of our optimization approach in a numerical simulation – resulting in a protocol that is 10x faster at the same fidelity, even when taking into account experimentally realistic levels of disorder in the system. We extensively analyze and discuss questions of robustness and the relationship between numerical simulation and experimental realization, and how to make the best use of the surrogate model trained during optimization. We find that numerical simulation can be expected to substantially reduce the number of experiments that need to be performed with even the most basic transfer learning techniques. The proposed protocol and workflow will pave the way toward the realization of more complex many-body quantum states in experiments.","lang":"eng"}],"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.22331/q-2024-06-27-1388","open_access":"1"}],"month":"06","arxiv":1,"date_published":"2024-06-27T00:00:00Z","doi":"10.22331/q-2024-06-27-1388","publication_identifier":{"issn":["2521-327X"]},"external_id":{"arxiv":["2312.09253"]},"volume":8,"publisher":"Verein zur Förderung des Open Access Publizierens in den Quantenwissenschaften","article_type":"original","oa_version":"Published Version","date_created":"2024-10-07T11:45:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","date_updated":"2024-10-08T11:15:55Z","fulldoi":"https://doi.org/10.22331/q-2024-06-27-1388","intvolume":"         8","language":[{"iso":"eng"}],"article_processing_charge":"Yes","author":[{"first_name":"Tizian","last_name":"Blatz","full_name":"Blatz, Tizian"},{"full_name":"Kwan, Joyce","last_name":"Kwan","first_name":"Joyce"},{"first_name":"Julian","id":"b75b3f45-7995-11ef-9bfd-9a9cd02c3577","full_name":"Leonard, Julian","last_name":"Leonard"},{"first_name":"Annabelle","last_name":"Bohrdt","full_name":"Bohrdt, Annabelle"}],"oa":1,"scopus_import":"1","article_number":"1388"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2024","abstract":[{"lang":"eng","text":"We report on adiabatic state preparation in the one-dimensional quantum Ising\r\nmodel using ultracold bosons in a tilted optical lattice. We prepare many-body\r\nground states of controllable system sizes and observe enhanced fluctuations\r\naround the transition between paramagnetic and antiferromagnetic states,\r\nmarking the precursor of quantum critical behavior. Furthermore, we find\r\nevidence for superpositions of domain walls and study their effect on the\r\nmany-body ground state by measuring the populations of each spin configuration\r\nacross the transition. These results shed new light on the effect of boundary\r\nconditions in finite-size quantum systems."}],"title":"Adiabatic state preparation in a quantum Ising spin chain","status":"public","date_created":"2024-10-08T11:25:52Z","date_updated":"2024-10-08T11:28:26Z","extern":"1","_id":"18202","citation":{"chicago":"Kim, Sooshin, Alexander Lukin, Matthew Rispoli, M. Eric Tai, Adam M. Kaufman, Perrin Segura, Yanfei Li, et al. “Adiabatic State Preparation in a Quantum Ising Spin Chain.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2404.07481\">https://doi.org/10.48550/arXiv.2404.07481</a>.","mla":"Kim, Sooshin, et al. “Adiabatic State Preparation in a Quantum Ising Spin Chain.” <i>ArXiv</i>, 2404.07481, doi:<a href=\"https://doi.org/10.48550/arXiv.2404.07481\">10.48550/arXiv.2404.07481</a>.","ista":"Kim S, Lukin A, Rispoli M, Tai ME, Kaufman AM, Segura P, Li Y, Kwan J, Leonard J, Brice Bakkali-Hassani BB-H, Greiner M. Adiabatic state preparation in a quantum Ising spin chain. arXiv, 2404.07481.","short":"S. Kim, A. Lukin, M. Rispoli, M.E. Tai, A.M. Kaufman, P. Segura, Y. Li, J. Kwan, J. Leonard, B.B.-H. Brice Bakkali-Hassani, M. Greiner, ArXiv (n.d.).","ieee":"S. Kim <i>et al.</i>, “Adiabatic state preparation in a quantum Ising spin chain,” <i>arXiv</i>. .","ama":"Kim S, Lukin A, Rispoli M, et al. Adiabatic state preparation in a quantum Ising spin chain. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2404.07481\">10.48550/arXiv.2404.07481</a>","apa":"Kim, S., Lukin, A., Rispoli, M., Tai, M. E., Kaufman, A. M., Segura, P., … Greiner, M. (n.d.). Adiabatic state preparation in a quantum Ising spin chain. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2404.07481\">https://doi.org/10.48550/arXiv.2404.07481</a>"},"day":"11","publication":"arXiv","oa_version":"Preprint","publication_status":"submitted","date_published":"2024-04-11T00:00:00Z","oa":1,"doi":"10.48550/arXiv.2404.07481","author":[{"first_name":"Sooshin","last_name":"Kim","full_name":"Kim, Sooshin"},{"first_name":"Alexander","last_name":"Lukin","full_name":"Lukin, Alexander"},{"first_name":"Matthew","last_name":"Rispoli","full_name":"Rispoli, Matthew"},{"first_name":"M. Eric","last_name":"Tai","full_name":"Tai, M. Eric"},{"first_name":"Adam M.","full_name":"Kaufman, Adam M.","last_name":"Kaufman"},{"first_name":"Perrin","last_name":"Segura","full_name":"Segura, Perrin"},{"last_name":"Li","full_name":"Li, Yanfei","first_name":"Yanfei"},{"last_name":"Kwan","full_name":"Kwan, Joyce","first_name":"Joyce"},{"id":"b75b3f45-7995-11ef-9bfd-9a9cd02c3577","first_name":"Julian","last_name":"Leonard","full_name":"Leonard, Julian"},{"first_name":"Brice Bakkali-Hassani","last_name":"Brice Bakkali-Hassani","full_name":"Brice Bakkali-Hassani, Brice Bakkali-Hassani"},{"full_name":"Greiner, Markus","last_name":"Greiner","first_name":"Markus"}],"article_processing_charge":"No","arxiv":1,"external_id":{"arxiv":["2404.07481"]},"article_number":"2404.07481","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2404.07481"}],"type":"preprint","fulldoi":"https://doi.org/10.48550/arXiv.2404.07481","language":[{"iso":"eng"}],"month":"04"},{"article_number":"783","author":[{"first_name":"Aviv A.","last_name":"Rosenberg","full_name":"Rosenberg, Aviv A."},{"last_name":"Marx","full_name":"Marx, Ailie","first_name":"Ailie"},{"first_name":"Alexander","id":"58f3726e-7cba-11ef-ad8b-e6e8cb3904e6","orcid":"0000-0001-9699-8730","full_name":"Bronstein, Alexander","last_name":"Bronstein"}],"article_processing_charge":"No","oa":1,"scopus_import":"1","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1038/s41597-024-03595-4","intvolume":"        11","date_updated":"2024-10-09T10:08:08Z","extern":"1","date_created":"2024-10-08T11:50:30Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Springer Nature","pmid":1,"oa_version":"Published Version","article_type":"original","volume":11,"publication_identifier":{"issn":["2052-4463"]},"external_id":{"pmid":["39019896"]},"date_published":"2024-07-17T00:00:00Z","doi":"10.1038/s41597-024-03595-4","month":"07","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41597-024-03595-4"}],"type":"journal_article","status":"public","title":"A dataset of alternately located segments in protein crystal structures","year":"2024","abstract":[{"text":"Protein Data Bank (PDB) files list the relative spatial location of atoms in a protein structure as the final output of the process of fitting and refining to experimentally determined electron density measurements. Where experimental evidence exists for multiple conformations, atoms are modelled in alternate locations. Programs reading PDB files commonly ignore these alternate conformations by default leaving users oblivious to the presence of alternate conformations in the structures they analyze. This has led to underappreciation of their prevalence, under characterisation of their features and limited the accessibility to this high-resolution data representing structural ensembles. We have trawled PDB files to extract structural features of residues with alternately located atoms. The output includes the distance between alternate conformations and identifies the location of these segments within the protein chain and in proximity of all other atoms within a defined radius. This dataset should be of use in efforts to predict multiple structures from a single sequence and support studies investigating protein flexibility and the association with protein function.","lang":"eng"}],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_status":"published","has_accepted_license":"1","citation":{"short":"A.A. Rosenberg, A. Marx, A.M. Bronstein, Scientific Data 11 (2024).","ista":"Rosenberg AA, Marx A, Bronstein AM. 2024. A dataset of alternately located segments in protein crystal structures. Scientific Data. 11, 783.","chicago":"Rosenberg, Aviv A., Ailie Marx, and Alex M. Bronstein. “A Dataset of Alternately Located Segments in Protein Crystal Structures.” <i>Scientific Data</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41597-024-03595-4\">https://doi.org/10.1038/s41597-024-03595-4</a>.","mla":"Rosenberg, Aviv A., et al. “A Dataset of Alternately Located Segments in Protein Crystal Structures.” <i>Scientific Data</i>, vol. 11, 783, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41597-024-03595-4\">10.1038/s41597-024-03595-4</a>.","apa":"Rosenberg, A. A., Marx, A., &#38; Bronstein, A. M. (2024). A dataset of alternately located segments in protein crystal structures. <i>Scientific Data</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41597-024-03595-4\">https://doi.org/10.1038/s41597-024-03595-4</a>","ieee":"A. A. Rosenberg, A. Marx, and A. M. Bronstein, “A dataset of alternately located segments in protein crystal structures,” <i>Scientific Data</i>, vol. 11. Springer Nature, 2024.","ama":"Rosenberg AA, Marx A, Bronstein AM. A dataset of alternately located segments in protein crystal structures. <i>Scientific Data</i>. 2024;11. doi:<a href=\"https://doi.org/10.1038/s41597-024-03595-4\">10.1038/s41597-024-03595-4</a>"},"day":"17","publication":"Scientific Data","quality_controlled":"1","_id":"18203"},{"main_file_link":[{"url":"https://doi.org/10.1038/s42005-024-01626-5","open_access":"1"}],"type":"journal_article","month":"05","date_published":"2024-05-01T00:00:00Z","doi":"10.1038/s42005-024-01626-5","publication_identifier":{"issn":["2399-3650"]},"_id":"18204","citation":{"chicago":"Elul, Yonatan, Eyal Rozenberg, Amit Boyarski, Yael Yaniv, Assaf Schuster, and Alex M. Bronstein. “Data-Driven Modeling of Interrelated Dynamical Systems.” <i>Communications Physics</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s42005-024-01626-5\">https://doi.org/10.1038/s42005-024-01626-5</a>.","mla":"Elul, Yonatan, et al. “Data-Driven Modeling of Interrelated Dynamical Systems.” <i>Communications Physics</i>, vol. 7, 141, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s42005-024-01626-5\">10.1038/s42005-024-01626-5</a>.","ista":"Elul Y, Rozenberg E, Boyarski A, Yaniv Y, Schuster A, Bronstein AM. 2024. Data-driven modeling of interrelated dynamical systems. Communications Physics. 7, 141.","short":"Y. Elul, E. Rozenberg, A. Boyarski, Y. Yaniv, A. Schuster, A.M. Bronstein, Communications Physics 7 (2024).","ieee":"Y. Elul, E. Rozenberg, A. Boyarski, Y. Yaniv, A. Schuster, and A. M. Bronstein, “Data-driven modeling of interrelated dynamical systems,” <i>Communications Physics</i>, vol. 7. Springer Nature, 2024.","ama":"Elul Y, Rozenberg E, Boyarski A, Yaniv Y, Schuster A, Bronstein AM. Data-driven modeling of interrelated dynamical systems. <i>Communications Physics</i>. 2024;7. doi:<a href=\"https://doi.org/10.1038/s42005-024-01626-5\">10.1038/s42005-024-01626-5</a>","apa":"Elul, Y., Rozenberg, E., Boyarski, A., Yaniv, Y., Schuster, A., &#38; Bronstein, A. M. (2024). Data-driven modeling of interrelated dynamical systems. <i>Communications Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42005-024-01626-5\">https://doi.org/10.1038/s42005-024-01626-5</a>"},"day":"01","publication":"Communications Physics","quality_controlled":"1","publication_status":"published","abstract":[{"text":"Non-linear dynamical systems describe numerous real-world phenomena, ranging from the weather, to financial markets and disease progression. Individual systems may share substantial common information, for example patients’ anatomy. Lately, deep-learning has emerged as a leading method for data-driven modeling of non-linear dynamical systems. Yet, despite recent breakthroughs, prior works largely ignored the existence of shared information between different systems. However, such cases are quite common, for example, in medicine: we may wish to have a patient-specific model for some disease, but the data collected from a single patient is usually too small to train a deep-learning model. Hence, we must properly utilize data gathered from other patients. Here, we explicitly consider such cases by jointly modeling multiple systems. We show that the current single-system models consistently fail when trying to learn simultaneously from multiple systems. We suggest a framework for jointly approximating the Koopman operators of multiple systems, while intrinsically exploiting common information. We demonstrate how we can adapt to a new system using order-of-magnitude less new data and show the superiority of our model over competing methods, in terms of both forecasting ability and statistical fidelity, across chaotic, cardiac, and climate systems.","lang":"eng"}],"year":"2024","status":"public","title":"Data-driven modeling of interrelated dynamical systems","intvolume":"         7","fulldoi":"https://doi.org/10.1038/s42005-024-01626-5","language":[{"iso":"eng"}],"scopus_import":"1","oa":1,"author":[{"last_name":"Elul","full_name":"Elul, Yonatan","first_name":"Yonatan"},{"first_name":"Eyal","last_name":"Rozenberg","full_name":"Rozenberg, Eyal"},{"last_name":"Boyarski","full_name":"Boyarski, Amit","first_name":"Amit"},{"first_name":"Yael","last_name":"Yaniv","full_name":"Yaniv, Yael"},{"full_name":"Schuster, Assaf","last_name":"Schuster","first_name":"Assaf"},{"last_name":"Bronstein","full_name":"Bronstein, Alexander","id":"58f3726e-7cba-11ef-ad8b-e6e8cb3904e6","first_name":"Alexander","orcid":"0000-0001-9699-8730"}],"article_processing_charge":"Yes","article_number":"141","volume":7,"oa_version":"Published Version","article_type":"original","publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-10-08T12:45:35Z","date_updated":"2024-10-09T10:12:11Z","extern":"1"},{"publication_status":"published","publication":"Optics Express","quality_controlled":"1","day":"11","citation":{"short":"O. Wengrowicz, A.M. Bronstein, O. Cohen, Optics Express 32 (2024) 8791–8803.","ista":"Wengrowicz O, Bronstein AM, Cohen O. 2024. Unsupervised physics-informed deep learning-based reconstruction for time-resolved imaging by multiplexed ptychography. Optics Express. 32(6), 8791–8803.","chicago":"Wengrowicz, Omri, Alex M. Bronstein, and Oren Cohen. “Unsupervised Physics-Informed Deep Learning-Based Reconstruction for Time-Resolved Imaging by Multiplexed Ptychography.” <i>Optics Express</i>. Optica Publishing Group, 2024. <a href=\"https://doi.org/10.1364/oe.515445\">https://doi.org/10.1364/oe.515445</a>.","mla":"Wengrowicz, Omri, et al. “Unsupervised Physics-Informed Deep Learning-Based Reconstruction for Time-Resolved Imaging by Multiplexed Ptychography.” <i>Optics Express</i>, vol. 32, no. 6, Optica Publishing Group, 2024, pp. 8791–803, doi:<a href=\"https://doi.org/10.1364/oe.515445\">10.1364/oe.515445</a>.","apa":"Wengrowicz, O., Bronstein, A. M., &#38; Cohen, O. (2024). Unsupervised physics-informed deep learning-based reconstruction for time-resolved imaging by multiplexed ptychography. <i>Optics Express</i>. Optica Publishing Group. <a href=\"https://doi.org/10.1364/oe.515445\">https://doi.org/10.1364/oe.515445</a>","ama":"Wengrowicz O, Bronstein AM, Cohen O. Unsupervised physics-informed deep learning-based reconstruction for time-resolved imaging by multiplexed ptychography. <i>Optics Express</i>. 2024;32(6):8791-8803. doi:<a href=\"https://doi.org/10.1364/oe.515445\">10.1364/oe.515445</a>","ieee":"O. Wengrowicz, A. M. Bronstein, and O. Cohen, “Unsupervised physics-informed deep learning-based reconstruction for time-resolved imaging by multiplexed ptychography,” <i>Optics Express</i>, vol. 32, no. 6. Optica Publishing Group, pp. 8791–8803, 2024."},"_id":"18205","status":"public","title":"Unsupervised physics-informed deep learning-based reconstruction for time-resolved imaging by multiplexed ptychography","abstract":[{"lang":"eng","text":"We explore numerically an unsupervised, physics-informed, deep learning-based reconstruction technique for time-resolved imaging by multiplexed ptychography. In our method, the untrained deep learning model replaces the iterative algorithm’s update step, yielding superior reconstructions of multiple dynamic object frames compared to conventional methodologies. More precisely, we demonstrate improvements in image quality and resolution, while reducing sensitivity to the number of recorded frames, the mutual orthogonality of different probe modes, overlap between neighboring probe beams and the cutoff frequency of the ptychographic microscope – properties that are generally of paramount importance for ptychographic reconstruction algorithms."}],"year":"2024","month":"03","page":"8791-8803","type":"journal_article","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1364/OE.515445"}],"publication_identifier":{"issn":["1094-4087"]},"external_id":{"pmid":["38571128"]},"date_published":"2024-03-11T00:00:00Z","doi":"10.1364/oe.515445","pmid":1,"publisher":"Optica Publishing Group","article_type":"original","oa_version":"Published Version","volume":32,"extern":"1","date_updated":"2024-10-09T10:26:44Z","date_created":"2024-10-08T12:46:01Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1364/oe.515445","issue":"6","intvolume":"        32","article_processing_charge":"Yes (in subscription journal)","author":[{"full_name":"Wengrowicz, Omri","last_name":"Wengrowicz","first_name":"Omri"},{"last_name":"Bronstein","full_name":"Bronstein, Alexander","orcid":"0000-0001-9699-8730","id":"58f3726e-7cba-11ef-ad8b-e6e8cb3904e6","first_name":"Alexander"},{"first_name":"Oren","full_name":"Cohen, Oren","last_name":"Cohen"}],"scopus_import":"1","oa":1},{"scopus_import":"1","article_processing_charge":"No","author":[{"full_name":"Rave, Gilad","last_name":"Rave","first_name":"Gilad"},{"first_name":"Daniel E.","full_name":"Fordham, Daniel E.","last_name":"Fordham"},{"id":"58f3726e-7cba-11ef-ad8b-e6e8cb3904e6","first_name":"Alexander","orcid":"0000-0001-9699-8730","last_name":"Bronstein","full_name":"Bronstein, Alexander"},{"first_name":"David H.","last_name":"Silver","full_name":"Silver, David H."}],"language":[{"iso":"eng"}],"intvolume":"     14976","fulldoi":"https://doi.org/10.1007/978-3-031-67285-9_12","extern":"1","date_updated":"2024-10-09T10:33:39Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2024-10-08T12:46:23Z","oa_version":"None","publisher":"Springer Nature","volume":14976,"publication_identifier":{"issn":["0302-9743"],"eisbn":["9783031672859"],"eissn":["1611-3349"],"isbn":["9783031672842"]},"doi":"10.1007/978-3-031-67285-9_12","date_published":"2024-08-15T00:00:00Z","month":"08","type":"conference","page":"160-171","conference":{"location":"Swansea, United Kingdom","start_date":"2024-09-04","name":"AIiH: Artificial Intelligence in Healthcare","end_date":"2024-09-06"},"abstract":[{"text":"In the context of in vitro fertilization (IVF), selecting embryos for transfer is critical in determining pregnancy outcomes, with implantation as the essential first milestone for a successful pregnancy. This study introduces the Bonna algorithm, an advanced deep-learning framework engineered to predict embryo implantation probabilities. The algorithm employs a sophisticated integration of machine-learning techniques, utilizing MobileNetV2 for pixel and context embedding, a custom Pix2Pix model for precise segmentation, and a Vision Transformer for additional depth in embedding. MobileNetV2 was chosen for its robust feature extraction capabilities, focusing on textures and edges. The custom Pix2Pix model is adapted for precise segmentation of significant biological features such as the zona pellucida and blastocyst cavity. The Vision Transformer adds a global perspective, capturing complex patterns not apparent in local image segments. Tested on a dataset of images of human blastocysts collected from Ukraine, Israel, and Spain, the Bonna algorithm was rigorously validated through 10-fold cross-validation to ensure its robustness and reliability. It demonstrates superior performance with a mean area under the receiver operating characteristic curve (AUC) of 0.754, significantly outperforming existing models. The study not only advances predictive accuracy in embryo selection but also highlights the algorithm’s clinical applicability due to reliable confidence reporting.","lang":"eng"}],"year":"2024","status":"public","title":"Enhancing predictive accuracy in embryo implantation: The Bonna algorithm and its clinical implications","publication_status":"published","_id":"18206","alternative_title":["LNCS"],"citation":{"ieee":"G. Rave, D. E. Fordham, A. M. Bronstein, and D. H. Silver, “Enhancing predictive accuracy in embryo implantation: The Bonna algorithm and its clinical implications,” in <i>First International Conference on Artificial Intelligence in Healthcare</i>, Swansea, United Kingdom, 2024, vol. 14976, pp. 160–171.","ama":"Rave G, Fordham DE, Bronstein AM, Silver DH. Enhancing predictive accuracy in embryo implantation: The Bonna algorithm and its clinical implications. In: <i>First International Conference on Artificial Intelligence in Healthcare</i>. Vol 14976. Springer Nature; 2024:160-171. doi:<a href=\"https://doi.org/10.1007/978-3-031-67285-9_12\">10.1007/978-3-031-67285-9_12</a>","apa":"Rave, G., Fordham, D. E., Bronstein, A. M., &#38; Silver, D. H. (2024). Enhancing predictive accuracy in embryo implantation: The Bonna algorithm and its clinical implications. In <i>First International Conference on Artificial Intelligence in Healthcare</i> (Vol. 14976, pp. 160–171). Swansea, United Kingdom: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-67285-9_12\">https://doi.org/10.1007/978-3-031-67285-9_12</a>","mla":"Rave, Gilad, et al. “Enhancing Predictive Accuracy in Embryo Implantation: The Bonna Algorithm and Its Clinical Implications.” <i>First International Conference on Artificial Intelligence in Healthcare</i>, vol. 14976, Springer Nature, 2024, pp. 160–71, doi:<a href=\"https://doi.org/10.1007/978-3-031-67285-9_12\">10.1007/978-3-031-67285-9_12</a>.","chicago":"Rave, Gilad, Daniel E. Fordham, Alex M. Bronstein, and David H. Silver. “Enhancing Predictive Accuracy in Embryo Implantation: The Bonna Algorithm and Its Clinical Implications.” In <i>First International Conference on Artificial Intelligence in Healthcare</i>, 14976:160–71. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/978-3-031-67285-9_12\">https://doi.org/10.1007/978-3-031-67285-9_12</a>.","ista":"Rave G, Fordham DE, Bronstein AM, Silver DH. 2024. Enhancing predictive accuracy in embryo implantation: The Bonna algorithm and its clinical implications. First International Conference on Artificial Intelligence in Healthcare. AIiH: Artificial Intelligence in Healthcare, LNCS, vol. 14976, 160–171.","short":"G. Rave, D.E. Fordham, A.M. Bronstein, D.H. Silver, in:, First International Conference on Artificial Intelligence in Healthcare, Springer Nature, 2024, pp. 160–171."},"day":"15","publication":"First International Conference on Artificial Intelligence in Healthcare","quality_controlled":"1"},{"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2304.00124","open_access":"1"}],"page":"999-1054","month":"06","doi":"10.1007/s00222-024-01250-8","date_published":"2024-06-01T00:00:00Z","arxiv":1,"external_id":{"arxiv":["2304.00124"]},"publication_identifier":{"issn":["0020-9910"],"eissn":["1432-1297"]},"_id":"22065","quality_controlled":"1","das_tickbox":"1","publication":"Inventiones mathematicae","citation":{"ista":"Killip R, Laurens T, Vişan M. 2024. Sharp well-posedness for the Benjamin–Ono equation. Inventiones mathematicae. 236(3), 999–1054.","short":"R. Killip, T. Laurens, M. Vişan, Inventiones Mathematicae 236 (2024) 999–1054.","mla":"Killip, Rowan, et al. “Sharp Well-Posedness for the Benjamin–Ono Equation.” <i>Inventiones Mathematicae</i>, vol. 236, no. 3, Springer Nature, 2024, pp. 999–1054, doi:<a href=\"https://doi.org/10.1007/s00222-024-01250-8\">10.1007/s00222-024-01250-8</a>.","chicago":"Killip, Rowan, Thierry Laurens, and Monica Vişan. “Sharp Well-Posedness for the Benjamin–Ono Equation.” <i>Inventiones Mathematicae</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00222-024-01250-8\">https://doi.org/10.1007/s00222-024-01250-8</a>.","apa":"Killip, R., Laurens, T., &#38; Vişan, M. (2024). Sharp well-posedness for the Benjamin–Ono equation. <i>Inventiones Mathematicae</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00222-024-01250-8\">https://doi.org/10.1007/s00222-024-01250-8</a>","ama":"Killip R, Laurens T, Vişan M. Sharp well-posedness for the Benjamin–Ono equation. <i>Inventiones mathematicae</i>. 2024;236(3):999-1054. doi:<a href=\"https://doi.org/10.1007/s00222-024-01250-8\">10.1007/s00222-024-01250-8</a>","ieee":"R. Killip, T. Laurens, and M. Vişan, “Sharp well-posedness for the Benjamin–Ono equation,” <i>Inventiones mathematicae</i>, vol. 236, no. 3. Springer Nature, pp. 999–1054, 2024."},"day":"01","publication_status":"published","year":"2024","abstract":[{"lang":"eng","text":"The Benjamin–Ono equation is shown to be well-posed, both on the line and on the circle, in the Sobolev spaces H^s for s > -1/2. The proof rests on a new gauge transformation and benefits from our introduction of a modified Lax pair representation of the full hierarchy. As we will show, these developments yield important additional dividends beyond well-posedness, including (i) the unification of the diverse approaches to polynomial conservation laws; (ii) a generalization of Gérard’s explicit formula to the full hierarchy; and (iii) new virial-type identities covering all equations in the hierarchy."}],"status":"public","title":"Sharp well-posedness for the Benjamin–Ono equation","OA_place":"repository","intvolume":"       236","issue":"3","fulldoi":"https://doi.org/10.1007/s00222-024-01250-8","language":[{"iso":"eng"}],"scopus_import":"1","oa":1,"article_processing_charge":"No","author":[{"full_name":"Killip, Rowan","last_name":"Killip","first_name":"Rowan"},{"full_name":"Laurens, Thierry","last_name":"Laurens","first_name":"Thierry"},{"full_name":"Visan, Monica","last_name":"Visan","first_name":"Monica","id":"056daca0-b8d1-11f0-964f-f91054abf8ca"}],"OA_type":"green","volume":236,"article_type":"original","oa_version":"Preprint","publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-06-19T08:13:06Z","date_updated":"2026-06-30T07:11:40Z","extern":"1"},{"publication_status":"published","quality_controlled":"1","publication":"Journal of the European Mathematical Society","day":"26","citation":{"chicago":"Harrop-Griffiths, Benjamin, Rowan Killip, Maria Ntekoume, and Monica Vişan. “Global Well-Posedness for the Derivative Nonlinear Schrödinger Equation in L^2(R).” <i>Journal of the European Mathematical Society</i>. EMS Press, 2024. <a href=\"https://doi.org/10.4171/jems/1490\">https://doi.org/10.4171/jems/1490</a>.","mla":"Harrop-Griffiths, Benjamin, et al. “Global Well-Posedness for the Derivative Nonlinear Schrödinger Equation in L^2(R).” <i>Journal of the European Mathematical Society</i>, vol. 28, no. 2, EMS Press, 2024, pp. 843–924, doi:<a href=\"https://doi.org/10.4171/jems/1490\">10.4171/jems/1490</a>.","ista":"Harrop-Griffiths B, Killip R, Ntekoume M, Vişan M. 2024. Global well-posedness for the derivative nonlinear Schrödinger equation in L^2(R). Journal of the European Mathematical Society. 28(2), 843–924.","short":"B. Harrop-Griffiths, R. Killip, M. Ntekoume, M. Vişan, Journal of the European Mathematical Society 28 (2024) 843–924.","ama":"Harrop-Griffiths B, Killip R, Ntekoume M, Vişan M. Global well-posedness for the derivative nonlinear Schrödinger equation in L^2(R). <i>Journal of the European Mathematical Society</i>. 2024;28(2):843-924. doi:<a href=\"https://doi.org/10.4171/jems/1490\">10.4171/jems/1490</a>","ieee":"B. Harrop-Griffiths, R. Killip, M. Ntekoume, and M. Vişan, “Global well-posedness for the derivative nonlinear Schrödinger equation in L^2(R),” <i>Journal of the European Mathematical Society</i>, vol. 28, no. 2. EMS Press, pp. 843–924, 2024.","apa":"Harrop-Griffiths, B., Killip, R., Ntekoume, M., &#38; Vişan, M. (2024). Global well-posedness for the derivative nonlinear Schrödinger equation in L^2(R). <i>Journal of the European Mathematical Society</i>. EMS Press. <a href=\"https://doi.org/10.4171/jems/1490\">https://doi.org/10.4171/jems/1490</a>"},"_id":"22062","OA_place":"repository","status":"public","title":"Global well-posedness for the derivative nonlinear Schrödinger equation in L^2(R)","abstract":[{"lang":"eng","text":"We prove that the derivative nonlinear Schrödinger equation in one space dimension is globally well-posed on the line in L^2 (R), which is the scaling-critical space for this equation."}],"year":"2024","month":"06","page":"843-924","type":"journal_article","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2204.12548","open_access":"1"}],"publication_identifier":{"eissn":["1435-9863"],"issn":["1435-9855"]},"external_id":{"arxiv":["2204.12548"]},"arxiv":1,"doi":"10.4171/jems/1490","date_published":"2024-06-26T00:00:00Z","publisher":"EMS Press","article_type":"original","oa_version":"Preprint","volume":28,"extern":"1","date_updated":"2026-06-30T07:04:07Z","date_created":"2026-06-19T08:11:46Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.4171/jems/1490","issue":"2","intvolume":"        28","mathsc":["35Q55"],"OA_type":"green","author":[{"last_name":"Harrop-Griffiths","full_name":"Harrop-Griffiths, Benjamin","first_name":"Benjamin"},{"last_name":"Killip","full_name":"Killip, Rowan","first_name":"Rowan"},{"first_name":"Maria","last_name":"Ntekoume","full_name":"Ntekoume, Maria"},{"id":"056daca0-b8d1-11f0-964f-f91054abf8ca","first_name":"Monica","last_name":"Visan","full_name":"Visan, Monica"}],"article_processing_charge":"No","scopus_import":"1","oa":1}]