[{"scopus_import":"1","day":"01","arxiv":1,"doi":"10.1137/16m1097808","publisher":"Society for Industrial & Applied Mathematics","main_file_link":[{"url":"https://arxiv.org/abs/1504.07056","open_access":"1"}],"year":"2021","intvolume":" 50","language":[{"iso":"eng"}],"external_id":{"arxiv":["1504.07056"]},"date_created":"2022-08-17T07:54:45Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"oa_version":"Preprint","article_type":"original","abstract":[{"lang":"eng","text":"We present a deterministic (1+𝑜(1))-approximation (𝑛1/2+𝑜(1)+đ·1+𝑜(1))-time algorithm for solving the single-source shortest paths problem on distributed weighted networks (the \\sf CONGEST model); here 𝑛 is the number of nodes in the network, đ· is its (hop) diameter, and edge weights are positive integers from 1 to poly(𝑛). This is the first nontrivial deterministic algorithm for this problem. It also improves (i) the running time of the randomized (1+𝑜(1))-approximation đ‘‚Ìƒ (đ‘›âˆšđ·1/4+đ·)-time algorithm of Nanongkai [in Proceedings of STOC, 2014, pp. 565--573] by a factor of as large as 𝑛1/8, and (ii) the 𝑂(𝜖−1log𝜖−1)-approximation factor of Lenzen and Patt-Shamir's đ‘‚Ìƒ (𝑛1/2+𝜖+đ·)-time algorithm [in Proceedings of STOC, 2013, pp. 381--390] within the same running time. (Throughout, we use đ‘‚Ìƒ (⋅) to hide polylogarithmic factors in 𝑛.) Our running time matches the known time lower bound of Ω(𝑛/logđ‘›â€Ÿâ€Ÿâ€Ÿâ€Ÿâ€Ÿâ€Ÿâ€Ÿâˆš+đ·) [M. Elkin, SIAM J. Comput., 36 (2006), pp. 433--456], thus essentially settling the status of this problem which was raised at least a decade ago [M. Elkin, SIGACT News, 35 (2004), pp. 40--57]. It also implies a (2+𝑜(1))-approximation (𝑛1/2+𝑜(1)+đ·1+𝑜(1))-time algorithm for approximating a network's weighted diameter which almost matches the lower bound by Holzer and Pinsker [in Proceedings of OPODIS, 2015, Schloss Dagstuhl. Leibniz-Zent. Inform., Wadern, Germany, 2016, 6]. In achieving this result, we develop two techniques which might be of independent interest and useful in other settings: (i) a deterministic process that replaces the “hitting set argument” commonly used for shortest paths computation in various settings, and (ii) a simple, deterministic construction of an (𝑛𝑜(1),𝑜(1))-hop set of size 𝑛1+𝑜(1). We combine these techniques with many distributed algorithmic techniques, some of which are from problems that are not directly related to shortest paths, e.g., ruling sets [A. V. Goldberg, S. A. Plotkin, and G. E. Shannon, SIAM J. Discrete Math., 1 (1988), pp. 434--446], source detection [C. Lenzen and D. Peleg, in Proceedings of PODC, 2013, pp. 375--382], and partial distance estimation [C. Lenzen and B. Patt-Shamir, in Proceedings of PODC, 2015, pp. 153--162]. Our hop set construction also leads to single-source shortest paths algorithms in two other settings: (i) a (1+𝑜(1))-approximation 𝑛𝑜(1)-time algorithm on congested cliques, and (ii) a (1+𝑜(1))-approximation 𝑛𝑜(1)-pass 𝑛1+𝑜(1)-space streaming algorithm. The first result answers an open problem in [D. Nanongkai, in Proceedings of STOC, 2014, pp. 565--573]. The second result partially answers an open problem raised by McGregor in 2006 [List of Open Problems in Sublinear Algorithms: Problem 14]."}],"volume":50,"month":"05","date_updated":"2024-11-06T12:22:31Z","issue":"3","_id":"11886","status":"public","type":"journal_article","publication_identifier":{"issn":["0097-5397"],"eissn":["1095-7111"]},"article_processing_charge":"No","citation":{"apa":"Henzinger, M., Krinninger, S., & Nanongkai, D. (2021). A deterministic almost-tight distributed algorithm for approximating single-source shortest paths. SIAM Journal on Computing. Society for Industrial & Applied Mathematics. https://doi.org/10.1137/16m1097808","ama":"Henzinger M, Krinninger S, Nanongkai D. A deterministic almost-tight distributed algorithm for approximating single-source shortest paths. SIAM Journal on Computing. 2021;50(3):STOC16-98-STOC16-137. doi:10.1137/16m1097808","chicago":"Henzinger, Monika, Sebastian Krinninger, and Danupon Nanongkai. “A Deterministic Almost-Tight Distributed Algorithm for Approximating Single-Source Shortest Paths.” SIAM Journal on Computing. Society for Industrial & Applied Mathematics, 2021. https://doi.org/10.1137/16m1097808.","ieee":"M. Henzinger, S. Krinninger, and D. Nanongkai, “A deterministic almost-tight distributed algorithm for approximating single-source shortest paths,” SIAM Journal on Computing, vol. 50, no. 3. Society for Industrial & Applied Mathematics, pp. STOC16-98-STOC16-137, 2021.","mla":"Henzinger, Monika, et al. “A Deterministic Almost-Tight Distributed Algorithm for Approximating Single-Source Shortest Paths.” SIAM Journal on Computing, vol. 50, no. 3, Society for Industrial & Applied Mathematics, 2021, pp. STOC16-98-STOC16-137, doi:10.1137/16m1097808.","short":"M. Henzinger, S. Krinninger, D. Nanongkai, SIAM Journal on Computing 50 (2021) STOC16-98-STOC16-137.","ista":"Henzinger M, Krinninger S, Nanongkai D. 2021. A deterministic almost-tight distributed algorithm for approximating single-source shortest paths. SIAM Journal on Computing. 50(3), STOC16-98-STOC16-137."},"quality_controlled":"1","extern":"1","publication":"SIAM Journal on Computing","page":"STOC16-98-STOC16-137","publication_status":"published","date_published":"2021-05-01T00:00:00Z","author":[{"full_name":"Henzinger, Monika H","last_name":"Henzinger","orcid":"0000-0002-5008-6530","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630"},{"first_name":"Sebastian","last_name":"Krinninger","full_name":"Krinninger, Sebastian"},{"full_name":"Nanongkai, Danupon","last_name":"Nanongkai","first_name":"Danupon"}],"title":"A deterministic almost-tight distributed algorithm for approximating single-source shortest paths"},{"article_processing_charge":"No","citation":{"mla":"Bergamaschi, Thiago, et al. “New Techniques and Fine-Grained Hardness for Dynamic near-Additive Spanners.” 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 1836–55, doi:10.1137/1.9781611976465.110.","ieee":"T. Bergamaschi, M. Henzinger, M. P. Gutenberg, V. V. Williams, and N. Wein, “New techniques and fine-grained hardness for dynamic near-additive spanners,” in 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Alexandria, VA, United States, 2021, pp. 1836–1855.","chicago":"Bergamaschi, Thiago, Monika Henzinger, Maximilian Probst Gutenberg, Virginia Vassilevska Williams, and Nicole Wein. “New Techniques and Fine-Grained Hardness for Dynamic near-Additive Spanners.” In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, 1836–55. Society for Industrial and Applied Mathematics, 2021. https://doi.org/10.1137/1.9781611976465.110.","ista":"Bergamaschi T, Henzinger M, Gutenberg MP, Williams VV, Wein N. 2021. New techniques and fine-grained hardness for dynamic near-additive spanners. 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 1836–1855.","short":"T. Bergamaschi, M. Henzinger, M.P. Gutenberg, V.V. Williams, N. Wein, in:, 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 1836–1855.","apa":"Bergamaschi, T., Henzinger, M., Gutenberg, M. P., Williams, V. V., & Wein, N. (2021). New techniques and fine-grained hardness for dynamic near-additive spanners. In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms (pp. 1836–1855). Alexandria, VA, United States: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611976465.110","ama":"Bergamaschi T, Henzinger M, Gutenberg MP, Williams VV, Wein N. New techniques and fine-grained hardness for dynamic near-additive spanners. In: 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. Society for Industrial and Applied Mathematics; 2021:1836-1855. doi:10.1137/1.9781611976465.110"},"type":"conference","publication_identifier":{"eisbn":["978-1-61197-646-5"]},"_id":"11919","status":"public","month":"01","abstract":[{"lang":"eng","text":"Maintaining and updating shortest paths information in a graph is a fundamental problem with many applications. As computations on dense graphs can be prohibitively expensive, and it is preferable to perform the computations on a sparse skeleton of the given graph that roughly preserves the shortest paths information. Spanners and emulators serve this purpose. Unfortunately, very little is known about dynamically maintaining sparse spanners and emulators as the graph is modified by a sequence of edge insertions and deletions. This paper develops fast dynamic algorithms for spanner and emulator maintenance and provides evidence from fine-grained complexity that these algorithms are tight. For unweighted undirected m-edge n-node graphs we obtain the following results.\r\n\r\nUnder the popular OMv conjecture, there can be no decremental or incremental algorithm that maintains an n1+o(1) edge (purely additive) +nÎŽ-emulator for any ÎŽ < 1/2 with arbitrary polynomial preprocessing time and total update time m1+o(1). Also, under the Combinatorial k-Clique hypothesis, any fully dynamic combinatorial algorithm that maintains an n1+o(1) edge (1 + ∊, no(1))-spanner or emulator for small ∊ must either have preprocessing time mn1–o(1) or amortized update time m1–o(1). Both of our conditional lower bounds are tight.\r\n\r\nAs the above fully dynamic lower bound only applies to combinatorial algorithms, we also develop an algebraic spanner algorithm that improves over the m1–o(1) update time for dense graphs. For any constant ∊ ∊ (0, 1], there is a fully dynamic algorithm with worst-case update time O(n1.529) that whp maintains an n1+o(1) edge (1 + ∊, no(1))-spanner.\r\n\r\nOur new algebraic techniques allow us to also obtain a new fully dynamic algorithm for All-Pairs Shortest Paths (APSP) that can perform both edge updates and can report shortest paths in worst-case time O(n1.9), which are correct whp. This is the first path-reporting fully dynamic APSP algorithm with a truly subquadratic query time that beats O(n2.5) update time. It works against an oblivious adversary.\r\n\r\nFinally, we give two applications of our new dynamic spanner algorithms: (1) a fully dynamic (1 + ∊)-approximate APSP algorithm with update time O(n1.529) that can report approximate shortest paths in n1+o(1) time per query; previous subquadratic update/query algorithms could only report the distance, but not obtain the paths; (2) a fully dynamic algorithm for near-2-approximate Steiner tree maintenance with both terminal and edge updates."}],"date_updated":"2024-11-06T12:26:04Z","oa_version":"Preprint","conference":{"end_date":"2021-01-13","name":"SODA: Symposium on Discrete Algorithms","location":"Alexandria, VA, United States","start_date":"2021-01-10"},"title":"New techniques and fine-grained hardness for dynamic near-additive spanners","date_published":"2021-01-01T00:00:00Z","author":[{"last_name":"Bergamaschi","full_name":"Bergamaschi, Thiago","first_name":"Thiago"},{"full_name":"Henzinger, Monika H","last_name":"Henzinger","orcid":"0000-0002-5008-6530","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630"},{"last_name":"Gutenberg","full_name":"Gutenberg, Maximilian Probst","first_name":"Maximilian Probst"},{"first_name":"Virginia Vassilevska","full_name":"Williams, Virginia Vassilevska","last_name":"Williams"},{"first_name":"Nicole","last_name":"Wein","full_name":"Wein, Nicole"}],"page":"1836-1855","publication_status":"published","publication":"32nd Annual ACM-SIAM Symposium on Discrete Algorithms","extern":"1","quality_controlled":"1","publisher":"Society for Industrial and Applied Mathematics","arxiv":1,"doi":"10.1137/1.9781611976465.110","day":"01","scopus_import":"1","oa":1,"date_created":"2022-08-18T07:37:36Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"external_id":{"arxiv":["2010.10134"]},"year":"2021","main_file_link":[{"url":"https://arxiv.org/abs/2010.10134","open_access":"1"}]},{"oa_version":"Preprint","date_updated":"2024-11-06T12:26:16Z","month":"01","abstract":[{"text":"In the dynamic minimum set cover problem, a challenge is to minimize the update time while guaranteeing close to the optimal min(O(log n), f) approximation factor. (Throughout, m, n, f, and C are parameters denoting the maximum number of sets, number of elements, frequency, and the cost range.) In the high-frequency range, when f = Ω(log n), this was achieved by a deterministic O(log n)-approximation algorithm with O(f log n) amortized update time [Gupta et al. STOC'17]. In the low-frequency range, the line of work by Gupta et al. [STOC'17], Abboud et al. [STOC'19], and Bhattacharya et al. [ICALP'15, IPCO'17, FOCS'19] led to a deterministic (1 + ∊) f-approximation algorithm with O(f log(Cn)/∊2) amortized update time. In this paper we improve the latter update time and provide the first bounds that subsume (and sometimes improve) the state-of-the-art dynamic vertex cover algorithms. We obtain: (1) (1 + ∊) f-approximation ratio in O(f log2(Cn)/∊3) worst-case update time: No non-trivial worst-case update time was previously known for dynamic set cover. Our bound subsumes and improves by a logarithmic factor the O(log3 n/poly(∊)) worst-case update time for unweighted dynamic vertex cover (i.e., when f = 2 and C = 1) by Bhattacharya et al. [SODA'17]. (2) (1 + ∊) f-approximation ratio in O ((f2/∊3) + (f/∊2) log C) amortized update time: This result improves the previous O(f log (Cn)/∊2) update time bound for most values of f in the low-frequency range, i.e. whenever f = o(log n). It is the first that is independent of m and n. It subsumes the constant amortized update time of Bhattacharya and Kulkarni [SODA'19] for unweighted dynamic vertex cover (i.e., when f = 2 and C = 1). These results are achieved by leveraging the approximate complementary slackness and background schedulers techniques. These techniques were used in the local update scheme for dynamic vertex cover. Our main technical contribution is to adapt these techniques within the global update scheme of Bhattacharya et al. [FOCS'19] for the dynamic set cover problem.","lang":"eng"}],"status":"public","_id":"11920","citation":{"ista":"Bhattacharya S, Henzinger M, Nanongkai D, Wu X. 2021. Dynamic set cover: Improved amortized and worst-case update time. 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 2537–2549.","short":"S. Bhattacharya, M. Henzinger, D. Nanongkai, X. Wu, in:, 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 2537–2549.","mla":"Bhattacharya, Sayan, et al. “Dynamic Set Cover: Improved Amortized and Worst-Case Update Time.” 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 2537–49, doi:10.1137/1.9781611976465.150.","chicago":"Bhattacharya, Sayan, Monika Henzinger, Danupon Nanongkai, and Xiaowei Wu. “Dynamic Set Cover: Improved Amortized and Worst-Case Update Time.” In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, 2537–49. Society for Industrial and Applied Mathematics, 2021. https://doi.org/10.1137/1.9781611976465.150.","ieee":"S. Bhattacharya, M. Henzinger, D. Nanongkai, and X. Wu, “Dynamic set cover: Improved amortized and worst-case update time,” in 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Alexandria, VA, United States, 2021, pp. 2537–2549.","ama":"Bhattacharya S, Henzinger M, Nanongkai D, Wu X. Dynamic set cover: Improved amortized and worst-case update time. In: 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. Society for Industrial and Applied Mathematics; 2021:2537-2549. doi:10.1137/1.9781611976465.150","apa":"Bhattacharya, S., Henzinger, M., Nanongkai, D., & Wu, X. (2021). Dynamic set cover: Improved amortized and worst-case update time. In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms (pp. 2537–2549). Alexandria, VA, United States: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611976465.150"},"article_processing_charge":"No","publication_identifier":{"eisbn":["978-1-61197-646-5"]},"type":"conference","extern":"1","publication":"32nd Annual ACM-SIAM Symposium on Discrete Algorithms","quality_controlled":"1","page":"2537-2549","publication_status":"published","author":[{"last_name":"Bhattacharya","full_name":"Bhattacharya, Sayan","first_name":"Sayan"},{"first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","full_name":"Henzinger, Monika H","orcid":"0000-0002-5008-6530","last_name":"Henzinger"},{"full_name":"Nanongkai, Danupon","last_name":"Nanongkai","first_name":"Danupon"},{"full_name":"Wu, Xiaowei","last_name":"Wu","first_name":"Xiaowei"}],"date_published":"2021-01-01T00:00:00Z","conference":{"location":"Alexandria, VA, United States","start_date":"2021-01-10","name":"SODA: Symposium on Discrete Algorithms","end_date":"2021-01-13"},"title":"Dynamic set cover: Improved amortized and worst-case update time","scopus_import":"1","day":"01","publisher":"Society for Industrial and Applied Mathematics","doi":"10.1137/1.9781611976465.150","arxiv":1,"main_file_link":[{"url":"https://arxiv.org/abs/2002.11171","open_access":"1"}],"year":"2021","external_id":{"arxiv":["2002.11171"]},"language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-08-18T07:46:54Z"},{"publication_status":"published","page":"2799-2818","quality_controlled":"1","extern":"1","publication":"32nd Annual ACM-SIAM Symposium on Discrete Algorithms","title":"Tight bounds for online graph partitioning","conference":{"end_date":"2021-01-13","name":"SODA: Symposium on Discrete Algorithms","start_date":"2021-01-10","location":"Alexandria, VA, United States"},"author":[{"orcid":"0000-0002-5008-6530","last_name":"Henzinger","full_name":"Henzinger, Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H"},{"last_name":"Neumann","full_name":"Neumann, Stefan","first_name":"Stefan"},{"last_name":"RĂ€cke","full_name":"RĂ€cke, Harald","first_name":"Harald"},{"full_name":"Schmid, Stefan","last_name":"Schmid","first_name":"Stefan"}],"date_published":"2021-01-01T00:00:00Z","date_updated":"2024-11-06T12:26:29Z","abstract":[{"text":"We consider the following online optimization problem. We are given a graph G and each vertex of the graph is assigned to one of ℓ servers, where servers have capacity k and we assume that the graph has ℓ · k vertices. Initially, G does not contain any edges and then the edges of G are revealed one-by-one. The goal is to design an online algorithm ONL, which always places the connected components induced by the revealed edges on the same server and never exceeds the server capacities by more than ∊k for constant ∊ > 0. Whenever ONL learns about a new edge, the algorithm is allowed to move vertices from one server to another. Its objective is to minimize the number of vertex moves. More specifically, ONL should minimize the competitive ratio: the total cost ONL incurs compared to an optimal offline algorithm OPT.\r\n\r\nThe problem was recently introduced by Henzinger et al. (SIGMETRICS'2019) and is related to classic online problems such as online paging and scheduling. It finds applications in the context of resource allocation in the cloud and for optimizing distributed data structures such as union–find data structures.\r\n\r\nOur main contribution is a polynomial-time randomized algorithm, that is asymptotically optimal: we derive an upper bound of O(log ℓ + log k) on its competitive ratio and show that no randomized online algorithm can achieve a competitive ratio of less than Ω(log ℓ + log k). We also settle the open problem of the achievable competitive ratio by deterministic online algorithms, by deriving a competitive ratio of Θ(ℓ log k); to this end, we present an improved lower bound as well as a deterministic polynomial-time online algorithm.\r\n\r\nOur algorithms rely on a novel technique which combines efficient integer programming with a combinatorial approach for maintaining ILP solutions. More precisely, we use an ILP to assign the connected components induced by the revealed edges to the servers; this is similar to existing approximation schemes for scheduling algorithms. However, we cannot obtain our competitive ratios if we run the ILP after each edge insertion. Instead, we identify certain types of edge insertions, after which we can manually obtain an optimal ILP solution at zero cost without resolving the ILP. We believe this technique is of independent interest and will find further applications in the future.","lang":"eng"}],"month":"01","oa_version":"Preprint","publication_identifier":{"eisbn":["978-161197646-5"]},"type":"conference","citation":{"ama":"Henzinger M, Neumann S, RĂ€cke H, Schmid S. Tight bounds for online graph partitioning. In: 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. Society for Industrial and Applied Mathematics; 2021:2799-2818. doi:10.1137/1.9781611976465.166","apa":"Henzinger, M., Neumann, S., RĂ€cke, H., & Schmid, S. (2021). Tight bounds for online graph partitioning. In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms (pp. 2799–2818). Alexandria, VA, United States: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611976465.166","ista":"Henzinger M, Neumann S, RĂ€cke H, Schmid S. 2021. Tight bounds for online graph partitioning. 32nd Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 2799–2818.","short":"M. Henzinger, S. Neumann, H. RĂ€cke, S. Schmid, in:, 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 2799–2818.","mla":"Henzinger, Monika, et al. “Tight Bounds for Online Graph Partitioning.” 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2021, pp. 2799–818, doi:10.1137/1.9781611976465.166.","ieee":"M. Henzinger, S. Neumann, H. RĂ€cke, and S. Schmid, “Tight bounds for online graph partitioning,” in 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, Alexandria, VA, United States, 2021, pp. 2799–2818.","chicago":"Henzinger, Monika, Stefan Neumann, Harald RĂ€cke, and Stefan Schmid. “Tight Bounds for Online Graph Partitioning.” In 32nd Annual ACM-SIAM Symposium on Discrete Algorithms, 2799–2818. Society for Industrial and Applied Mathematics, 2021. https://doi.org/10.1137/1.9781611976465.166."},"article_processing_charge":"No","status":"public","_id":"11923","year":"2021","main_file_link":[{"url":"https://arxiv.org/abs/2011.01017","open_access":"1"}],"date_created":"2022-08-18T10:31:58Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"external_id":{"arxiv":["2011.01017"]},"language":[{"iso":"eng"}],"scopus_import":"1","doi":"10.1137/1.9781611976465.166","arxiv":1,"publisher":"Society for Industrial and Applied Mathematics","day":"01"},{"date_updated":"2024-11-06T12:27:01Z","month":"01","abstract":[{"text":"Clustering is one of the most fundamental problems in unsupervised learning with a large number of applications. However, classical clustering algorithms assume that the data is static, thus failing to capture many real-world applications where data is constantly changing and evolving. Driven by this, we study the metric k-center clustering problem in the fully dynamic setting, where the goal is to efficiently maintain a clustering while supporting an intermixed sequence of insertions and deletions of points. This model also supports queries of the form (1) report whether a given point is a center or (2) determine the cluster a point is assigned to. We present a deterministic dynamic algorithm for the k-center clustering problem that provably achieves a (2 + ∊)-approximation in nearly logarithmic update and query time, if the underlying metric has bounded doubling dimension, its aspect ratio is bounded by a polynomial and ∊ is a constant. An important feature of our algorithm is that the update and query times are independent of k. We confirm the practical relevance of this feature via an extensive experimental study which shows that for large values of k, our algorithmic construction outperforms the state-of-the-art algorithm in terms of solution quality and running time.","lang":"eng"}],"oa_version":"Published Version","scopus_import":"1","publication_identifier":{"issn":["2164-0300"],"eisbn":["978-1-61197-647-2"]},"doi":"10.1137/1.9781611976472.11","type":"conference","citation":{"ama":"Goranci G, Henzinger M, Leniowski D, Schulz C, Svozil A. Fully dynamic k-center clustering in low dimensional metrics. In: 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments. Society for Industrial and Applied Mathematics; 2021:143-153. doi:10.1137/1.9781611976472.11","apa":"Goranci, G., Henzinger, M., Leniowski, D., Schulz, C., & Svozil, A. (2021). Fully dynamic k-center clustering in low dimensional metrics. In 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments (pp. 143–153). Alexandria, VA, United States: Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611976472.11","ista":"Goranci G, Henzinger M, Leniowski D, Schulz C, Svozil A. 2021. Fully dynamic k-center clustering in low dimensional metrics. 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments. ALENEX: Symposium on Algorithm Engineering and Experiments, 143–153.","short":"G. Goranci, M. Henzinger, D. Leniowski, C. Schulz, A. Svozil, in:, 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments, Society for Industrial and Applied Mathematics, 2021, pp. 143–153.","mla":"Goranci, Gramoz, et al. “Fully Dynamic K-Center Clustering in Low Dimensional Metrics.” 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments, Society for Industrial and Applied Mathematics, 2021, pp. 143–53, doi:10.1137/1.9781611976472.11.","chicago":"Goranci, Gramoz, Monika Henzinger, Dariusz Leniowski, Christian Schulz, and Alexander Svozil. “Fully Dynamic K-Center Clustering in Low Dimensional Metrics.” In 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments, 143–53. Society for Industrial and Applied Mathematics, 2021. https://doi.org/10.1137/1.9781611976472.11.","ieee":"G. Goranci, M. Henzinger, D. Leniowski, C. Schulz, and A. Svozil, “Fully dynamic k-center clustering in low dimensional metrics,” in 2021 Proceedings of the Workshop on Algorithm Engineering and Experiments, Alexandria, VA, United States, 2021, pp. 143–153."},"publisher":"Society for Industrial and Applied Mathematics","article_processing_charge":"No","status":"public","_id":"11931","day":"01","publication_status":"published","page":"143 -153","year":"2021","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1137/1.9781611976472.11"}],"publication":"2021 Proceedings of the Workshop on Algorithm Engineering and Experiments","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-08-19T07:33:37Z","title":"Fully dynamic k-center clustering in low dimensional metrics","conference":{"start_date":"2021-01-10","location":"Alexandria, VA, United States","end_date":"2021-01-11","name":"ALENEX: Symposium on Algorithm Engineering and Experiments"},"oa":1,"language":[{"iso":"eng"}],"author":[{"full_name":"Goranci, Gramoz","last_name":"Goranci","first_name":"Gramoz"},{"last_name":"Henzinger","orcid":"0000-0002-5008-6530","full_name":"Henzinger, Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H"},{"first_name":"Dariusz","full_name":"Leniowski, Dariusz","last_name":"Leniowski"},{"last_name":"Schulz","full_name":"Schulz, Christian","first_name":"Christian"},{"first_name":"Alexander","last_name":"Svozil","full_name":"Svozil, Alexander"}],"date_published":"2021-01-01T00:00:00Z"},{"oa_version":"Published Version","issue":"13","date_updated":"2024-10-14T11:43:06Z","month":"03","volume":60,"abstract":[{"lang":"eng","text":"Controlling the selectivity of a chemical reaction with external stimuli is common in thermal processes, but rare in visible-light photocatalysis. Here we show that the redox potential of a carbon nitride photocatalyst (CN-OA-m) can be tuned by changing the irradiation wavelength to generate electron holes with different oxidation potentials. This tuning was the key to realizing photo-chemo-enzymatic cascades that give either the (S)- or the (R)-enantiomer of phenylethanol. In combination with an unspecific peroxygenase from Agrocybe aegerita, green light irradiation of CN-OA-m led to the enantioselective hydroxylation of ethylbenzene to (R)-1-phenylethanol (99 % ee). In contrast, blue light irradiation triggered the photocatalytic oxidation of ethylbenzene to acetophenone, which in turn was enantioselectively reduced with an alcohol dehydrogenase from Rhodococcus ruber to form (S)-1-phenylethanol (93 % ee)."}],"article_type":"original","status":"public","_id":"11956","citation":{"chicago":"Schmermund, Luca, Susanne Reischauer, Sarah Bierbaumer, Christoph K. Winkler, Alba Diaz‐Rodriguez, Lee J. Edwards, Selin Kara, et al. “Chromoselective Photocatalysis Enables Stereocomplementary Biocatalytic Pathways.” Angewandte Chemie International Edition. Wiley, 2021. https://doi.org/10.1002/anie.202100164.","ieee":"L. Schmermund et al., “Chromoselective photocatalysis enables stereocomplementary biocatalytic pathways,” Angewandte Chemie International Edition, vol. 60, no. 13. Wiley, pp. 6965–6969, 2021.","mla":"Schmermund, Luca, et al. “Chromoselective Photocatalysis Enables Stereocomplementary Biocatalytic Pathways.” Angewandte Chemie International Edition, vol. 60, no. 13, Wiley, 2021, pp. 6965–69, doi:10.1002/anie.202100164.","short":"L. Schmermund, S. Reischauer, S. Bierbaumer, C.K. Winkler, A. Diaz‐Rodriguez, L.J. Edwards, S. Kara, T. Mielke, J. Cartwright, G. Grogan, B. Pieber, W. Kroutil, Angewandte Chemie International Edition 60 (2021) 6965–6969.","ista":"Schmermund L, Reischauer S, Bierbaumer S, Winkler CK, Diaz‐Rodriguez A, Edwards LJ, Kara S, Mielke T, Cartwright J, Grogan G, Pieber B, Kroutil W. 2021. Chromoselective photocatalysis enables stereocomplementary biocatalytic pathways. Angewandte Chemie International Edition. 60(13), 6965–6969.","apa":"Schmermund, L., Reischauer, S., Bierbaumer, S., Winkler, C. K., Diaz‐Rodriguez, A., Edwards, L. J., 
 Kroutil, W. (2021). Chromoselective photocatalysis enables stereocomplementary biocatalytic pathways. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.202100164","ama":"Schmermund L, Reischauer S, Bierbaumer S, et al. Chromoselective photocatalysis enables stereocomplementary biocatalytic pathways. Angewandte Chemie International Edition. 2021;60(13):6965-6969. doi:10.1002/anie.202100164"},"article_processing_charge":"No","publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"type":"journal_article","extern":"1","publication":"Angewandte Chemie International Edition","quality_controlled":"1","publication_status":"published","page":"6965-6969","author":[{"full_name":"Schmermund, Luca","last_name":"Schmermund","first_name":"Luca"},{"last_name":"Reischauer","full_name":"Reischauer, Susanne","first_name":"Susanne"},{"full_name":"Bierbaumer, Sarah","last_name":"Bierbaumer","first_name":"Sarah"},{"full_name":"Winkler, Christoph K.","last_name":"Winkler","first_name":"Christoph K."},{"first_name":"Alba","full_name":"Diaz‐Rodriguez, Alba","last_name":"Diaz‐Rodriguez"},{"first_name":"Lee J.","full_name":"Edwards, Lee J.","last_name":"Edwards"},{"full_name":"Kara, Selin","last_name":"Kara","first_name":"Selin"},{"first_name":"Tamara","last_name":"Mielke","full_name":"Mielke, Tamara"},{"full_name":"Cartwright, Jared","last_name":"Cartwright","first_name":"Jared"},{"first_name":"Gideon","last_name":"Grogan","full_name":"Grogan, Gideon"},{"id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us","last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us"},{"full_name":"Kroutil, Wolfgang","last_name":"Kroutil","first_name":"Wolfgang"}],"date_published":"2021-03-22T00:00:00Z","title":"Chromoselective photocatalysis enables stereocomplementary biocatalytic pathways","scopus_import":"1","day":"22","publisher":"Wiley","doi":"10.1002/anie.202100164","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/anie.202100164"}],"year":"2021","intvolume":" 60","language":[{"iso":"eng"}],"oa":1,"date_created":"2022-08-24T10:47:16Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"title":"Recyclable, bifunctional metallaphotocatalysts for C−S cross‐coupling reactions","date_published":"2021-08-01T00:00:00Z","author":[{"full_name":"Reischauer, Susanne","last_name":"Reischauer","first_name":"Susanne"},{"id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us","last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us"}],"publication_status":"published","page":"716-720","publication":"ChemPhotoChem","extern":"1","quality_controlled":"1","article_processing_charge":"No","citation":{"apa":"Reischauer, S., & Pieber, B. (2021). Recyclable, bifunctional metallaphotocatalysts for C−S cross‐coupling reactions. ChemPhotoChem. Wiley. https://doi.org/10.1002/cptc.202100062","ama":"Reischauer S, Pieber B. Recyclable, bifunctional metallaphotocatalysts for C−S cross‐coupling reactions. ChemPhotoChem. 2021;5(8):716-720. doi:10.1002/cptc.202100062","mla":"Reischauer, Susanne, and BartholomĂ€us Pieber. “Recyclable, Bifunctional Metallaphotocatalysts for C−S Cross‐coupling Reactions.” ChemPhotoChem, vol. 5, no. 8, Wiley, 2021, pp. 716–20, doi:10.1002/cptc.202100062.","ieee":"S. Reischauer and B. Pieber, “Recyclable, bifunctional metallaphotocatalysts for C−S cross‐coupling reactions,” ChemPhotoChem, vol. 5, no. 8. Wiley, pp. 716–720, 2021.","chicago":"Reischauer, Susanne, and BartholomĂ€us Pieber. “Recyclable, Bifunctional Metallaphotocatalysts for C−S Cross‐coupling Reactions.” ChemPhotoChem. Wiley, 2021. https://doi.org/10.1002/cptc.202100062.","ista":"Reischauer S, Pieber B. 2021. Recyclable, bifunctional metallaphotocatalysts for C−S cross‐coupling reactions. ChemPhotoChem. 5(8), 716–720.","short":"S. Reischauer, B. Pieber, ChemPhotoChem 5 (2021) 716–720."},"type":"journal_article","publication_identifier":{"eissn":["2367-0932"]},"_id":"11965","status":"public","abstract":[{"lang":"eng","text":"Metallaphotocatalytic cross-coupling reactions are typically carried out by combining homogeneous or heterogeneous photocatalysts with a soluble nickel complex. Previous attempts to realize recyclable catalytic systems use immobilized iridium complexes to harvest light. We present bifunctional materials based on semiconductors for metallaphotocatalytic C−S cross-coupling reactions that can be reused without losing their catalytic activity. Key to the success is the permanent immobilization of a nickel complex on the surface of a heterogeneous semiconductor through phosphonic acid anchors. The optimized catalyst harvests a broad range of the visible light spectrum and requires a nickel loading of only ∌0.1 mol %."}],"volume":5,"month":"08","date_updated":"2024-10-14T11:43:32Z","issue":"8","article_type":"letter_note","oa_version":"Published Version","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-08-25T08:31:11Z","language":[{"iso":"eng"}],"intvolume":" 5","year":"2021","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/cptc.202100062"}],"publisher":"Wiley","doi":"10.1002/cptc.202100062","day":"01","scopus_import":"1"},{"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-08-25T10:25:46Z","oa":1,"main_file_link":[{"url":"https://doi.org/10.1039/D1GC01284C","open_access":"1"}],"year":"2021","intvolume":" 23","day":"21","doi":"10.1039/d1gc01284c","publisher":"Royal Society of Chemistry","scopus_import":"1","author":[{"last_name":"Zhao","full_name":"Zhao, Zhouxiang","first_name":"Zhouxiang"},{"first_name":"Susanne","last_name":"Reischauer","full_name":"Reischauer, Susanne"},{"first_name":"BartholomĂ€us","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","full_name":"Pieber, BartholomĂ€us","orcid":"0000-0001-8689-388X","last_name":"Pieber"},{"last_name":"Delbianco","full_name":"Delbianco, Martina","first_name":"Martina"}],"date_published":"2021-06-21T00:00:00Z","title":"Carbon dot/TiO₂ nanocomposites as photocatalysts for metallaphotocatalytic carbon-heteroatom cross-couplings","quality_controlled":"1","publication":"Green Chemistry","extern":"1","page":"4524-4530","publication_status":"published","status":"public","_id":"11972","publication_identifier":{"eissn":["1463-9270"],"issn":["1463-9262"]},"type":"journal_article","citation":{"ista":"Zhao Z, Reischauer S, Pieber B, Delbianco M. 2021. Carbon dot/TiO₂ nanocomposites as photocatalysts for metallaphotocatalytic carbon-heteroatom cross-couplings. Green Chemistry. 23(12), 4524–4530.","short":"Z. Zhao, S. Reischauer, B. Pieber, M. Delbianco, Green Chemistry 23 (2021) 4524–4530.","mla":"Zhao, Zhouxiang, et al. “Carbon Dot/TiO₂ Nanocomposites as Photocatalysts for Metallaphotocatalytic Carbon-Heteroatom Cross-Couplings.” Green Chemistry, vol. 23, no. 12, Royal Society of Chemistry, 2021, pp. 4524–30, doi:10.1039/d1gc01284c.","chicago":"Zhao, Zhouxiang, Susanne Reischauer, BartholomĂ€us Pieber, and Martina Delbianco. “Carbon Dot/TiO₂ Nanocomposites as Photocatalysts for Metallaphotocatalytic Carbon-Heteroatom Cross-Couplings.” Green Chemistry. Royal Society of Chemistry, 2021. https://doi.org/10.1039/d1gc01284c.","ieee":"Z. Zhao, S. Reischauer, B. Pieber, and M. Delbianco, “Carbon dot/TiO₂ nanocomposites as photocatalysts for metallaphotocatalytic carbon-heteroatom cross-couplings,” Green Chemistry, vol. 23, no. 12. Royal Society of Chemistry, pp. 4524–4530, 2021.","ama":"Zhao Z, Reischauer S, Pieber B, Delbianco M. Carbon dot/TiO₂ nanocomposites as photocatalysts for metallaphotocatalytic carbon-heteroatom cross-couplings. Green Chemistry. 2021;23(12):4524-4530. doi:10.1039/d1gc01284c","apa":"Zhao, Z., Reischauer, S., Pieber, B., & Delbianco, M. (2021). Carbon dot/TiO₂ nanocomposites as photocatalysts for metallaphotocatalytic carbon-heteroatom cross-couplings. Green Chemistry. Royal Society of Chemistry. https://doi.org/10.1039/d1gc01284c"},"article_processing_charge":"No","oa_version":"Published Version","article_type":"original","date_updated":"2024-10-14T12:05:41Z","issue":"12","month":"06","volume":23,"abstract":[{"text":"Carbon dots have been previosly immobilized on titanium dioxide to generate photocatalysts for pollutant degradation and water splitting. Here we demonstrate that these nanocomposites are valuable photocatalysts for metallaphotocatalytic carbon–heteroatom cross-couplings. These sustainable materials show a large applicability, high photostability, excellent reusability, and broadly absorb across the visible-light spectrum.","lang":"eng"}]},{"main_file_link":[{"url":"https://doi.org/10.1016/j.isci.2021.102209","open_access":"1"}],"year":"2021","intvolume":" 24","language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-08-25T10:31:44Z","scopus_import":"1","day":"19","publisher":"Elsevier","doi":"10.1016/j.isci.2021.102209","publication":"iScience","extern":"1","quality_controlled":"1","publication_status":"published","author":[{"full_name":"Reischauer, Susanne","last_name":"Reischauer","first_name":"Susanne"},{"id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us","last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us"}],"article_number":"102209","date_published":"2021-03-19T00:00:00Z","title":"Emerging concepts in photocatalytic organic synthesis","oa_version":"Published Version","issue":"3","date_updated":"2024-10-14T12:05:29Z","abstract":[{"lang":"eng","text":"Visible light photocatalysis has become a powerful tool in organic synthesis that uses photons as traceless, sustainable reagents. Most of the activities in the field focus on the development of new reactions via common photoredox cycles, but recently a number of exciting new concepts and strategies entered less charted territories. We survey approaches that enable the use of longer wavelengths and show that the wavelength and intensity of photons are import parameters that enable tuning of the reactivity of a photocatalyst to control or change the selectivity of chemical reactions. In addition, we discuss recent efforts to substitute strong reductants, such as elemental lithium and sodium, by light and technological advances in the field."}],"month":"03","volume":24,"article_type":"review","_id":"11974","status":"public","citation":{"ama":"Reischauer S, Pieber B. Emerging concepts in photocatalytic organic synthesis. iScience. 2021;24(3). doi:10.1016/j.isci.2021.102209","apa":"Reischauer, S., & Pieber, B. (2021). Emerging concepts in photocatalytic organic synthesis. IScience. Elsevier. https://doi.org/10.1016/j.isci.2021.102209","short":"S. Reischauer, B. Pieber, IScience 24 (2021).","ista":"Reischauer S, Pieber B. 2021. Emerging concepts in photocatalytic organic synthesis. iScience. 24(3), 102209.","chicago":"Reischauer, Susanne, and BartholomĂ€us Pieber. “Emerging Concepts in Photocatalytic Organic Synthesis.” IScience. Elsevier, 2021. https://doi.org/10.1016/j.isci.2021.102209.","ieee":"S. Reischauer and B. Pieber, “Emerging concepts in photocatalytic organic synthesis,” iScience, vol. 24, no. 3. Elsevier, 2021.","mla":"Reischauer, Susanne, and BartholomĂ€us Pieber. “Emerging Concepts in Photocatalytic Organic Synthesis.” IScience, vol. 24, no. 3, 102209, Elsevier, 2021, doi:10.1016/j.isci.2021.102209."},"article_processing_charge":"No","publication_identifier":{"eissn":["2589-0042"]},"type":"journal_article"},{"oa_version":"Published Version","article_type":"letter_note","volume":23,"abstract":[{"text":"The cleavage of benzyl ethers by catalytic hydrogenolysis or Birch reduction suffers from poor functional group compatibility and limits their use as a protecting group. The visible-light-mediated debenzylation disclosed here renders benzyl ethers temporary protective groups, enabling new orthogonal protection strategies. Using 2,3-dichloro-5,6-dicyano-1,4-benzoquinone (DDQ) as a stoichiometric or catalytic photooxidant, benzyl ethers can be cleaved in the presence of azides, alkenes, and alkynes. The reaction time can be reduced from hours to minutes in continuous flow.","lang":"eng"}],"month":"01","date_updated":"2024-10-14T12:05:18Z","issue":"2","_id":"11981","status":"public","type":"journal_article","publication_identifier":{"eissn":["1523-7052"],"issn":["1523-7060"]},"article_processing_charge":"No","citation":{"ama":"Cavedon C, Sletten ET, Madani A, Niemeyer O, Seeberger PH, Pieber B. Visible-light-mediated oxidative debenzylation enables the use of benzyl ethers as temporary protecting groups. Organic Letters. 2021;23(2):514-518. doi:10.1021/acs.orglett.0c04026","apa":"Cavedon, C., Sletten, E. T., Madani, A., Niemeyer, O., Seeberger, P. H., & Pieber, B. (2021). Visible-light-mediated oxidative debenzylation enables the use of benzyl ethers as temporary protecting groups. Organic Letters. American Chemical Society. https://doi.org/10.1021/acs.orglett.0c04026","short":"C. Cavedon, E.T. Sletten, A. Madani, O. Niemeyer, P.H. Seeberger, B. Pieber, Organic Letters 23 (2021) 514–518.","ista":"Cavedon C, Sletten ET, Madani A, Niemeyer O, Seeberger PH, Pieber B. 2021. Visible-light-mediated oxidative debenzylation enables the use of benzyl ethers as temporary protecting groups. Organic Letters. 23(2), 514–518.","ieee":"C. Cavedon, E. T. Sletten, A. Madani, O. Niemeyer, P. H. Seeberger, and B. Pieber, “Visible-light-mediated oxidative debenzylation enables the use of benzyl ethers as temporary protecting groups,” Organic Letters, vol. 23, no. 2. American Chemical Society, pp. 514–518, 2021.","chicago":"Cavedon, Cristian, Eric T. Sletten, Amiera Madani, Olaf Niemeyer, Peter H. Seeberger, and BartholomĂ€us Pieber. “Visible-Light-Mediated Oxidative Debenzylation Enables the Use of Benzyl Ethers as Temporary Protecting Groups.” Organic Letters. American Chemical Society, 2021. https://doi.org/10.1021/acs.orglett.0c04026.","mla":"Cavedon, Cristian, et al. “Visible-Light-Mediated Oxidative Debenzylation Enables the Use of Benzyl Ethers as Temporary Protecting Groups.” Organic Letters, vol. 23, no. 2, American Chemical Society, 2021, pp. 514–18, doi:10.1021/acs.orglett.0c04026."},"quality_controlled":"1","pmid":1,"publication":"Organic Letters","extern":"1","page":"514-518","publication_status":"published","date_published":"2021-01-15T00:00:00Z","author":[{"first_name":"Cristian","full_name":"Cavedon, Cristian","last_name":"Cavedon"},{"full_name":"Sletten, Eric T.","last_name":"Sletten","first_name":"Eric T."},{"first_name":"Amiera","last_name":"Madani","full_name":"Madani, Amiera"},{"first_name":"Olaf","last_name":"Niemeyer","full_name":"Niemeyer, Olaf"},{"first_name":"Peter H.","last_name":"Seeberger","full_name":"Seeberger, Peter H."},{"last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us"}],"title":"Visible-light-mediated oxidative debenzylation enables the use of benzyl ethers as temporary protecting groups","scopus_import":"1","day":"15","doi":"10.1021/acs.orglett.0c04026","publisher":"American Chemical Society","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1021/acs.orglett.0c04026"}],"intvolume":" 23","year":"2021","language":[{"iso":"eng"}],"external_id":{"pmid":["33400534"]},"date_created":"2022-08-25T11:13:05Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1},{"oa_version":"Preprint","abstract":[{"lang":"eng","text":"Metallaphotocatalysis typically requires a photocatalyst to harness the energy of visible-light and transfer it to a transition metal catalyst to trigger chemical reactions. The most prominent example is the merger of photo- and nickel catalysis that unlocked various cross-couplings. However, the high reactivity of excited photocatalyst can lead to unwanted side reactions thus limiting this approach. Here we show that a bipyridine ligand that is subtly decorated with two carbazole groups forms a nickel complex that absorbs visible-light and promotes several carbon–heteroatom cross-couplings in the absence of an exogenous photocatalysts. The ligand can be polymerized in a simple one-step procedure to afford a porous organic polymer that can be used for heterogeneous nickel catalysis in the same reactions. The material can be easily recovered and reused multiple times maintaining high catalytic activity and selectivity."}],"month":"08","date_updated":"2024-10-14T12:05:05Z","_id":"12068","day":"04","status":"public","type":"preprint","doi":"10.26434/chemrxiv-2021-kt2wr","publisher":"ChemRxiv","article_processing_charge":"No","citation":{"chicago":"Cavedon, Cristian, Sebastian Gisbertz, Sarah Vogl, Noah Richter, Stefanie Schrottke, Christian Teutloff, Peter H. Seeberger, Arne Thomas, and BartholomĂ€us Pieber. “Photocatalyst-Free, Visible-Light-Mediated Nickel Catalyzed Carbon–Heteroatom Cross-Couplings.” ChemRxiv, n.d. https://doi.org/10.26434/chemrxiv-2021-kt2wr.","ieee":"C. Cavedon et al., “Photocatalyst-free, visible-light-mediated nickel catalyzed carbon–heteroatom cross-couplings.” ChemRxiv.","mla":"Cavedon, Cristian, et al. Photocatalyst-Free, Visible-Light-Mediated Nickel Catalyzed Carbon–Heteroatom Cross-Couplings. ChemRxiv, doi:10.26434/chemrxiv-2021-kt2wr.","short":"C. Cavedon, S. Gisbertz, S. Vogl, N. Richter, S. Schrottke, C. Teutloff, P.H. Seeberger, A. Thomas, B. Pieber, (n.d.).","ista":"Cavedon C, Gisbertz S, Vogl S, Richter N, Schrottke S, Teutloff C, Seeberger PH, Thomas A, Pieber B. Photocatalyst-free, visible-light-mediated nickel catalyzed carbon–heteroatom cross-couplings. 10.26434/chemrxiv-2021-kt2wr.","apa":"Cavedon, C., Gisbertz, S., Vogl, S., Richter, N., Schrottke, S., Teutloff, C., 
 Pieber, B. (n.d.). Photocatalyst-free, visible-light-mediated nickel catalyzed carbon–heteroatom cross-couplings. ChemRxiv. https://doi.org/10.26434/chemrxiv-2021-kt2wr","ama":"Cavedon C, Gisbertz S, Vogl S, et al. Photocatalyst-free, visible-light-mediated nickel catalyzed carbon–heteroatom cross-couplings. doi:10.26434/chemrxiv-2021-kt2wr"},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.26434/chemrxiv-2021-kt2wr"}],"extern":"1","year":"2021","publication_status":"submitted","language":[{"iso":"eng"}],"date_published":"2021-08-04T00:00:00Z","author":[{"first_name":"Cristian","full_name":"Cavedon, Cristian","last_name":"Cavedon"},{"last_name":"Gisbertz","full_name":"Gisbertz, Sebastian","first_name":"Sebastian"},{"full_name":"Vogl, Sarah","last_name":"Vogl","first_name":"Sarah"},{"first_name":"Noah","full_name":"Richter, Noah","last_name":"Richter"},{"full_name":"Schrottke, Stefanie","last_name":"Schrottke","first_name":"Stefanie"},{"last_name":"Teutloff","full_name":"Teutloff, Christian","first_name":"Christian"},{"last_name":"Seeberger","full_name":"Seeberger, Peter H.","first_name":"Peter H."},{"full_name":"Thomas, Arne","last_name":"Thomas","first_name":"Arne"},{"last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us"}],"title":"Photocatalyst-free, visible-light-mediated nickel catalyzed carbon–heteroatom cross-couplings","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-09-08T11:42:02Z","oa":1},{"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-09-08T11:46:45Z","title":"Switching between enantiomers by combining chromoselective photocatalysis and biocatalysis","author":[{"first_name":"Luca","last_name":"Schmermund","full_name":"Schmermund, Luca"},{"last_name":"Reischauer","full_name":"Reischauer, Susanne","first_name":"Susanne"},{"last_name":"Bierbaumer","full_name":"Bierbaumer, Sarah","first_name":"Sarah"},{"last_name":"Winkler","full_name":"Winkler, Christoph","first_name":"Christoph"},{"full_name":"Diaz-Rodriguez, Alba","last_name":"Diaz-Rodriguez","first_name":"Alba"},{"full_name":"Edwards, Lee J.","last_name":"Edwards","first_name":"Lee J."},{"first_name":"Selin","last_name":"Kara","full_name":"Kara, Selin"},{"last_name":"Mielke","full_name":"Mielke, Tamara","first_name":"Tamara"},{"last_name":"Cartwright","full_name":"Cartwright, Jared","first_name":"Jared"},{"full_name":"Grogan, Gideon","last_name":"Grogan","first_name":"Gideon"},{"last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, BartholomĂ€us","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"BartholomĂ€us"},{"first_name":"Wolfgang","full_name":"Kroutil, Wolfgang","last_name":"Kroutil"}],"date_published":"2021-01-06T00:00:00Z","language":[{"iso":"eng"}],"publication_status":"submitted","year":"2021","extern":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.26434/chemrxiv.13521527"}],"citation":{"ista":"Schmermund L, Reischauer S, Bierbaumer S, Winkler C, Diaz-Rodriguez A, Edwards LJ, Kara S, Mielke T, Cartwright J, Grogan G, Pieber B, Kroutil W. Switching between enantiomers by combining chromoselective photocatalysis and biocatalysis. 10.26434/chemrxiv.13521527.","short":"L. Schmermund, S. Reischauer, S. Bierbaumer, C. Winkler, A. Diaz-Rodriguez, L.J. Edwards, S. Kara, T. Mielke, J. Cartwright, G. Grogan, B. Pieber, W. Kroutil, (n.d.).","mla":"Schmermund, Luca, et al. Switching between Enantiomers by Combining Chromoselective Photocatalysis and Biocatalysis. ChemRxiv, doi:10.26434/chemrxiv.13521527.","chicago":"Schmermund, Luca, Susanne Reischauer, Sarah Bierbaumer, Christoph Winkler, Alba Diaz-Rodriguez, Lee J. Edwards, Selin Kara, et al. “Switching between Enantiomers by Combining Chromoselective Photocatalysis and Biocatalysis.” ChemRxiv, n.d. https://doi.org/10.26434/chemrxiv.13521527.","ieee":"L. Schmermund et al., “Switching between enantiomers by combining chromoselective photocatalysis and biocatalysis.” ChemRxiv.","ama":"Schmermund L, Reischauer S, Bierbaumer S, et al. Switching between enantiomers by combining chromoselective photocatalysis and biocatalysis. doi:10.26434/chemrxiv.13521527","apa":"Schmermund, L., Reischauer, S., Bierbaumer, S., Winkler, C., Diaz-Rodriguez, A., Edwards, L. J., 
 Kroutil, W. (n.d.). Switching between enantiomers by combining chromoselective photocatalysis and biocatalysis. ChemRxiv. https://doi.org/10.26434/chemrxiv.13521527"},"article_processing_charge":"No","publisher":"ChemRxiv","doi":"10.26434/chemrxiv.13521527","type":"preprint","day":"06","_id":"12070","status":"public","date_updated":"2022-09-08T11:49:16Z","abstract":[{"lang":"eng","text":"Controlling the selectivity of a chemical reaction with external stimuli is common in thermal processes, but rare in visible-light photocatalysis. Here we show that the redox potential of a carbon nitride photocatalyst (CN-OA-m) can be tuned by changing the irradiation wavelength to generate electron holes with different oxidation potentials. This tuning was the key to realizing photo-chemo-enzymatic cascades that give either the (S)- or the (R)-enantiomer of phenylethanol. In combination with an unspecific peroxygenase from Agrocybe aegerita, green light irradiation of CN-OA-m led to the enantioselective hydroxylation of ethylbenzene to (R)-1-phenylethanol (99% ee). In contrast, blue light irradiation triggered the photocatalytic oxidation of ethylbenzene to acetophenone, which in turn was enantioselectively reduced with an alcohol dehydrogenase from Rhodococcus ruber to form (S)-1-phenylethanol (93% ee)."}],"month":"01","oa_version":"Preprint"},{"status":"public","_id":"12071","citation":{"mla":"Sun, Zhixiang, et al. “Evidence for a Percolative Mott Insulator-Metal Transition in Doped Sr₂IrO₄.” Physical Review Research, vol. 3, no. 2, 023075, American Physical Society, 2021, doi:10.1103/physrevresearch.3.023075.","chicago":"Sun, Zhixiang, Jose M. Guevara, Steffen Sykora, Ekaterina Paerschke, Kaustuv Manna, Andrey Maljuk, Sabine Wurmehl, Jeroen van den Brink, Bernd BĂŒchner, and Christian Hess. “Evidence for a Percolative Mott Insulator-Metal Transition in Doped Sr₂IrO₄.” Physical Review Research. American Physical Society, 2021. https://doi.org/10.1103/physrevresearch.3.023075.","ieee":"Z. Sun et al., “Evidence for a percolative Mott insulator-metal transition in doped Sr₂IrO₄,” Physical Review Research, vol. 3, no. 2. American Physical Society, 2021.","ista":"Sun Z, Guevara JM, Sykora S, Paerschke E, Manna K, Maljuk A, Wurmehl S, van den Brink J, BĂŒchner B, Hess C. 2021. Evidence for a percolative Mott insulator-metal transition in doped Sr₂IrO₄. Physical Review Research. 3(2), 023075.","short":"Z. Sun, J.M. Guevara, S. Sykora, E. Paerschke, K. Manna, A. Maljuk, S. Wurmehl, J. van den Brink, B. BĂŒchner, C. Hess, Physical Review Research 3 (2021).","apa":"Sun, Z., Guevara, J. M., Sykora, S., Paerschke, E., Manna, K., Maljuk, A., 
 Hess, C. (2021). Evidence for a percolative Mott insulator-metal transition in doped Sr₂IrO₄. Physical Review Research. American Physical Society. https://doi.org/10.1103/physrevresearch.3.023075","ama":"Sun Z, Guevara JM, Sykora S, et al. Evidence for a percolative Mott insulator-metal transition in doped Sr₂IrO₄. Physical Review Research. 2021;3(2). doi:10.1103/physrevresearch.3.023075"},"article_processing_charge":"No","publication_identifier":{"issn":["2643-1564"]},"type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","has_accepted_license":"1","issue":"2","date_updated":"2022-09-09T07:26:01Z","volume":3,"abstract":[{"text":"Despite many efforts to rationalize the strongly correlated electronic ground states in doped Mott insulators, the nature of the doping-induced insulator-to-metal transition is still a subject under intensive investigation. Here, we probe the nanoscale electronic structure of the Mott insulator Sr₂IrO₄ή with low-temperature scanning tunneling microscopy and find an enhanced local density of states (LDOS) inside the Mott gap at the location of individual defects which we interpret as defects at apical oxygen sites. A chiral behavior in the topography for those defects has been observed. We also visualize the local enhanced conductance arising from the overlapping of defect states which induces finite LDOS inside of the Mott gap. By combining these findings with the typical spatial extension of isolated defects of about 2 nm, our results indicate that the insulator-to-metal transition in Sr₂IrO₄−ή could be percolative in nature.","lang":"eng"}],"month":"04","article_type":"original","author":[{"last_name":"Sun","full_name":"Sun, Zhixiang","first_name":"Zhixiang"},{"first_name":"Jose M.","full_name":"Guevara, Jose M.","last_name":"Guevara"},{"first_name":"Steffen","full_name":"Sykora, Steffen","last_name":"Sykora"},{"orcid":"0000-0003-0853-8182","last_name":"Paerschke","full_name":"Paerschke, Ekaterina","id":"8275014E-6063-11E9-9B7F-6338E6697425","first_name":"Ekaterina"},{"last_name":"Manna","full_name":"Manna, Kaustuv","first_name":"Kaustuv"},{"last_name":"Maljuk","full_name":"Maljuk, Andrey","first_name":"Andrey"},{"first_name":"Sabine","full_name":"Wurmehl, Sabine","last_name":"Wurmehl"},{"first_name":"Jeroen","last_name":"van den Brink","full_name":"van den Brink, Jeroen"},{"first_name":"Bernd","last_name":"BĂŒchner","full_name":"BĂŒchner, Bernd"},{"last_name":"Hess","full_name":"Hess, Christian","first_name":"Christian"}],"article_number":"023075","date_published":"2021-04-27T00:00:00Z","title":"Evidence for a percolative Mott insulator-metal transition in doped Sr₂IrO₄","extern":"1","publication":"Physical Review Research","file":[{"success":1,"checksum":"73f1331b9716295849e87a7d3acd9323","creator":"dernst","relation":"main_file","date_updated":"2022-09-09T07:23:40Z","date_created":"2022-09-09T07:23:40Z","file_size":4020901,"content_type":"application/pdf","access_level":"open_access","file_id":"12075","file_name":"2021_PhysicalRevResearch_Sun.pdf"}],"quality_controlled":"1","publication_status":"published","day":"27","publisher":"American Physical Society","doi":"10.1103/physrevresearch.3.023075","scopus_import":"1","ddc":["530"],"language":[{"iso":"eng"}],"file_date_updated":"2022-09-09T07:23:40Z","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2022-09-08T15:01:16Z","intvolume":" 3","year":"2021"},{"date_created":"2026-06-19T07:43:41Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"das_tickbox":"1","external_id":{"arxiv":["1606.07738"]},"language":[{"iso":"eng"}],"OA_place":"repository","year":"2021","intvolume":" 143","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.1606.07738"}],"doi":"10.1353/ajm.2021.0014","arxiv":1,"publisher":"Johns Hopkins University Press","OA_type":"green","day":"01","scopus_import":"1","title":"Finite-dimensional approximation and non-squeezing for the cubic nonlinear Schrödinger equation on ℝ2","author":[{"full_name":"Killip, Rowan","last_name":"Killip","first_name":"Rowan"},{"full_name":"Visan, Monica","last_name":"Visan","first_name":"Monica","id":"056daca0-b8d1-11f0-964f-f91054abf8ca"},{"first_name":"Xiaoyi","full_name":"Zhang, Xiaoyi","last_name":"Zhang"}],"date_published":"2021-04-01T00:00:00Z","page":"613-680","publication_status":"published","quality_controlled":"1","publication":"American Journal of Mathematics","extern":"1","publication_identifier":{"eissn":["1080-6377"]},"type":"journal_article","citation":{"short":"R. Killip, M. ViƟan, X. Zhang, American Journal of Mathematics 143 (2021) 613–680.","ista":"Killip R, ViƟan M, Zhang X. 2021. Finite-dimensional approximation and non-squeezing for the cubic nonlinear Schrödinger equation on ℝ2. American Journal of Mathematics. 143(2), 613–680.","ieee":"R. Killip, M. ViƟan, and X. Zhang, “Finite-dimensional approximation and non-squeezing for the cubic nonlinear Schrödinger equation on ℝ2,” American Journal of Mathematics, vol. 143, no. 2. Johns Hopkins University Press, pp. 613–680, 2021.","chicago":"Killip, Rowan, Monica ViƟan, and Xiaoyi Zhang. “Finite-Dimensional Approximation and Non-Squeezing for the Cubic Nonlinear Schrödinger Equation on ℝ2.” American Journal of Mathematics. Johns Hopkins University Press, 2021. https://doi.org/10.1353/ajm.2021.0014.","mla":"Killip, Rowan, et al. “Finite-Dimensional Approximation and Non-Squeezing for the Cubic Nonlinear Schrödinger Equation on ℝ2.” American Journal of Mathematics, vol. 143, no. 2, Johns Hopkins University Press, 2021, pp. 613–80, doi:10.1353/ajm.2021.0014.","ama":"Killip R, ViƟan M, Zhang X. Finite-dimensional approximation and non-squeezing for the cubic nonlinear Schrödinger equation on ℝ2. American Journal of Mathematics. 2021;143(2):613-680. doi:10.1353/ajm.2021.0014","apa":"Killip, R., ViƟan, M., & Zhang, X. (2021). Finite-dimensional approximation and non-squeezing for the cubic nonlinear Schrödinger equation on ℝ2. American Journal of Mathematics. Johns Hopkins University Press. https://doi.org/10.1353/ajm.2021.0014"},"article_processing_charge":"No","_id":"22035","status":"public","article_type":"original","issue":"2","date_updated":"2026-06-22T12:56:27Z","abstract":[{"text":"We prove that solutions of the cubic nonlinear Schr\\\"odinger equation on $\\Bbb{R}^2$ can be approximated by a finite-dimensional Hamiltonian system, uniformly on bounded sets of initial data. This is despite the wealth of non-compact symmetries: scaling, translation, and Galilei boosts.\r\n\r\nComplementing this approximation result, we show that all solutions of the finite-dimensional Hamiltonian system we use can be approximated by the full PDE.\r\n\r\nA key ingredient in these results is the development of a general methodology for transfering uniform global space-time bounds to suitable Fourier truncations of dispersive PDE models.\r\n\r\nAs an application, we prove symplectic non-squeezing (in the sense of Gromov) for the cubic NLS on $\\Bbb{R}^2$. This is the first symplectic non-squeezing result for a Hamiltonian PDE in infinite volume. It is also the first unconditional symplectic non-squeezing result in a scaling-critical setting.\r\n\r\nFinally, we discuss implications of non-squeezing on the nature of scattering.","lang":"eng"}],"month":"04","volume":143,"oa_version":"Preprint"},{"citation":{"chicago":"Bringmann, Bjoern, Rowan Killip, and Monica ViƟan. “Global Well-Posedness for the Fifth-Order KdV Equation in H^-1(R).” Annals of PDE. Springer Nature, 2021. https://doi.org/10.1007/s40818-021-00111-4.","ieee":"B. Bringmann, R. Killip, and M. ViƟan, “Global well-posedness for the fifth-order KdV equation in H^-1(R),” Annals of PDE, vol. 7, no. 2. Springer Nature, 2021.","mla":"Bringmann, Bjoern, et al. “Global Well-Posedness for the Fifth-Order KdV Equation in H^-1(R).” Annals of PDE, vol. 7, no. 2, 21, Springer Nature, 2021, doi:10.1007/s40818-021-00111-4.","short":"B. Bringmann, R. Killip, M. ViƟan, Annals of PDE 7 (2021).","ista":"Bringmann B, Killip R, ViƟan M. 2021. Global well-posedness for the fifth-order KdV equation in H^-1(R). Annals of PDE. 7(2), 21.","apa":"Bringmann, B., Killip, R., & ViƟan, M. (2021). Global well-posedness for the fifth-order KdV equation in H^-1(R). Annals of PDE. Springer Nature. https://doi.org/10.1007/s40818-021-00111-4","ama":"Bringmann B, Killip R, ViƟan M. Global well-posedness for the fifth-order KdV equation in H^-1(R). Annals of PDE. 2021;7(2). doi:10.1007/s40818-021-00111-4"},"article_processing_charge":"No","publication_identifier":{"issn":["2524-5317"],"eissn":["2199-2576"]},"type":"journal_article","status":"public","_id":"22038","date_updated":"2026-06-22T13:03:48Z","issue":"2","month":"08","abstract":[{"lang":"eng","text":"We prove global well-posedness of the fifth-order Korteweg-de Vries equation on the real line for initial data in H^-1(R). Global well-posedness in L^2(R) was shown previously in [8] using the method of commuting flows. Since this method is insensitive to the ambient geometry, it cannot go beyond the sharp L^2 threshold for the torus demonstrated in [3]. To prove our result, we introduce a new strategy that integrates dispersive effects into the method of commuting flows."}],"volume":7,"article_type":"original","oa_version":"Preprint","title":"Global well-posedness for the fifth-order KdV equation in H^-1(R)","author":[{"full_name":"Bringmann, Bjoern","last_name":"Bringmann","first_name":"Bjoern"},{"last_name":"Killip","full_name":"Killip, Rowan","first_name":"Rowan"},{"id":"056daca0-b8d1-11f0-964f-f91054abf8ca","first_name":"Monica","last_name":"Visan","full_name":"Visan, Monica"}],"date_published":"2021-08-25T00:00:00Z","article_number":"21","publication_status":"published","publication":"Annals of PDE","extern":"1","quality_controlled":"1","publisher":"Springer Nature","doi":"10.1007/s40818-021-00111-4","arxiv":1,"day":"25","OA_type":"green","scopus_import":"1","das_tickbox":"1","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-06-19T07:44:49Z","OA_place":"repository","external_id":{"arxiv":["1912.01536"]},"language":[{"iso":"eng"}],"intvolume":" 7","year":"2021","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1912.01536","open_access":"1"}]},{"publication_status":"published","page":"7927-7941","extern":"1","publication":"Journal of Experimental Botany","pmid":1,"quality_controlled":"1","title":"Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors","author":[{"full_name":"Ding, Pingtao","last_name":"Ding","first_name":"Pingtao"},{"first_name":"Toshiyuki","full_name":"Sakai, Toshiyuki","last_name":"Sakai"},{"first_name":"Ram","last_name":"Krishna Shrestha","full_name":"Krishna Shrestha, Ram"},{"first_name":"Nicolas","last_name":"Manosalva Perez","full_name":"Manosalva Perez, Nicolas"},{"last_name":"Guo","full_name":"Guo, Wenbin","first_name":"Wenbin"},{"first_name":"Bruno Pok Man","last_name":"Ngou","full_name":"Ngou, Bruno Pok Man"},{"first_name":"Shengbo","full_name":"He, Shengbo","last_name":"He"},{"first_name":"Chang","full_name":"Liu, Chang","last_name":"Liu"},{"orcid":"0000-0002-4008-1234","last_name":"Feng","full_name":"Feng, Xiaoqi","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","first_name":"Xiaoqi"},{"last_name":"Zhang","full_name":"Zhang, Runxuan","first_name":"Runxuan"},{"full_name":"Vandepoele, Klaas","last_name":"Vandepoele","first_name":"Klaas"},{"first_name":"Dan","full_name":"MacLean, Dan","last_name":"MacLean"},{"last_name":"Jones","full_name":"Jones, Jonathan D G","first_name":"Jonathan D G"}],"date_published":"2021-08-13T00:00:00Z","date_updated":"2023-05-08T11:01:18Z","issue":"22","month":"08","volume":72,"abstract":[{"lang":"eng","text":"Activation of cell-surface and intracellular receptor-mediated immunity results in rapid transcriptional reprogramming that underpins disease resistance. However, the mechanisms by which co-activation of both immune systems lead to transcriptional changes are not clear. Here, we combine RNA-seq and ATAC-seq to define changes in gene expression and chromatin accessibility. Activation of cell-surface or intracellular receptor-mediated immunity, or both, increases chromatin accessibility at induced defence genes. Analysis of ATAC-seq and RNA-seq data combined with publicly available information on transcription factor DNA-binding motifs enabled comparison of individual gene regulatory networks activated by cell-surface or intracellular receptor-mediated immunity, or by both. These results and analyses reveal overlapping and conserved transcriptional regulatory mechanisms between the two immune systems."}],"article_type":"original","keyword":["Plant Science","Physiology"],"oa_version":"None","citation":{"ama":"Ding P, Sakai T, Krishna Shrestha R, et al. Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. Journal of Experimental Botany. 2021;72(22):7927-7941. doi:10.1093/jxb/erab373","apa":"Ding, P., Sakai, T., Krishna Shrestha, R., Manosalva Perez, N., Guo, W., Ngou, B. P. M., 
 Jones, J. D. G. (2021). Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/erab373","ista":"Ding P, Sakai T, Krishna Shrestha R, Manosalva Perez N, Guo W, Ngou BPM, He S, Liu C, Feng X, Zhang R, Vandepoele K, MacLean D, Jones JDG. 2021. Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. Journal of Experimental Botany. 72(22), 7927–7941.","short":"P. Ding, T. Sakai, R. Krishna Shrestha, N. Manosalva Perez, W. Guo, B.P.M. Ngou, S. He, C. Liu, X. Feng, R. Zhang, K. Vandepoele, D. MacLean, J.D.G. Jones, Journal of Experimental Botany 72 (2021) 7927–7941.","mla":"Ding, Pingtao, et al. “Chromatin Accessibility Landscapes Activated by Cell-Surface and Intracellular Immune Receptors.” Journal of Experimental Botany, vol. 72, no. 22, Oxford University Press, 2021, pp. 7927–41, doi:10.1093/jxb/erab373.","chicago":"Ding, Pingtao, Toshiyuki Sakai, Ram Krishna Shrestha, Nicolas Manosalva Perez, Wenbin Guo, Bruno Pok Man Ngou, Shengbo He, et al. “Chromatin Accessibility Landscapes Activated by Cell-Surface and Intracellular Immune Receptors.” Journal of Experimental Botany. Oxford University Press, 2021. https://doi.org/10.1093/jxb/erab373.","ieee":"P. Ding et al., “Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors,” Journal of Experimental Botany, vol. 72, no. 22. Oxford University Press, pp. 7927–7941, 2021."},"article_processing_charge":"No","publication_identifier":{"issn":["0022-0957","1460-2431"]},"type":"journal_article","_id":"12186","status":"public","intvolume":" 72","department":[{"_id":"XiFe"}],"year":"2021","date_created":"2023-01-16T09:14:35Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"pmid":["34387350"]},"language":[{"iso":"eng"}],"scopus_import":"1","acknowledgement":"We thank the Gatsby Foundation (UK) for funding to the JDGJ laboratory. PD acknowledges support from the European Union’s Horizon 2020 Research and Innovation Program under Marie SkƂodowska Curie Actions (grant agreement: 656243) and a Future Leader Fellowship from the Biotechnology and Biological Sciences Research Council (BBSRC) (grant agreement: BB/R012172/1). TS, RKS, DM, and JDGJ were supported by the Gatsby Foundation funding to the\r\nSainsbury Laboratory. NMP and KV were supported by a BOF grant from Ghent University (grant agreement: BOF24Y2019001901). WG and RZ were supported by the Scottish Government Rural and Environment Science and Analytical Services division (RESAS), and RZ also acknowledges the support from a BBSRC Bioinformatics and Biological Resources Fund (grant agreement: BB/S020160/1).BPMN was supported by the Norwich Research Park (NRP) Biosciences Doctoral Training Partnership (DTP) funded by the BBSRC (grant agreement: BB/M011216/1). SH and XF were supported by a BBSRC Responsive Mode grant (grant agreement: BB/S009620/1) and a European Research Council Starting grant ‘SexMeth’ (grant agreement: 804981). CL was supported by Deutsche Forschungsgemeinschaft (grant agreement: LI 2862/4). ","publisher":"Oxford University Press","doi":"10.1093/jxb/erab373","day":"13"},{"department":[{"_id":"XiFe"}],"year":"2021","intvolume":" 373","main_file_link":[{"url":"https://doi.org/10.1101/2021.01.25.428150","open_access":"1"}],"date_created":"2023-01-16T09:15:14Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa":1,"external_id":{"pmid":["34210850"]},"language":[{"iso":"eng"}],"OA_place":"repository","acknowledgement":"We thank the John Innes Centre Bioimaging Facility (S. Lopez, E. Wegel, and K. Findlay) for their assistance with microscopy and the Norwich BioScience Institute Partnership Computing Infrastructure for Science Group for high-performance computing resources. Funding: This work was funded by a European Research Council Starting Grant (“SexMeth” 804981; J.L., J.W., and X.F.), a Sainsbury Charitable Foundation studentship (J.W.), two Biotechnology and Biological Sciences Research Council (BBSRC) grants (BBS0096201 and BBP0135111; W.S., M.V., and X.F.), two John Innes Foundation studentships (B.A. and S.D.), and a BBSRC David Phillips Fellowship (BBL0250431; H.G. and X.F.). Author contributions: J.L., J.W., and X.F. designed the study and wrote the manuscript; J.L., W.S., B.A., H.G., and S.D. performed the experiments; and J.L., J.W., B.A., H.G., S.D., M.V., and X.F. analyzed the data. Competing interests: The authors declare no competing interests. Data and material availability: All sequencing data have been deposited in the Gene Expression Omnibus (GEO) under accession no. GSE161625. Accession nos. of published datasets used in this study are listed in table S6. Published software used in this study include Bowtie v1.2.2 (https://doi.org/10.1002/0471250953.bi1107s32), Bismark v0.22.2 (https://doi.org/10.1093/bioinformatics/btr167), Kallisto v0.43.0 (https://doi.org/10.1038/nbt0816-888d), Shortstack v3.8.5 (https://doi.org/10.1534/g3.116.030452), and Cutadapt v1.15 (https://doi.org/10.1089/cmb.2017.0096). TrimGalore v0.4.1 and MarkDuplicates v1.141 are available from https://github.com/FelixKrueger/TrimGalore and https://github.com/broadinstitute/picard, respectively. All remaining data are in the main paper or the supplementary materials.","scopus_import":"1","doi":"10.1126/science.abh0556","publisher":"American Association for the Advancement of Science","OA_type":"green","day":"02","publication_status":"published","pmid":1,"quality_controlled":"1","extern":"1","publication":"Science","title":"Nurse cell-derived small RNAs define paternal epigenetic inheritance in Arabidopsis","author":[{"last_name":"Long","full_name":"Long, Jincheng","first_name":"Jincheng"},{"last_name":"Walker","full_name":"Walker, James","first_name":"James"},{"last_name":"She","full_name":"She, Wenjing","first_name":"Wenjing"},{"last_name":"Aldridge","full_name":"Aldridge, Billy","first_name":"Billy"},{"full_name":"Gao, Hongbo","last_name":"Gao","first_name":"Hongbo"},{"last_name":"Deans","full_name":"Deans, Samuel","first_name":"Samuel"},{"last_name":"Vickers","full_name":"Vickers, Martin","first_name":"Martin"},{"full_name":"Feng, Xiaoqi","last_name":"Feng","orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","id":"e0164712-22ee-11ed-b12a-d80fcdf35958"}],"date_published":"2021-07-02T00:00:00Z","article_type":"original","keyword":["Multidisciplinary"],"issue":"6550","date_updated":"2026-03-19T10:52:21Z","volume":373,"month":"07","abstract":[{"text":"Genomes of germ cells present an existential vulnerability to organisms because germ cell mutations will propagate to future generations. Transposable elements are one source of such mutations. In the small flowering plant Arabidopsis, Long et al. found that genome methylation in the male germline is directed by small interfering RNAs (siRNAs) imperfectly transcribed from transposons (see the Perspective by Mosher). These germline siRNAs silence germline transposons and establish inherited methylation patterns in sperm, thus maintaining the integrity of the plant genome across generations.","lang":"eng"}],"oa_version":"Preprint","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"type":"journal_article","citation":{"apa":"Long, J., Walker, J., She, W., Aldridge, B., Gao, H., Deans, S., 
 Feng, X. (2021). Nurse cell-derived small RNAs define paternal epigenetic inheritance in Arabidopsis. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.abh0556","ama":"Long J, Walker J, She W, et al. Nurse cell-derived small RNAs define paternal epigenetic inheritance in Arabidopsis. Science. 2021;373(6550). doi:10.1126/science.abh0556","ieee":"J. Long et al., “Nurse cell-derived small RNAs define paternal epigenetic inheritance in Arabidopsis,” Science, vol. 373, no. 6550. American Association for the Advancement of Science, 2021.","chicago":"Long, Jincheng, James Walker, Wenjing She, Billy Aldridge, Hongbo Gao, Samuel Deans, Martin Vickers, and Xiaoqi Feng. “Nurse Cell-Derived Small RNAs Define Paternal Epigenetic Inheritance in Arabidopsis.” Science. American Association for the Advancement of Science, 2021. https://doi.org/10.1126/science.abh0556.","mla":"Long, Jincheng, et al. “Nurse Cell-Derived Small RNAs Define Paternal Epigenetic Inheritance in Arabidopsis.” Science, vol. 373, no. 6550, American Association for the Advancement of Science, 2021, doi:10.1126/science.abh0556.","short":"J. Long, J. Walker, W. She, B. Aldridge, H. Gao, S. Deans, M. Vickers, X. Feng, Science 373 (2021).","ista":"Long J, Walker J, She W, Aldridge B, Gao H, Deans S, Vickers M, Feng X. 2021. Nurse cell-derived small RNAs define paternal epigenetic inheritance in Arabidopsis. Science. 373(6550)."},"article_processing_charge":"No","_id":"12187","status":"public"},{"main_file_link":[{"url":"https://doi.org/10.1007/s40993-021-00267-9","open_access":"1"}],"intvolume":" 7","year":"2021","language":[{"iso":"eng"}],"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-01-16T11:44:39Z","oa":1,"scopus_import":"1","day":"20","doi":"10.1007/s40993-021-00267-9","publisher":"Springer Nature","quality_controlled":"1","extern":"1","publication":"Research in Number Theory","publication_status":"published","author":[{"first_name":"Matteo","id":"7aa8f170-131e-11ed-88e1-a9efd01027cb","full_name":"Verzobio, Matteo","last_name":"Verzobio","orcid":"0000-0002-0854-0306"}],"article_number":"37","date_published":"2021-05-20T00:00:00Z","title":"Primitive divisors of sequences associated to elliptic curves with complex multiplication","oa_version":"Published Version","keyword":["Algebra and Number Theory"],"article_type":"original","issue":"2","date_updated":"2024-10-09T21:05:08Z","volume":7,"month":"05","abstract":[{"lang":"eng","text":"Let P and Q be two points on an elliptic curve defined over a number field K. For α∈End(E), define Bα to be the OK-integral ideal generated by the denominator of x(α(P)+Q). Let O be a subring of End(E), that is a Dedekind domain. We will study the sequence {Bα}α∈O. We will show that, for all but finitely many α∈O, the ideal Bα has a primitive divisor when P is a non-torsion point and there exist two endomorphisms g≠0 and f so that f(P)=g(Q). This is a generalization of previous results on elliptic divisibility sequences."}],"status":"public","_id":"12308","publication_identifier":{"issn":["2522-0160","2363-9555"]},"type":"journal_article","citation":{"apa":"Verzobio, M. (2021). Primitive divisors of sequences associated to elliptic curves with complex multiplication. Research in Number Theory. Springer Nature. https://doi.org/10.1007/s40993-021-00267-9","ama":"Verzobio M. Primitive divisors of sequences associated to elliptic curves with complex multiplication. Research in Number Theory. 2021;7(2). doi:10.1007/s40993-021-00267-9","mla":"Verzobio, Matteo. “Primitive Divisors of Sequences Associated to Elliptic Curves with Complex Multiplication.” Research in Number Theory, vol. 7, no. 2, 37, Springer Nature, 2021, doi:10.1007/s40993-021-00267-9.","chicago":"Verzobio, Matteo. “Primitive Divisors of Sequences Associated to Elliptic Curves with Complex Multiplication.” Research in Number Theory. Springer Nature, 2021. https://doi.org/10.1007/s40993-021-00267-9.","ieee":"M. Verzobio, “Primitive divisors of sequences associated to elliptic curves with complex multiplication,” Research in Number Theory, vol. 7, no. 2. Springer Nature, 2021.","ista":"Verzobio M. 2021. Primitive divisors of sequences associated to elliptic curves with complex multiplication. Research in Number Theory. 7(2), 37.","short":"M. Verzobio, Research in Number Theory 7 (2021)."},"article_processing_charge":"No"},{"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2001.09634"}],"intvolume":" 198","year":"2021","external_id":{"arxiv":["2001.09634"]},"language":[{"iso":"eng"}],"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2023-01-16T11:44:54Z","oa":1,"scopus_import":"1","day":"04","doi":"10.4064/aa191016-30-7","arxiv":1,"publisher":"Institute of Mathematics, Polish Academy of Sciences","quality_controlled":"1","extern":"1","publication":"Acta Arithmetica","publication_status":"published","page":"129-168","author":[{"full_name":"Verzobio, Matteo","orcid":"0000-0002-0854-0306","last_name":"Verzobio","first_name":"Matteo","id":"7aa8f170-131e-11ed-88e1-a9efd01027cb"}],"date_published":"2021-01-04T00:00:00Z","title":"Primitive divisors of elliptic divisibility sequences for elliptic curves with j=1728","oa_version":"Preprint","article_type":"original","keyword":["Algebra and Number Theory"],"issue":"2","date_updated":"2024-10-09T21:05:08Z","month":"01","volume":198,"abstract":[{"lang":"eng","text":"Take a rational elliptic curve defined by the equation y2=x3+ax in minimal form and consider the sequence Bn of the denominators of the abscissas of the iterate of a non-torsion point. We show that B5m has a primitive divisor for every m. Then, we show how to generalize this method to the terms of the form Bmp with p a prime congruent to 1 modulo 4."}],"status":"public","_id":"12309","publication_identifier":{"issn":["0065-1036","1730-6264"]},"type":"journal_article","citation":{"apa":"Verzobio, M. (2021). Primitive divisors of elliptic divisibility sequences for elliptic curves with j=1728. Acta Arithmetica. Institute of Mathematics, Polish Academy of Sciences. https://doi.org/10.4064/aa191016-30-7","ama":"Verzobio M. Primitive divisors of elliptic divisibility sequences for elliptic curves with j=1728. Acta Arithmetica. 2021;198(2):129-168. doi:10.4064/aa191016-30-7","mla":"Verzobio, Matteo. “Primitive Divisors of Elliptic Divisibility Sequences for Elliptic Curves with J=1728.” Acta Arithmetica, vol. 198, no. 2, Institute of Mathematics, Polish Academy of Sciences, 2021, pp. 129–68, doi:10.4064/aa191016-30-7.","chicago":"Verzobio, Matteo. “Primitive Divisors of Elliptic Divisibility Sequences for Elliptic Curves with J=1728.” Acta Arithmetica. Institute of Mathematics, Polish Academy of Sciences, 2021. https://doi.org/10.4064/aa191016-30-7.","ieee":"M. Verzobio, “Primitive divisors of elliptic divisibility sequences for elliptic curves with j=1728,” Acta Arithmetica, vol. 198, no. 2. Institute of Mathematics, Polish Academy of Sciences, pp. 129–168, 2021.","ista":"Verzobio M. 2021. Primitive divisors of elliptic divisibility sequences for elliptic curves with j=1728. Acta Arithmetica. 198(2), 129–168.","short":"M. Verzobio, Acta Arithmetica 198 (2021) 129–168."},"article_processing_charge":"No"},{"extern":"1","publication":"arXiv","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2102.07573","open_access":"1"}],"year":"2021","publication_status":"submitted","date_published":"2021-02-15T00:00:00Z","article_number":"2102.07573","corr_author":"1","author":[{"full_name":"Verzobio, Matteo","last_name":"Verzobio","orcid":"0000-0002-0854-0306","first_name":"Matteo","id":"7aa8f170-131e-11ed-88e1-a9efd01027cb"}],"language":[{"iso":"eng"}],"external_id":{"arxiv":["2102.07573"]},"oa":1,"title":"A recurrence relation for elliptic divisibility sequences","date_created":"2023-01-16T11:46:36Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","month":"02","abstract":[{"lang":"eng","text":"In literature, there are two different definitions of elliptic divisibility\r\nsequences. The first one says that a sequence of integers $\\{h_n\\}_{n\\geq 0}$\r\nis an elliptic divisibility sequence if it verifies the recurrence relation\r\n$h_{m+n}h_{m-n}h_{r}^2=h_{m+r}h_{m-r}h_{n}^2-h_{n+r}h_{n-r}h_{m}^2$ for every\r\nnatural number $m\\geq n\\geq r$. The second definition says that a sequence of\r\nintegers $\\{\\beta_n\\}_{n\\geq 0}$ is an elliptic divisibility sequence if it is\r\nthe sequence of the square roots (chosen with an appropriate sign) of the\r\ndenominators of the abscissas of the iterates of a point on a rational elliptic\r\ncurve. It is well-known that the two sequences are not equivalent. Hence, given\r\na sequence of the denominators $\\{\\beta_n\\}_{n\\geq 0}$, in general does not\r\nhold\r\n$\\beta_{m+n}\\beta_{m-n}\\beta_{r}^2=\\beta_{m+r}\\beta_{m-r}\\beta_{n}^2-\\beta_{n+r}\\beta_{n-r}\\beta_{m}^2$\r\nfor $m\\geq n\\geq r$. We will prove that the recurrence relation above holds for\r\n$\\{\\beta_n\\}_{n\\geq 0}$ under some conditions on the indexes $m$, $n$, and $r$."}],"date_updated":"2024-10-09T21:05:07Z","status":"public","_id":"12314","day":"15","article_processing_charge":"No","citation":{"mla":"Verzobio, Matteo. “A Recurrence Relation for Elliptic Divisibility Sequences.” ArXiv, 2102.07573, doi:10.48550/arXiv.2102.07573.","chicago":"Verzobio, Matteo. “A Recurrence Relation for Elliptic Divisibility Sequences.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2102.07573.","ieee":"M. Verzobio, “A recurrence relation for elliptic divisibility sequences,” arXiv. .","ista":"Verzobio M. A recurrence relation for elliptic divisibility sequences. arXiv, 2102.07573.","short":"M. Verzobio, ArXiv (n.d.).","apa":"Verzobio, M. (n.d.). A recurrence relation for elliptic divisibility sequences. arXiv. https://doi.org/10.48550/arXiv.2102.07573","ama":"Verzobio M. A recurrence relation for elliptic divisibility sequences. arXiv. doi:10.48550/arXiv.2102.07573"},"arxiv":1,"type":"preprint","doi":"10.48550/arXiv.2102.07573"}]