[{"publist_id":"128","status":"public","date_published":"2004-07-26T00:00:00Z","page":"326 - 335","abstract":[{"lang":"eng","text":"We have extended the software model checker BLAST to automatically generate test suites that guarantee full coverage with respect to a given predicate. More precisely, given a C program and a target predicate p, BLAST determines the set L of program locations which program execution can reach with p true, and automatically generates a set of test vectors that exhibit the truth of p at all locations in L. We have used BLAST to generate test suites and to detect dead code in C programs with up to 30 K lines of code. The analysis and test vector generation is fully automatic (no user intervention) and exact (no false positives)."}],"_id":"4581","author":[{"full_name":"Beyer, Dirk","first_name":"Dirk","last_name":"Beyer"},{"first_name":"Adam","last_name":"Chlipala","full_name":"Chlipala, Adam J"},{"orcid":"0000−0002−2985−7724","full_name":"Thomas Henzinger","first_name":"Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Jhala, Ranjit","first_name":"Ranjit","last_name":"Jhala"},{"last_name":"Majumdar","first_name":"Ritankar","full_name":"Majumdar, Ritankar S"}],"month":"07","date_created":"2018-12-11T12:09:35Z","citation":{"ista":"Beyer D, Chlipala A, Henzinger TA, Jhala R, Majumdar R. 2004. Generating tests from counterexamples. ICSE: Software Engineering, 326–335.","apa":"Beyer, D., Chlipala, A., Henzinger, T. A., Jhala, R., &#38; Majumdar, R. (2004). Generating tests from counterexamples (pp. 326–335). Presented at the ICSE: Software Engineering, IEEE. <a href=\"https://doi.org/10.1109/ICSE.2004.1317455\">https://doi.org/10.1109/ICSE.2004.1317455</a>","ama":"Beyer D, Chlipala A, Henzinger TA, Jhala R, Majumdar R. Generating tests from counterexamples. In: IEEE; 2004:326-335. doi:<a href=\"https://doi.org/10.1109/ICSE.2004.1317455\">10.1109/ICSE.2004.1317455</a>","short":"D. Beyer, A. Chlipala, T.A. Henzinger, R. Jhala, R. Majumdar, in:, IEEE, 2004, pp. 326–335.","mla":"Beyer, Dirk, et al. <i>Generating Tests from Counterexamples</i>. IEEE, 2004, pp. 326–35, doi:<a href=\"https://doi.org/10.1109/ICSE.2004.1317455\">10.1109/ICSE.2004.1317455</a>.","chicago":"Beyer, Dirk, Adam Chlipala, Thomas A Henzinger, Ranjit Jhala, and Ritankar Majumdar. “Generating Tests from Counterexamples,” 326–35. IEEE, 2004. <a href=\"https://doi.org/10.1109/ICSE.2004.1317455\">https://doi.org/10.1109/ICSE.2004.1317455</a>.","ieee":"D. Beyer, A. Chlipala, T. A. Henzinger, R. Jhala, and R. Majumdar, “Generating tests from counterexamples,” presented at the ICSE: Software Engineering, 2004, pp. 326–335."},"extern":1,"year":"2004","conference":{"name":"ICSE: Software Engineering"},"type":"conference","quality_controlled":0,"doi":"10.1109/ICSE.2004.1317455","title":"Generating tests from counterexamples","date_updated":"2021-01-12T07:59:52Z","publisher":"IEEE","day":"26","publication_status":"published"},{"author":[{"full_name":"de Alfaro, Luca","last_name":"De Alfaro","first_name":"Luca"},{"full_name":"Faella, Marco","first_name":"Marco","last_name":"Faella"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","first_name":"Thomas A","full_name":"Thomas Henzinger","orcid":"0000−0002−2985−7724"},{"full_name":"Majumdar, Ritankar S","first_name":"Ritankar","last_name":"Majumdar"},{"full_name":"Stoelinga, Mariëlle","last_name":"Stoelinga","first_name":"Mariëlle"}],"month":"03","date_created":"2018-12-11T12:09:50Z","citation":{"ama":"De Alfaro L, Faella M, Henzinger TA, Majumdar R, Stoelinga M. Model checking discounted temporal properties. In: Vol 2988. Springer; 2004:77-92. doi:<a href=\"https://doi.org/10.1007/978-3-540-24730-2_6\">10.1007/978-3-540-24730-2_6</a>","ista":"De Alfaro L, Faella M, Henzinger TA, Majumdar R, Stoelinga M. 2004. Model checking discounted temporal properties. TACAS: Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol. 2988, 77–92.","apa":"De Alfaro, L., Faella, M., Henzinger, T. A., Majumdar, R., &#38; Stoelinga, M. (2004). Model checking discounted temporal properties (Vol. 2988, pp. 77–92). Presented at the TACAS: Tools and Algorithms for the Construction and Analysis of Systems, Springer. <a href=\"https://doi.org/10.1007/978-3-540-24730-2_6\">https://doi.org/10.1007/978-3-540-24730-2_6</a>","chicago":"De Alfaro, Luca, Marco Faella, Thomas A Henzinger, Ritankar Majumdar, and Mariëlle Stoelinga. “Model Checking Discounted Temporal Properties,” 2988:77–92. Springer, 2004. <a href=\"https://doi.org/10.1007/978-3-540-24730-2_6\">https://doi.org/10.1007/978-3-540-24730-2_6</a>.","ieee":"L. De Alfaro, M. Faella, T. A. Henzinger, R. Majumdar, and M. Stoelinga, “Model checking discounted temporal properties,” presented at the TACAS: Tools and Algorithms for the Construction and Analysis of Systems, 2004, vol. 2988, pp. 77–92.","short":"L. De Alfaro, M. Faella, T.A. Henzinger, R. Majumdar, M. Stoelinga, in:, Springer, 2004, pp. 77–92.","mla":"De Alfaro, Luca, et al. <i>Model Checking Discounted Temporal Properties</i>. Vol. 2988, Springer, 2004, pp. 77–92, doi:<a href=\"https://doi.org/10.1007/978-3-540-24730-2_6\">10.1007/978-3-540-24730-2_6</a>."},"extern":1,"alternative_title":["LNCS"],"publist_id":"79","status":"public","date_published":"2004-03-18T00:00:00Z","page":"77 - 92","abstract":[{"text":"Temporal logic is two-valued: a property is either true or false. When applied to the analysis of stochastic systems, or systems with imprecise formal models, temporal logic is therefore fragile: even small changes in the model can lead to opposite truth values for a specification. We present a generalization of the branching-time logic Ctl which achieves robustness with respect to model perturbations by giving a quantitative interpretation to predicates and logical operators, and by discounting the importance of events according to how late they occur. In every state, the value of a formula is a real number in the interval [0,1], where 1 corresponds to truth and 0 to falsehood. The boolean operators and and or are replaced by min and max, the path quantifiers ∃ and ∀ determine sup and inf over all paths from a given state, and the temporal operators and □ specify sup and inf over a given path; a new operator averages all values along a path. Furthermore, all path operators are discounted by a parameter that can be chosen to give more weight to states that are closer to the beginning of the path. We interpret the resulting logic Dctl over transition systems, Markov chains, and Markov decision processes. We present two semantics for Dctl: a path semantics, inspired by the standard interpretation of state and path formulas in CTL, and a fixpoint semantics, inspired by the μ-calculus evaluation of CTL formulas. We show that, while these semantics coincide for CTL, they differ for Dctl, and we provide model-checking algorithms for both semantics.","lang":"eng"}],"_id":"4629","intvolume":"      2988","acknowledgement":"This research was supported in part by the AFOSR MURI grant F49620-00-1-0327, the ONR grant N00014-02-1-0671, and the NSF grants CCR-0132780, CCR-9988172, CCR-0225610, and CCR-0234690.","quality_controlled":0,"doi":"10.1007/978-3-540-24730-2_6","title":"Model checking discounted temporal properties","date_updated":"2021-01-12T08:00:38Z","publisher":"Springer","day":"18","publication_status":"published","year":"2004","conference":{"name":"TACAS: Tools and Algorithms for the Construction and Analysis of Systems"},"type":"conference","volume":2988},{"author":[{"full_name":"Sunyaev, Shamil R","first_name":"Shamil","last_name":"Sunyaev"},{"first_name":"Fyodor","last_name":"Kondrashov","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","full_name":"Fyodor Kondrashov","orcid":"0000-0001-8243-4694"},{"first_name":"Peer","last_name":"Bork","full_name":"Bork, Peer"},{"first_name":"Vasily","last_name":"Ramensky","full_name":"Ramensky, Vasily"}],"month":"12","extern":1,"citation":{"chicago":"Sunyaev, Shamil, Fyodor Kondrashov, Peer Bork, and Vasily Ramensky. “Impact of Selection, Mutation Rate and Genetic Drift on Human Genetic Variation.” <i>Human Molecular Genetics</i>. Oxford University Press, 2003. <a href=\"https://doi.org/10.1093/hmg/ddg359\">https://doi.org/10.1093/hmg/ddg359</a>.","ieee":"S. Sunyaev, F. Kondrashov, P. Bork, and V. Ramensky, “Impact of selection, mutation rate and genetic drift on human genetic variation,” <i>Human Molecular Genetics</i>, vol. 12, no. 24. Oxford University Press, pp. 3325–3330, 2003.","mla":"Sunyaev, Shamil, et al. “Impact of Selection, Mutation Rate and Genetic Drift on Human Genetic Variation.” <i>Human Molecular Genetics</i>, vol. 12, no. 24, Oxford University Press, 2003, pp. 3325–30, doi:<a href=\"https://doi.org/10.1093/hmg/ddg359\">10.1093/hmg/ddg359</a>.","short":"S. Sunyaev, F. Kondrashov, P. Bork, V. Ramensky, Human Molecular Genetics 12 (2003) 3325–3330.","ama":"Sunyaev S, Kondrashov F, Bork P, Ramensky V. Impact of selection, mutation rate and genetic drift on human genetic variation. <i>Human Molecular Genetics</i>. 2003;12(24):3325-3330. doi:<a href=\"https://doi.org/10.1093/hmg/ddg359\">10.1093/hmg/ddg359</a>","ista":"Sunyaev S, Kondrashov F, Bork P, Ramensky V. 2003. Impact of selection, mutation rate and genetic drift on human genetic variation. Human Molecular Genetics. 12(24), 3325–3330.","apa":"Sunyaev, S., Kondrashov, F., Bork, P., &#38; Ramensky, V. (2003). Impact of selection, mutation rate and genetic drift on human genetic variation. <i>Human Molecular Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/hmg/ddg359\">https://doi.org/10.1093/hmg/ddg359</a>"},"date_created":"2018-12-11T11:48:49Z","page":"3325 - 3330","abstract":[{"text":"The accumulation of genome-wide information on single nucleotide polymorphisms in humans provides an unprecedented opportunity to detect the evolutionary forces responsible for heterogeneity of the level of genetic variability across loci. Previous studies have shown that history of recombination events has produced long haplotype blocks in the human genome, which contribute to this heterogeneity. Other factors, however, such as natural selection or the heterogeneity of mutation rates across loci, may also lead to heterogeneity of genetic variability. We compared synonymous and non-synonymous variability within human genes with their divergence from murine orthologs. We separately analyzed the non-synonymous variants predicted to damage protein structure or function and the variants predicted to be functionally benign. The predictions were based on comparative sequence analysis and, in some cases, on the analysis of protein structure. A strong correlation between non-synonymous, benign variability and non-synonymous human-mouse divergence suggests that selection played an important role in shaping the pattern of variability in coding regions of human genes. However, the lack of correlation between deleterious variability and evolutionary divergence shows that a substantial proportion of the observed non-synonymous single-nucleotide polymorphisms reduces fitness and never reaches fixation. Evolutionary and medical implications of the impact of selection on human polymorphisms are discussed.","lang":"eng"}],"publist_id":"6803","issue":"24","publication":"Human Molecular Genetics","status":"public","date_published":"2003-12-15T00:00:00Z","intvolume":"        12","_id":"847","acknowledgement":"We are grateful to Alexey Kondrashov and Alison Wellman for the careful reading of the manuscript and providing us with their valuable comments.","doi":"10.1093/hmg/ddg359","title":"Impact of selection, mutation rate and genetic drift on human genetic variation","quality_controlled":0,"day":"15","publication_status":"published","date_updated":"2021-01-12T08:19:29Z","publisher":"Oxford University Press","year":"2003","type":"journal_article","volume":12},{"type":"journal_article","volume":151,"article_processing_charge":"No","year":"2003","day":"01","publication_status":"published","publication_identifier":{"issn":["0020-9910","1432-1297"]},"date_updated":"2021-01-12T08:19:50Z","publisher":"Springer Nature","doi":"10.1007/s00222-002-0244-9","title":"The existential Hilbert 16-th problem and an estimate for cyclicity of elementary polycycles","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8519","language":[{"iso":"eng"}],"intvolume":"       151","page":"451-512","publication":"Inventiones mathematicae","issue":"3","status":"public","date_published":"2003-03-01T00:00:00Z","article_type":"original","extern":"1","citation":{"ama":"Kaloshin V. The existential Hilbert 16-th problem and an estimate for cyclicity of elementary polycycles. <i>Inventiones mathematicae</i>. 2003;151(3):451-512. doi:<a href=\"https://doi.org/10.1007/s00222-002-0244-9\">10.1007/s00222-002-0244-9</a>","apa":"Kaloshin, V. (2003). The existential Hilbert 16-th problem and an estimate for cyclicity of elementary polycycles. <i>Inventiones Mathematicae</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00222-002-0244-9\">https://doi.org/10.1007/s00222-002-0244-9</a>","ista":"Kaloshin V. 2003. The existential Hilbert 16-th problem and an estimate for cyclicity of elementary polycycles. Inventiones mathematicae. 151(3), 451–512.","ieee":"V. Kaloshin, “The existential Hilbert 16-th problem and an estimate for cyclicity of elementary polycycles,” <i>Inventiones mathematicae</i>, vol. 151, no. 3. Springer Nature, pp. 451–512, 2003.","chicago":"Kaloshin, Vadim. “The Existential Hilbert 16-Th Problem and an Estimate for Cyclicity of Elementary Polycycles.” <i>Inventiones Mathematicae</i>. Springer Nature, 2003. <a href=\"https://doi.org/10.1007/s00222-002-0244-9\">https://doi.org/10.1007/s00222-002-0244-9</a>.","short":"V. Kaloshin, Inventiones Mathematicae 151 (2003) 451–512.","mla":"Kaloshin, Vadim. “The Existential Hilbert 16-Th Problem and an Estimate for Cyclicity of Elementary Polycycles.” <i>Inventiones Mathematicae</i>, vol. 151, no. 3, Springer Nature, 2003, pp. 451–512, doi:<a href=\"https://doi.org/10.1007/s00222-002-0244-9\">10.1007/s00222-002-0244-9</a>."},"keyword":["General Mathematics"],"date_created":"2020-09-18T10:49:26Z","author":[{"full_name":"Kaloshin, Vadim","orcid":"0000-0002-6051-2628","last_name":"Kaloshin","first_name":"Vadim","id":"FE553552-CDE8-11E9-B324-C0EBE5697425"}],"oa_version":"None","month":"03"},{"day":"01","publication_status":"published","date_updated":"2021-01-12T08:20:58Z","publisher":"Elsevier","doi":"10.1016/S0168-9525(02)00029-X","title":"Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences","quality_controlled":0,"type":"journal_article","volume":19,"year":"2003","extern":1,"citation":{"mla":"Kondrashov, Fyodor, and Eugene Koonin. “Evolution of Alternative Splicing: Deletions, Insertions and Origin of Functional Parts of Proteins from Intron Sequences.” <i>Trends in Genetics</i>, vol. 19, no. 3, Elsevier, 2003, pp. 115–19, doi:<a href=\"https://doi.org/10.1016/S0168-9525(02)00029-X\">10.1016/S0168-9525(02)00029-X</a>.","short":"F. Kondrashov, E. Koonin, Trends in Genetics 19 (2003) 115–119.","ieee":"F. Kondrashov and E. Koonin, “Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences,” <i>Trends in Genetics</i>, vol. 19, no. 3. Elsevier, pp. 115–119, 2003.","chicago":"Kondrashov, Fyodor, and Eugene Koonin. “Evolution of Alternative Splicing: Deletions, Insertions and Origin of Functional Parts of Proteins from Intron Sequences.” <i>Trends in Genetics</i>. Elsevier, 2003. <a href=\"https://doi.org/10.1016/S0168-9525(02)00029-X\">https://doi.org/10.1016/S0168-9525(02)00029-X</a>.","apa":"Kondrashov, F., &#38; Koonin, E. (2003). Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences. <i>Trends in Genetics</i>. Elsevier. <a href=\"https://doi.org/10.1016/S0168-9525(02)00029-X\">https://doi.org/10.1016/S0168-9525(02)00029-X</a>","ista":"Kondrashov F, Koonin E. 2003. Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences. Trends in Genetics. 19(3), 115–119.","ama":"Kondrashov F, Koonin E. Evolution of alternative splicing: Deletions, insertions and origin of functional parts of proteins from intron sequences. <i>Trends in Genetics</i>. 2003;19(3):115-119. doi:<a href=\"https://doi.org/10.1016/S0168-9525(02)00029-X\">10.1016/S0168-9525(02)00029-X</a>"},"date_created":"2018-12-11T11:48:58Z","author":[{"full_name":"Fyodor Kondrashov","orcid":"0000-0001-8243-4694","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","last_name":"Kondrashov","first_name":"Fyodor"},{"full_name":"Koonin, Eugene V","first_name":"Eugene","last_name":"Koonin"}],"month":"01","_id":"876","intvolume":"        19","acknowledgement":"We thank Peer Bork, Mikhail Gelfand, Alexey Kondrashov, David Lipman and Shamil Sunyaev for critical reading of the manuscript and useful suggestions and the Koonin group members for helpful discussions.","page":"115 - 119","abstract":[{"lang":"eng","text":"Alternative splicing is thought to be a major source of functional diversity in animal proteins. We analyzed the evolutionary conservation of proteins encoded by alternatively spliced genes and predicted the ancestral state for 73 cases of alternative splicing (25 insertions and 48 deletions). The amino acid sequences of most of the inserts in proteins produced by alternative splicing are as conserved as the surrounding sequences. Thus, alternative splicing often creates novel isoforms by the insertion of new, functional protein sequences that probably originated from noncoding sequences of introns."}],"issue":"3","publist_id":"6776","publication":"Trends in Genetics","date_published":"2003-01-01T00:00:00Z","status":"public"},{"external_id":{"arxiv":["1311.1665"]},"title":"Counting rational points on del Pezzo surfaces of degree 5","publisher":"Mathematisches Institut der Universität Bonn","date_updated":"2021-01-12T06:52:20Z","publication_status":"published","day":"01","main_file_link":[{"url":"https://arxiv.org/abs/1311.1665","open_access":"1"}],"year":"2003","oa":1,"volume":360,"type":"journal_article","month":"01","author":[{"first_name":"Timothy D","last_name":"Browning","id":"35827D50-F248-11E8-B48F-1D18A9856A87","full_name":"Browning, Timothy D","orcid":"0000-0002-8314-0177"},{"full_name":"Swarbick Jones, M","last_name":"Swarbick Jones","first_name":"M"}],"oa_version":"None","arxiv":1,"citation":{"ama":"Browning TD, Swarbick Jones M. Counting rational points on del Pezzo surfaces of degree 5. <i>Proceedings of the Bonn session in analytic number theory and diophantine equations</i>. 2003;360.","ista":"Browning TD, Swarbick Jones M. 2003. Counting rational points on del Pezzo surfaces of degree 5. Proceedings of the Bonn session in analytic number theory and diophantine equations. 360.","apa":"Browning, T. D., &#38; Swarbick Jones, M. (2003). Counting rational points on del Pezzo surfaces of degree 5. <i>Proceedings of the Bonn Session in Analytic Number Theory and Diophantine Equations</i>. Mathematisches Institut der Universität Bonn.","chicago":"Browning, Timothy D, and M Swarbick Jones. “Counting Rational Points on Del Pezzo Surfaces of Degree 5.” <i>Proceedings of the Bonn Session in Analytic Number Theory and Diophantine Equations</i>. Mathematisches Institut der Universität Bonn, 2003.","ieee":"T. D. Browning and M. Swarbick Jones, “Counting rational points on del Pezzo surfaces of degree 5,” <i>Proceedings of the Bonn session in analytic number theory and diophantine equations</i>, vol. 360. Mathematisches Institut der Universität Bonn, 2003.","mla":"Browning, Timothy D., and M. Swarbick Jones. “Counting Rational Points on Del Pezzo Surfaces of Degree 5.” <i>Proceedings of the Bonn Session in Analytic Number Theory and Diophantine Equations</i>, vol. 360, Mathematisches Institut der Universität Bonn, 2003.","short":"T.D. Browning, M. Swarbick Jones, Proceedings of the Bonn Session in Analytic Number Theory and Diophantine Equations 360 (2003)."},"date_created":"2018-12-11T11:44:58Z","alternative_title":["Bonner mathematische Schriften"],"extern":"1","status":"public","date_published":"2003-01-01T00:00:00Z","publication":"Proceedings of the Bonn session in analytic number theory and diophantine equations","publist_id":"7755","abstract":[{"text":"For any number field k, upper bounds are established for the number of k-rational points of bounded height on non-singular del Pezzo surfaces defined over k, which are equipped with suitable conic bundle structures over k.","lang":"eng"}],"language":[{"iso":"eng"}],"_id":"166","intvolume":"       360","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"citation":{"ieee":"P. Holt, D. Morgan, and L. A. Sazanov, “The location of NuoL and NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications for the mechanism of proton pumping,” <i>Journal of Biological Chemistry</i>, vol. 278, no. 44. American Society for Biochemistry and Molecular Biology, pp. 43114–43120, 2003.","chicago":"Holt, Peter, David Morgan, and Leonid A Sazanov. “The Location of NuoL and NuoM Subunits in the Membrane Domain of the Escherichia Coli Complex I: Implications for the Mechanism of Proton Pumping.” <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology, 2003. <a href=\"https://doi.org/10.1074/jbc.M308247200\">https://doi.org/10.1074/jbc.M308247200</a>.","mla":"Holt, Peter, et al. “The Location of NuoL and NuoM Subunits in the Membrane Domain of the Escherichia Coli Complex I: Implications for the Mechanism of Proton Pumping.” <i>Journal of Biological Chemistry</i>, vol. 278, no. 44, American Society for Biochemistry and Molecular Biology, 2003, pp. 43114–20, doi:<a href=\"https://doi.org/10.1074/jbc.M308247200\">10.1074/jbc.M308247200</a>.","short":"P. Holt, D. Morgan, L.A. Sazanov, Journal of Biological Chemistry 278 (2003) 43114–43120.","ama":"Holt P, Morgan D, Sazanov LA. The location of NuoL and NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications for the mechanism of proton pumping. <i>Journal of Biological Chemistry</i>. 2003;278(44):43114-43120. doi:<a href=\"https://doi.org/10.1074/jbc.M308247200\">10.1074/jbc.M308247200</a>","apa":"Holt, P., Morgan, D., &#38; Sazanov, L. A. (2003). The location of NuoL and NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications for the mechanism of proton pumping. <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology. <a href=\"https://doi.org/10.1074/jbc.M308247200\">https://doi.org/10.1074/jbc.M308247200</a>","ista":"Holt P, Morgan D, Sazanov LA. 2003. The location of NuoL and NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications for the mechanism of proton pumping. Journal of Biological Chemistry. 278(44), 43114–43120."},"date_created":"2018-12-11T11:54:55Z","extern":1,"month":"10","author":[{"full_name":"Holt, Peter J","last_name":"Holt","first_name":"Peter"},{"full_name":"Morgan, David J","last_name":"Morgan","first_name":"David"},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","last_name":"Sazanov","orcid":"0000-0002-0977-7989","full_name":"Leonid Sazanov"}],"acknowledgement":"his work was supported by the Medical Research Council.","intvolume":"       278","_id":"1959","date_published":"2003-10-31T00:00:00Z","status":"public","issue":"44","publist_id":"5124","publication":"Journal of Biological Chemistry","abstract":[{"text":"The molecular organization of bacterial NADH: ubiquinone oxidoreductase (complex I or NDH-1) is not established, apart from a rough separation into dehydrogenase, connecting and membrane domains. In this work, complex I was purified from Escherichia coli and fragmented by replacing dodecylmaltoside with other detergents. Exchange into decyl maltoside led to the removal of the hydrophobic subunit NuoL from the otherwise intact complex. Diheptanoyl phosphocholine led to the loss of NuoL and NuoM subunits, whereas other subunits remained in the complex. The presence of N,N-dimethyldodecylamine N-oxide or Triton X-100 led to further disruption of the membrane domain into fragments containing NuoL/M/N, NuoA/K/N, and NuoH/J subunits. Among the hydrophilic subunits, NuoCD was most readily dissociated from the complex, whereas NuoB was partially dissociated from the peripheral arm assembly in N,N-dimethyldodecylamine N-oxide. A model of subunit arrangement in bacterial complex I based on these data is proposed. Subunits NuoL and NuoM, which are homologous to antiporters and are implicated in proton pumping, are located at the distal end of the membrane arm, spatially separated from the redox centers of the peripheral arm. This is consistent with proposals that the mechanism of proton pumping by complex I is likely to involve long range conformational changes.","lang":"eng"}],"page":"43114 - 43120","publisher":"American Society for Biochemistry and Molecular Biology","date_updated":"2021-01-12T06:54:21Z","publication_status":"published","day":"31","quality_controlled":0,"title":"The location of NuoL and NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications for the mechanism of proton pumping","doi":"10.1074/jbc.M308247200","volume":278,"type":"journal_article","year":"2003"},{"publist_id":"5125","issue":"21","publication":"Journal of Biological Chemistry","status":"public","date_published":"2003-05-23T00:00:00Z","page":"19483 - 19491","abstract":[{"lang":"eng","text":"NADH-ubiquinone oxidoreductase (complex I or NDH-1) was purified from the BL21 strain of Escherichia coli using an improved procedure. The complex was effectively stabilized by addition of divalent cations and lipids, making the preparation suitable for structural studies. The ubiquinone reductase activity of the enzyme was fully restored by addition of native E. coli lipids. Two different two-dimensional crystal forms, with p2 and p3 symmetry, were obtained using lipids containing native E. coli extracts. Analysis of the crystals showed that they are formed by fully intact complex I in an L-shaped conformation. Activity assays and single particle analysis indicated that complex I maintains this structure in detergent solution and does not adopt a different conformation in the active state. Thus, we provide the first experimental evidence that complex I from E. coli has an L-shape in a lipid bilayer and confirm that this is also the case for the active enzyme in solution. This suggests strongly that bacterial complex I exists in an L-shaped conformation in vivo. Our results also indicate that native lipids play an important role in the activation, stabilization and, as a consequence, crystallization of purified complex I from E. coli."}],"_id":"1960","intvolume":"       278","author":[{"full_name":"Leonid Sazanov","orcid":"0000-0002-0977-7989","last_name":"Sazanov","first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Carroll","first_name":"Joe","full_name":"Carroll, Joe D"},{"full_name":"Holt, Peter J","first_name":"Peter","last_name":"Holt"},{"first_name":"Laurence","last_name":"Toime","full_name":"Toime, Laurence J"},{"first_name":"Ian","last_name":"Fearnley","full_name":"Fearnley, Ian M"}],"month":"05","citation":{"short":"L.A. Sazanov, J. Carroll, P. Holt, L. Toime, I. Fearnley, Journal of Biological Chemistry 278 (2003) 19483–19491.","mla":"Sazanov, Leonid A., et al. “A Role for Native Lipids in the Stabilization and Two Dimensional Crystallization of the Escherichia Coli NADH Ubiquinone Oxidoreductase (Complex I).” <i>Journal of Biological Chemistry</i>, vol. 278, no. 21, American Society for Biochemistry and Molecular Biology, 2003, pp. 19483–91, doi:<a href=\"https://doi.org/10.1074/jbc.M208959200\">10.1074/jbc.M208959200</a>.","chicago":"Sazanov, Leonid A, Joe Carroll, Peter Holt, Laurence Toime, and Ian Fearnley. “A Role for Native Lipids in the Stabilization and Two Dimensional Crystallization of the Escherichia Coli NADH Ubiquinone Oxidoreductase (Complex I).” <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology, 2003. <a href=\"https://doi.org/10.1074/jbc.M208959200\">https://doi.org/10.1074/jbc.M208959200</a>.","ieee":"L. A. Sazanov, J. Carroll, P. Holt, L. Toime, and I. Fearnley, “A role for native lipids in the stabilization and two dimensional crystallization of the Escherichia coli NADH ubiquinone oxidoreductase (complex I),” <i>Journal of Biological Chemistry</i>, vol. 278, no. 21. American Society for Biochemistry and Molecular Biology, pp. 19483–19491, 2003.","ista":"Sazanov LA, Carroll J, Holt P, Toime L, Fearnley I. 2003. A role for native lipids in the stabilization and two dimensional crystallization of the Escherichia coli NADH ubiquinone oxidoreductase (complex I). Journal of Biological Chemistry. 278(21), 19483–19491.","apa":"Sazanov, L. A., Carroll, J., Holt, P., Toime, L., &#38; Fearnley, I. (2003). A role for native lipids in the stabilization and two dimensional crystallization of the Escherichia coli NADH ubiquinone oxidoreductase (complex I). <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology. <a href=\"https://doi.org/10.1074/jbc.M208959200\">https://doi.org/10.1074/jbc.M208959200</a>","ama":"Sazanov LA, Carroll J, Holt P, Toime L, Fearnley I. A role for native lipids in the stabilization and two dimensional crystallization of the Escherichia coli NADH ubiquinone oxidoreductase (complex I). <i>Journal of Biological Chemistry</i>. 2003;278(21):19483-19491. doi:<a href=\"https://doi.org/10.1074/jbc.M208959200\">10.1074/jbc.M208959200</a>"},"date_created":"2018-12-11T11:54:55Z","extern":1,"year":"2003","type":"journal_article","volume":278,"quality_controlled":0,"doi":"10.1074/jbc.M208959200","title":"A role for native lipids in the stabilization and two dimensional crystallization of the Escherichia coli NADH ubiquinone oxidoreductase (complex I)","date_updated":"2021-01-12T06:54:21Z","publisher":"American Society for Biochemistry and Molecular Biology","day":"23","publication_status":"published"},{"publisher":"Instytut Matematyczny","date_updated":"2021-01-12T06:54:58Z","publication_status":"published","day":"01","quality_controlled":0,"title":"Counting rational points on cubic and quartic surfaces","doi":"10.4064/aa108-3-7","volume":108,"type":"journal_article","year":"2003","date_created":"2018-12-11T11:45:12Z","citation":{"mla":"Browning, Timothy D. “Counting Rational Points on Cubic and Quartic Surfaces.” <i>Acta Arithmetica</i>, vol. 108, no. 3, Instytut Matematyczny, 2003, pp. 275–95, doi:<a href=\"https://doi.org/10.4064/aa108-3-7\">10.4064/aa108-3-7</a>.","short":"T.D. Browning, Acta Arithmetica 108 (2003) 275–295.","ieee":"T. D. Browning, “Counting rational points on cubic and quartic surfaces,” <i>Acta Arithmetica</i>, vol. 108, no. 3. Instytut Matematyczny, pp. 275–295, 2003.","chicago":"Browning, Timothy D. “Counting Rational Points on Cubic and Quartic Surfaces.” <i>Acta Arithmetica</i>. Instytut Matematyczny, 2003. <a href=\"https://doi.org/10.4064/aa108-3-7\">https://doi.org/10.4064/aa108-3-7</a>.","apa":"Browning, T. D. (2003). Counting rational points on cubic and quartic surfaces. <i>Acta Arithmetica</i>. Instytut Matematyczny. <a href=\"https://doi.org/10.4064/aa108-3-7\">https://doi.org/10.4064/aa108-3-7</a>","ista":"Browning TD. 2003. Counting rational points on cubic and quartic surfaces. Acta Arithmetica. 108(3), 275–295.","ama":"Browning TD. Counting rational points on cubic and quartic surfaces. <i>Acta Arithmetica</i>. 2003;108(3):275-295. doi:<a href=\"https://doi.org/10.4064/aa108-3-7\">10.4064/aa108-3-7</a>"},"extern":1,"month":"01","author":[{"last_name":"Browning","first_name":"Timothy D","id":"35827D50-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8314-0177","full_name":"Timothy Browning"}],"_id":"205","intvolume":"       108","status":"public","date_published":"2003-01-01T00:00:00Z","issue":"3","publication":"Acta Arithmetica","publist_id":"7707","page":"275 - 295"},{"_id":"206","intvolume":"        54","page":"33 - 39","abstract":[{"lang":"eng","text":"Let T ⊂ ℙ 4 be a non-singular threefold of degree at least four. Then we show that the number of points in T(ℚ), with height at most B, is o(B 3) or B → ∞."}],"publist_id":"7706","publication":"Quarterly Journal of Mathematics","issue":"1","date_published":"2003-03-01T00:00:00Z","status":"public","extern":1,"date_created":"2018-12-11T11:45:12Z","citation":{"chicago":"Browning, Timothy D. “A Note on the Distribution of Rational Points on Threefolds.” <i>Quarterly Journal of Mathematics</i>. Unknown, 2003. <a href=\"https://doi.org/10.1093/qjmath/54.1.33\">https://doi.org/10.1093/qjmath/54.1.33</a>.","ieee":"T. D. Browning, “A note on the distribution of rational points on threefolds,” <i>Quarterly Journal of Mathematics</i>, vol. 54, no. 1. Unknown, pp. 33–39, 2003.","short":"T.D. Browning, Quarterly Journal of Mathematics 54 (2003) 33–39.","mla":"Browning, Timothy D. “A Note on the Distribution of Rational Points on Threefolds.” <i>Quarterly Journal of Mathematics</i>, vol. 54, no. 1, Unknown, 2003, pp. 33–39, doi:<a href=\"https://doi.org/10.1093/qjmath/54.1.33\">10.1093/qjmath/54.1.33</a>.","ama":"Browning TD. A note on the distribution of rational points on threefolds. <i>Quarterly Journal of Mathematics</i>. 2003;54(1):33-39. doi:<a href=\"https://doi.org/10.1093/qjmath/54.1.33\">10.1093/qjmath/54.1.33</a>","ista":"Browning TD. 2003. A note on the distribution of rational points on threefolds. Quarterly Journal of Mathematics. 54(1), 33–39.","apa":"Browning, T. D. (2003). A note on the distribution of rational points on threefolds. <i>Quarterly Journal of Mathematics</i>. Unknown. <a href=\"https://doi.org/10.1093/qjmath/54.1.33\">https://doi.org/10.1093/qjmath/54.1.33</a>"},"author":[{"last_name":"Browning","first_name":"Timothy D","id":"35827D50-F248-11E8-B48F-1D18A9856A87","full_name":"Timothy Browning","orcid":"0000-0002-8314-0177"}],"month":"03","type":"journal_article","volume":54,"year":"2003","day":"01","publication_status":"published","date_updated":"2021-01-12T06:55:02Z","publisher":"Unknown","doi":"10.1093/qjmath/54.1.33","title":"A note on the distribution of rational points on threefolds","quality_controlled":0},{"article_type":"original","keyword":["Organic Chemistry","Drug Discovery","Biochemistry"],"citation":{"mla":"Michrowska, Anna, et al. “Cross-Metathesis Reaction of Vinyl Sulfones and Sulfoxides.” <i>Tetrahedron</i>, vol. 59, no. 25, Elsevier, 2003, pp. 4525–31, doi:<a href=\"https://doi.org/10.1016/s0040-4020(03)00682-3\">10.1016/s0040-4020(03)00682-3</a>.","short":"A. Michrowska, M. Bieniek, M. Kim, R. Klajn, K. Grela, Tetrahedron 59 (2003) 4525–4531.","ieee":"A. Michrowska, M. Bieniek, M. Kim, R. Klajn, and K. Grela, “Cross-metathesis reaction of vinyl sulfones and sulfoxides,” <i>Tetrahedron</i>, vol. 59, no. 25. Elsevier, pp. 4525–4531, 2003.","chicago":"Michrowska, Anna, Michał Bieniek, Mikhail Kim, Rafal Klajn, and Karol Grela. “Cross-Metathesis Reaction of Vinyl Sulfones and Sulfoxides.” <i>Tetrahedron</i>. Elsevier, 2003. <a href=\"https://doi.org/10.1016/s0040-4020(03)00682-3\">https://doi.org/10.1016/s0040-4020(03)00682-3</a>.","apa":"Michrowska, A., Bieniek, M., Kim, M., Klajn, R., &#38; Grela, K. (2003). Cross-metathesis reaction of vinyl sulfones and sulfoxides. <i>Tetrahedron</i>. Elsevier. <a href=\"https://doi.org/10.1016/s0040-4020(03)00682-3\">https://doi.org/10.1016/s0040-4020(03)00682-3</a>","ista":"Michrowska A, Bieniek M, Kim M, Klajn R, Grela K. 2003. Cross-metathesis reaction of vinyl sulfones and sulfoxides. Tetrahedron. 59(25), 4525–4531.","ama":"Michrowska A, Bieniek M, Kim M, Klajn R, Grela K. Cross-metathesis reaction of vinyl sulfones and sulfoxides. <i>Tetrahedron</i>. 2003;59(25):4525-4531. doi:<a href=\"https://doi.org/10.1016/s0040-4020(03)00682-3\">10.1016/s0040-4020(03)00682-3</a>"},"author":[{"last_name":"Michrowska","first_name":"Anna","full_name":"Michrowska, Anna"},{"full_name":"Bieniek, Michał","first_name":"Michał","last_name":"Bieniek"},{"full_name":"Kim, Mikhail","first_name":"Mikhail","last_name":"Kim"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","first_name":"Rafal","last_name":"Klajn","full_name":"Klajn, Rafal"},{"full_name":"Grela, Karol","first_name":"Karol","last_name":"Grela"}],"month":"06","language":[{"iso":"eng"}],"_id":"13436","page":"4525-4531","issue":"25","day":"16","publication_identifier":{"eissn":["1464-5416"],"issn":["0040-4020"]},"date_updated":"2023-08-08T12:44:17Z","doi":"10.1016/s0040-4020(03)00682-3","title":"Cross-metathesis reaction of vinyl sulfones and sulfoxides","article_processing_charge":"No","year":"2003","extern":"1","scopus_import":"1","date_created":"2023-08-01T10:39:34Z","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        59","abstract":[{"text":"Cross-metathesis reactions of α,β-unsaturated sulfones and sulfoxides in the presence of molybdenum and ruthenium pre-catalysts were tested. A selective metahesis reaction was achieved between functionalized terminal olefins and vinyl sulfones by using the ‘second generation’ ruthenium catalysts 1c–h while the highly active Schrock catalyst 1b was found to be functional group incompatible with vinyl sulfones. The cross-metathesis products were isolated in good yields with an excellent (E)-selectivity. Both the molybdenum and ruthenium-based complexes were, however, incompatible with α,β- and β,γ-unsaturated sulfoxides.","lang":"eng"}],"publication":"Tetrahedron","status":"public","date_published":"2003-06-16T00:00:00Z","publication_status":"published","publisher":"Elsevier","quality_controlled":"1","type":"journal_article","volume":59},{"publication_status":"published","day":"01","publisher":"Springer","date_updated":"2021-01-12T06:50:52Z","title":"Mirror symmetry, langlands duality, and the Hitchin system","doi":"10.1007/s00222-003-0286-7","quality_controlled":0,"volume":153,"type":"journal_article","oa":1,"year":"2003","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/math/0205236"}],"extern":1,"citation":{"chicago":"Hausel, Tamás, and Michael Thaddeus. “Mirror Symmetry, Langlands Duality, and the Hitchin System.” <i>Inventiones Mathematicae</i>. Springer, 2003. <a href=\"https://doi.org/10.1007/s00222-003-0286-7\">https://doi.org/10.1007/s00222-003-0286-7</a>.","ieee":"T. Hausel and M. Thaddeus, “Mirror symmetry, langlands duality, and the Hitchin system,” <i>Inventiones Mathematicae</i>, vol. 153, no. 1. Springer, pp. 197–229, 2003.","short":"T. Hausel, M. Thaddeus, Inventiones Mathematicae 153 (2003) 197–229.","mla":"Hausel, Tamás, and Michael Thaddeus. “Mirror Symmetry, Langlands Duality, and the Hitchin System.” <i>Inventiones Mathematicae</i>, vol. 153, no. 1, Springer, 2003, pp. 197–229, doi:<a href=\"https://doi.org/10.1007/s00222-003-0286-7\">10.1007/s00222-003-0286-7</a>.","ama":"Hausel T, Thaddeus M. Mirror symmetry, langlands duality, and the Hitchin system. <i>Inventiones Mathematicae</i>. 2003;153(1):197-229. doi:<a href=\"https://doi.org/10.1007/s00222-003-0286-7\">10.1007/s00222-003-0286-7</a>","ista":"Hausel T, Thaddeus M. 2003. Mirror symmetry, langlands duality, and the Hitchin system. Inventiones Mathematicae. 153(1), 197–229.","apa":"Hausel, T., &#38; Thaddeus, M. (2003). Mirror symmetry, langlands duality, and the Hitchin system. <i>Inventiones Mathematicae</i>. Springer. <a href=\"https://doi.org/10.1007/s00222-003-0286-7\">https://doi.org/10.1007/s00222-003-0286-7</a>"},"date_created":"2018-12-11T11:52:08Z","month":"07","author":[{"full_name":"Tamas Hausel","first_name":"Tamas","last_name":"Hausel","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Michael","last_name":"Thaddeus","full_name":"Thaddeus, Michael"}],"_id":"1457","intvolume":"       153","abstract":[{"lang":"eng","text":"Among the major mathematical approaches to mirror symmetry are those of Batyrev-Borisov and Stromdnger-Yau-Zaslow (SYZ). The first is explicit and amenable to computation but is not clearly related to the physical motivation; the second is the opposite. Furthermore, it is far from obvious that mirror partners in one sense will also be mirror partners in the other. This paper concerns a class of examples that can be shown to satisfy the requirements of SYZ, but whose Hodge numbers are also equal. This provides significant evidence in support of SYZ. Moreover, the examples are of great interest in their own right: they are spaces of flat SLr-connections on a smooth curve. The mirror is the corresponding space for the Langlands dual group PGLr. These examples therefore throw a bridge from mirror symmetry to the duality theory of Lie groups and, more broadly, to the geometric Langlands program."}],"page":"197 - 229","date_published":"2003-07-01T00:00:00Z","status":"public","publist_id":"5738","issue":"1","publication":"Inventiones Mathematicae"},{"acknowledgement":"The first author was supported by NSF grant DMS-97-29992. The second author was supported by NSF grant DMS-98-08529.","intvolume":"        16","_id":"1458","status":"public","date_published":"2003-04-01T00:00:00Z","publication":"Journal of the American Mathematical Society","publist_id":"5739","issue":"2","abstract":[{"text":"The moduli space of stable bundles of rank $2$ and degree $1$ on a Riemann surface has rational cohomology generated by the so-called universal classes. The work of Baranovsky, King-Newstead, Siebert-Tian and Zagier provided a complete set of relations between these classes, expressed in terms of a recursion in the genus. This paper accomplishes the same thing for the noncompact moduli spaces of Higgs bundles, in the sense of Hitchin and Simpson. There are many more independent relations than for stable bundles, but in a sense the answer is simpler, since the formulas are completely explicit, not recursive. The results of Kirwan on equivariant cohomology for holomorphic circle actions are of key importance.","lang":"eng"}],"page":"303 - 329","citation":{"apa":"Hausel, T., &#38; Thaddeus, M. (2003). Relations in the cohomology ring of the moduli space of rank 2 Higgs bundles. <i>Journal of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/S0894-0347-02-00417-4\">https://doi.org/10.1090/S0894-0347-02-00417-4</a>","ista":"Hausel T, Thaddeus M. 2003. Relations in the cohomology ring of the moduli space of rank 2 Higgs bundles. Journal of the American Mathematical Society. 16(2), 303–329.","ama":"Hausel T, Thaddeus M. Relations in the cohomology ring of the moduli space of rank 2 Higgs bundles. <i>Journal of the American Mathematical Society</i>. 2003;16(2):303-329. doi:<a href=\"https://doi.org/10.1090/S0894-0347-02-00417-4\">10.1090/S0894-0347-02-00417-4</a>","short":"T. Hausel, M. Thaddeus, Journal of the American Mathematical Society 16 (2003) 303–329.","mla":"Hausel, Tamás, and Michael Thaddeus. “Relations in the Cohomology Ring of the Moduli Space of Rank 2 Higgs Bundles.” <i>Journal of the American Mathematical Society</i>, vol. 16, no. 2, American Mathematical Society, 2003, pp. 303–29, doi:<a href=\"https://doi.org/10.1090/S0894-0347-02-00417-4\">10.1090/S0894-0347-02-00417-4</a>.","ieee":"T. Hausel and M. Thaddeus, “Relations in the cohomology ring of the moduli space of rank 2 Higgs bundles,” <i>Journal of the American Mathematical Society</i>, vol. 16, no. 2. American Mathematical Society, pp. 303–329, 2003.","chicago":"Hausel, Tamás, and Michael Thaddeus. “Relations in the Cohomology Ring of the Moduli Space of Rank 2 Higgs Bundles.” <i>Journal of the American Mathematical Society</i>. American Mathematical Society, 2003. <a href=\"https://doi.org/10.1090/S0894-0347-02-00417-4\">https://doi.org/10.1090/S0894-0347-02-00417-4</a>."},"date_created":"2018-12-11T11:52:08Z","extern":1,"month":"04","author":[{"id":"4A0666D8-F248-11E8-B48F-1D18A9856A87","first_name":"Tamas","last_name":"Hausel","full_name":"Tamas Hausel"},{"full_name":"Thaddeus, Michael","last_name":"Thaddeus","first_name":"Michael"}],"oa":1,"volume":16,"type":"journal_article","year":"2003","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/math/0003094"}],"publisher":"American Mathematical Society","date_updated":"2021-01-12T06:50:53Z","publication_status":"published","day":"01","quality_controlled":0,"title":"Relations in the cohomology ring of the moduli space of rank 2 Higgs bundles","doi":"10.1090/S0894-0347-02-00417-4"},{"publication":"Communications in Mathematical Physics","publist_id":"5740","issue":"2","date_published":"2003-04-01T00:00:00Z","status":"public","page":"275 - 288","abstract":[{"lang":"eng","text":"In this paper we explicitly calculate the analogue of the 't Hooft SU (2) Yang-Mills instantons on Gibbons-Hawking multi-centered gravitational instantons, which come in two parallel families: the multi-Eguchi-Hanson, or Ak ALE gravitational instantons and the multi-Taub-NUT spaces, or Ak ALF gravitational instantons. We calculate their energy and find the reducible ones. Following Kronheimer we also exploit the U(1) invariance of our solutions and study the corresponding explicit singular SU (2) magnetic monopole solutions of the Bogomolny equations on flat ℝ3."}],"intvolume":"       235","_id":"1459","acknowledgement":"We would like to acknowledge the financial support by Prof. P. Major (R ́ enyi Institute, Hungary) from his OTKA grant No. T26176 and of the Miller Institute for Basic Research in Science at UC Berkeley.","author":[{"full_name":"Etesi, Gábor","last_name":"Etesi","first_name":"Gábor"},{"id":"4A0666D8-F248-11E8-B48F-1D18A9856A87","first_name":"Tamas","last_name":"Hausel","full_name":"Tamas Hausel"}],"month":"04","date_created":"2018-12-11T11:52:09Z","citation":{"apa":"Etesi, G., &#38; Hausel, T. (2003). On Yang-Mills instantons over multi-centered gravitational instantons. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-003-0806-8\">https://doi.org/10.1007/s00220-003-0806-8</a>","ista":"Etesi G, Hausel T. 2003. On Yang-Mills instantons over multi-centered gravitational instantons. Communications in Mathematical Physics. 235(2), 275–288.","ama":"Etesi G, Hausel T. On Yang-Mills instantons over multi-centered gravitational instantons. <i>Communications in Mathematical Physics</i>. 2003;235(2):275-288. doi:<a href=\"https://doi.org/10.1007/s00220-003-0806-8\">10.1007/s00220-003-0806-8</a>","short":"G. Etesi, T. Hausel, Communications in Mathematical Physics 235 (2003) 275–288.","mla":"Etesi, Gábor, and Tamás Hausel. “On Yang-Mills Instantons over Multi-Centered Gravitational Instantons.” <i>Communications in Mathematical Physics</i>, vol. 235, no. 2, Springer, 2003, pp. 275–88, doi:<a href=\"https://doi.org/10.1007/s00220-003-0806-8\">10.1007/s00220-003-0806-8</a>.","ieee":"G. Etesi and T. Hausel, “On Yang-Mills instantons over multi-centered gravitational instantons,” <i>Communications in Mathematical Physics</i>, vol. 235, no. 2. Springer, pp. 275–288, 2003.","chicago":"Etesi, Gábor, and Tamás Hausel. “On Yang-Mills Instantons over Multi-Centered Gravitational Instantons.” <i>Communications in Mathematical Physics</i>. Springer, 2003. <a href=\"https://doi.org/10.1007/s00220-003-0806-8\">https://doi.org/10.1007/s00220-003-0806-8</a>."},"extern":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/hep-th/0207196"}],"year":"2003","oa":1,"type":"journal_article","volume":235,"quality_controlled":0,"doi":"10.1007/s00220-003-0806-8","title":"On Yang-Mills instantons over multi-centered gravitational instantons","date_updated":"2021-01-12T06:50:53Z","publisher":"Springer","day":"01","publication_status":"published"},{"date_published":"2003-06-28T00:00:00Z","status":"public","publist_id":"7239","publication":"Journal of Physics B: Atomic, Molecular and Optical Physics","issue":"12","abstract":[{"lang":"eng","text":"We study the free expansion of a pancake-shaped Bose-condensed gas, which is initially trapped under harmonic confinement and containing a vortex at its centre. In the case of a radial expansion holding the axial confinement fixed we consider various models for the interactions, depending on the thickness of the condensate relative to the value of the scattering length. We are thus able to evaluate different scattering regimes ranging from quasi-three-dimensional (Q3D) to strictly two-dimensional (2D). We find that as the system goes from Q3D to 2D the expansion rate of the condensate increases whereas that of the vortex core decreases. In the Q3D scattering regime we also examine a fully free expansion in 3D and find oscillatory behaviour for the vortex core radius: an initial fast expansion of the vortex core is followed by a slowing down. Such a nonuniform expansion rate of the vortex core implies that the timing of its observation should be chosen appropriately."}],"page":"2455 - 2463","intvolume":"        36","_id":"576","month":"06","author":[{"first_name":"Onur","last_name":"Hosten","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2031-204X","full_name":"Onur Hosten"},{"last_name":"Vignolo","first_name":"Patrizia","full_name":"Vignolo, Patrizia"},{"first_name":"Anna","last_name":"Minguzzi","full_name":"Minguzzi, Anna"},{"full_name":"Tanatar, Bilal","last_name":"Tanatar","first_name":"Bilal"},{"full_name":"Tosi, Mario P","first_name":"Mario","last_name":"Tosi"}],"citation":{"chicago":"Hosten, Onur, Patrizia Vignolo, Anna Minguzzi, Bilal Tanatar, and Mario Tosi. “Free Expansion of Two-Dimensional Condensates with a Vortex.” <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>. IOP Publishing Ltd., 2003. <a href=\"https://doi.org/10.1088/0953-4075/36/12/306\">https://doi.org/10.1088/0953-4075/36/12/306</a>.","ieee":"O. Hosten, P. Vignolo, A. Minguzzi, B. Tanatar, and M. Tosi, “Free expansion of two-dimensional condensates with a vortex,” <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>, vol. 36, no. 12. IOP Publishing Ltd., pp. 2455–2463, 2003.","short":"O. Hosten, P. Vignolo, A. Minguzzi, B. Tanatar, M. Tosi, Journal of Physics B: Atomic, Molecular and Optical Physics 36 (2003) 2455–2463.","mla":"Hosten, Onur, et al. “Free Expansion of Two-Dimensional Condensates with a Vortex.” <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>, vol. 36, no. 12, IOP Publishing Ltd., 2003, pp. 2455–63, doi:<a href=\"https://doi.org/10.1088/0953-4075/36/12/306\">10.1088/0953-4075/36/12/306</a>.","ama":"Hosten O, Vignolo P, Minguzzi A, Tanatar B, Tosi M. Free expansion of two-dimensional condensates with a vortex. <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>. 2003;36(12):2455-2463. doi:<a href=\"https://doi.org/10.1088/0953-4075/36/12/306\">10.1088/0953-4075/36/12/306</a>","ista":"Hosten O, Vignolo P, Minguzzi A, Tanatar B, Tosi M. 2003. Free expansion of two-dimensional condensates with a vortex. Journal of Physics B: Atomic, Molecular and Optical Physics. 36(12), 2455–2463.","apa":"Hosten, O., Vignolo, P., Minguzzi, A., Tanatar, B., &#38; Tosi, M. (2003). Free expansion of two-dimensional condensates with a vortex. <i>Journal of Physics B: Atomic, Molecular and Optical Physics</i>. IOP Publishing Ltd. <a href=\"https://doi.org/10.1088/0953-4075/36/12/306\">https://doi.org/10.1088/0953-4075/36/12/306</a>"},"date_created":"2018-12-11T11:47:16Z","extern":1,"year":"2003","volume":36,"type":"journal_article","quality_controlled":0,"title":"Free expansion of two-dimensional condensates with a vortex","doi":"10.1088/0953-4075/36/12/306","publisher":"IOP Publishing Ltd.","date_updated":"2021-01-12T08:03:20Z","publication_status":"published","day":"28"},{"day":"12","publication_identifier":{"issn":["1097-6256","1546-1726"]},"publication_status":"published","date_updated":"2021-01-12T08:06:25Z","publisher":"Springer Nature","doi":"10.1038/nn1140","title":"Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation of NPR-1","quality_controlled":"1","external_id":{"pmid":["14555955"]},"pmid":1,"type":"journal_article","volume":6,"year":"2003","extern":"1","date_created":"2019-03-21T09:47:53Z","citation":{"ieee":"C. Rogers <i>et al.</i>, “Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation of NPR-1,” <i>Nature Neuroscience</i>, vol. 6, no. 11. Springer Nature, pp. 1178–1185, 2003.","chicago":"Rogers, Candida, Vincenzina Reale, Kyuhyung Kim, Heather Chatwin, Chris Li, Peter Evans, and Mario de Bono. “Inhibition of Caenorhabditis Elegans Social Feeding by FMRFamide-Related Peptide Activation of NPR-1.” <i>Nature Neuroscience</i>. Springer Nature, 2003. <a href=\"https://doi.org/10.1038/nn1140\">https://doi.org/10.1038/nn1140</a>.","mla":"Rogers, Candida, et al. “Inhibition of Caenorhabditis Elegans Social Feeding by FMRFamide-Related Peptide Activation of NPR-1.” <i>Nature Neuroscience</i>, vol. 6, no. 11, Springer Nature, 2003, pp. 1178–85, doi:<a href=\"https://doi.org/10.1038/nn1140\">10.1038/nn1140</a>.","short":"C. Rogers, V. Reale, K. Kim, H. Chatwin, C. Li, P. Evans, M. de Bono, Nature Neuroscience 6 (2003) 1178–1185.","ama":"Rogers C, Reale V, Kim K, et al. Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation of NPR-1. <i>Nature Neuroscience</i>. 2003;6(11):1178-1185. doi:<a href=\"https://doi.org/10.1038/nn1140\">10.1038/nn1140</a>","apa":"Rogers, C., Reale, V., Kim, K., Chatwin, H., Li, C., Evans, P., &#38; de Bono, M. (2003). Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation of NPR-1. <i>Nature Neuroscience</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nn1140\">https://doi.org/10.1038/nn1140</a>","ista":"Rogers C, Reale V, Kim K, Chatwin H, Li C, Evans P, de Bono M. 2003. Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation of NPR-1. Nature Neuroscience. 6(11), 1178–1185."},"oa_version":"None","author":[{"last_name":"Rogers","first_name":"Candida","full_name":"Rogers, Candida"},{"full_name":"Reale, Vincenzina","last_name":"Reale","first_name":"Vincenzina"},{"last_name":"Kim","first_name":"Kyuhyung","full_name":"Kim, Kyuhyung"},{"full_name":"Chatwin, Heather","last_name":"Chatwin","first_name":"Heather"},{"full_name":"Li, Chris","last_name":"Li","first_name":"Chris"},{"full_name":"Evans, Peter","last_name":"Evans","first_name":"Peter"},{"full_name":"de Bono, Mario","orcid":"0000-0001-8347-0443","last_name":"de Bono","first_name":"Mario","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87"}],"month":"10","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"6156","language":[{"iso":"eng"}],"intvolume":"         6","page":"1178-1185","abstract":[{"lang":"eng","text":"Social and solitary feeding in natural Caenorhabditis elegans isolates are associated with two alleles of the orphan G-protein-coupled receptor (GPCR) NPR-1: social feeders contain NPR-1 215F, whereas solitary feeders contain NPR-1 215V. Here we identify FMRFamide-related neuropeptides (FaRPs) encoded by the flp-18 and flp-21 genes as NPR-1 ligands and show that these peptides can differentially activate the NPR-1 215F and NPR-1 215V receptors. Multicopy overexpression of flp-21 transformed wild social animals into solitary feeders. Conversely, a flp-21 deletion partially phenocopied the npr-1(null) phenotype, which is consistent with NPR-1 activation by FLP-21 in vivo but also implicates other ligands for NPR-1. Phylogenetic studies indicate that the dominant npr-1 215V allele likely arose from an ancestral npr-1 215F gene in C. elegans. Our data suggest a model in which solitary feeding evolved in an ancestral social strain of C. elegans by a gain-of-function mutation that modified the response of NPR-1 to FLP-18 and FLP-21 ligands."}],"publication":"Nature Neuroscience","issue":"11","status":"public","date_published":"2003-10-12T00:00:00Z"},{"year":"2003","type":"journal_article","volume":54,"quality_controlled":"1","external_id":{"pmid":["12486699"]},"pmid":1,"doi":"10.1002/neu.10162","title":"Molecular approaches to aggregation behavior and social attachment","date_updated":"2021-01-12T08:06:26Z","publisher":"Wiley","day":"01","publication_identifier":{"issn":["0022-3034","1097-4695"]},"publication_status":"published","issue":"1","publication":"Journal of Neurobiology","date_published":"2003-01-01T00:00:00Z","status":"public","page":"78-92","abstract":[{"text":"In many animal species individuals aggregate to live in groups. A range of experimental approaches in different animals, including studies of social feeding in nematodes, maternal behavior in rats and sheep, and pair-bonding in voles, are providing insights into the neural bases for these behaviors. These studies are delineating multiple neural circuits and gene networks in the brain that interact in ways that are as yet poorly understood to coordinate social behavior.","lang":"eng"}],"intvolume":"        54","_id":"6157","language":[{"iso":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa_version":"None","author":[{"id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","first_name":"Mario","last_name":"de Bono","orcid":"0000-0001-8347-0443","full_name":"de Bono, Mario"}],"month":"01","date_created":"2019-03-21T09:52:31Z","citation":{"ista":"de Bono M. 2003. Molecular approaches to aggregation behavior and social attachment. Journal of Neurobiology. 54(1), 78–92.","apa":"de Bono, M. (2003). Molecular approaches to aggregation behavior and social attachment. <i>Journal of Neurobiology</i>. Wiley. <a href=\"https://doi.org/10.1002/neu.10162\">https://doi.org/10.1002/neu.10162</a>","ama":"de Bono M. Molecular approaches to aggregation behavior and social attachment. <i>Journal of Neurobiology</i>. 2003;54(1):78-92. doi:<a href=\"https://doi.org/10.1002/neu.10162\">10.1002/neu.10162</a>","short":"M. de Bono, Journal of Neurobiology 54 (2003) 78–92.","mla":"de Bono, Mario. “Molecular Approaches to Aggregation Behavior and Social Attachment.” <i>Journal of Neurobiology</i>, vol. 54, no. 1, Wiley, 2003, pp. 78–92, doi:<a href=\"https://doi.org/10.1002/neu.10162\">10.1002/neu.10162</a>.","chicago":"Bono, Mario de. “Molecular Approaches to Aggregation Behavior and Social Attachment.” <i>Journal of Neurobiology</i>. Wiley, 2003. <a href=\"https://doi.org/10.1002/neu.10162\">https://doi.org/10.1002/neu.10162</a>.","ieee":"M. de Bono, “Molecular approaches to aggregation behavior and social attachment,” <i>Journal of Neurobiology</i>, vol. 54, no. 1. Wiley, pp. 78–92, 2003."},"extern":"1"},{"year":"2003","article_processing_charge":"No","doi":"10.1126/science.1079695","title":"ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation","external_id":{"pmid":["12522258"]},"day":"31","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"date_updated":"2021-12-14T08:43:30Z","page":"716-719","issue":"5607","language":[{"iso":"eng"}],"_id":"9455","author":[{"orcid":"0000-0002-0123-8649","full_name":"Zilberman, Daniel","last_name":"Zilberman","first_name":"Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"},{"first_name":" Xiaofeng","last_name":"Cao","full_name":"Cao,  Xiaofeng"},{"full_name":"Jacobsen, Steven E.","first_name":"Steven E.","last_name":"Jacobsen"}],"month":"01","article_type":"original","keyword":["Multidisciplinary"],"citation":{"apa":"Zilberman, D., Cao,  Xiaofeng, &#38; Jacobsen, S. E. (2003). ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1079695\">https://doi.org/10.1126/science.1079695</a>","ista":"Zilberman D, Cao  Xiaofeng, Jacobsen SE. 2003. ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science. 299(5607), 716–719.","ama":"Zilberman D, Cao  Xiaofeng, Jacobsen SE. ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. <i>Science</i>. 2003;299(5607):716-719. doi:<a href=\"https://doi.org/10.1126/science.1079695\">10.1126/science.1079695</a>","mla":"Zilberman, Daniel, et al. “ARGONAUTE4 Control of Locus-Specific SiRNA Accumulation and DNA and Histone Methylation.” <i>Science</i>, vol. 299, no. 5607, American Association for the Advancement of Science, 2003, pp. 716–19, doi:<a href=\"https://doi.org/10.1126/science.1079695\">10.1126/science.1079695</a>.","short":"D. Zilberman,  Xiaofeng Cao, S.E. Jacobsen, Science 299 (2003) 716–719.","ieee":"D. Zilberman,  Xiaofeng Cao, and S. E. Jacobsen, “ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation,” <i>Science</i>, vol. 299, no. 5607. American Association for the Advancement of Science, pp. 716–719, 2003.","chicago":"Zilberman, Daniel,  Xiaofeng Cao, and Steven E. Jacobsen. “ARGONAUTE4 Control of Locus-Specific SiRNA Accumulation and DNA and Histone Methylation.” <i>Science</i>. American Association for the Advancement of Science, 2003. <a href=\"https://doi.org/10.1126/science.1079695\">https://doi.org/10.1126/science.1079695</a>."},"type":"journal_article","volume":299,"department":[{"_id":"DaZi"}],"quality_controlled":"1","pmid":1,"publication_status":"published","publisher":"American Association for the Advancement of Science","abstract":[{"lang":"eng","text":"Proteins of the ARGONAUTE family are important in diverse posttranscriptional RNA-mediated gene-silencing systems as well as in transcriptional gene silencing in Drosophila and fission yeast and in programmed DNA elimination in Tetrahymena. We cloned ARGONAUTE4 (AGO4) from a screen for mutants that suppress silencing of the Arabidopsis SUPERMAN(SUP) gene. The ago4-1 mutant reactivated silentSUP alleles and decreased CpNpG and asymmetric DNA methylation as well as histone H3 lysine-9 methylation. In addition,ago4-1 blocked histone and DNA methylation and the accumulation of 25-nucleotide small interfering RNAs (siRNAs) that correspond to the retroelement AtSN1. These results suggest that AGO4 and long siRNAs direct chromatin modifications, including histone methylation and non-CpG DNA methylation."}],"publication":"Science","status":"public","date_published":"2003-01-31T00:00:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"       299","oa_version":"None","extern":"1","scopus_import":"1","date_created":"2021-06-04T11:26:26Z"},{"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"        13","abstract":[{"lang":"eng","text":"RNA interference is a conserved process in which double-stranded RNA is processed into 21–25 nucleotide siRNAs that trigger posttranscriptional gene silencing. In addition, plants display a phenomenon termed RNA-directed DNA methylation (RdDM) in which DNA with sequence identity to silenced RNA is de novo methylated at its cytosine residues. This methylation is not only at canonical CpG sites but also at cytosines in CpNpG and asymmetric sequence contexts. In this report, we study the role of the DRM and CMT3 DNA methyltransferase genes in the initiation and maintenance of RdDM. Neither drm nor cmt3 mutants affected the maintenance of preestablished RNA-directed CpG methylation. However, drm mutants showed a nearly complete loss of asymmetric methylation and a partial loss of CpNpG methylation. The remaining asymmetric and CpNpG methylation was dependent on the activity of CMT3, showing that DRM and CMT3 act redundantly to maintain non-CpG methylation. These DNA methyltransferases appear to act downstream of siRNAs, since drm1 drm2 cmt3 triple mutants show a lack of non-CpG methylation but elevated levels of siRNAs. Finally, we demonstrate that DRM activity is required for the initial establishment of RdDM in all sequence contexts including CpG, CpNpG, and asymmetric sites."}],"date_published":"2003-12-16T00:00:00Z","status":"public","publication":"Current Biology","extern":"1","scopus_import":"1","date_created":"2021-06-07T10:43:02Z","oa_version":"Published Version","volume":13,"type":"journal_article","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cub.2003.11.052"}],"publication_status":"published","publisher":"Elsevier","department":[{"_id":"DaZi"}],"pmid":1,"quality_controlled":"1","_id":"9495","language":[{"iso":"eng"}],"page":"2212-2217","issue":"24","article_type":"original","citation":{"ama":"Cao X, Aufsatz W, Zilberman D, et al. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. <i>Current Biology</i>. 2003;13(24):2212-2217. doi:<a href=\"https://doi.org/10.1016/j.cub.2003.11.052\">10.1016/j.cub.2003.11.052</a>","apa":"Cao, X., Aufsatz, W., Zilberman, D., Mette, M. F., Huang, M. S., Matzke, M., &#38; Jacobsen, S. E. (2003). Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2003.11.052\">https://doi.org/10.1016/j.cub.2003.11.052</a>","ista":"Cao X, Aufsatz W, Zilberman D, Mette MF, Huang MS, Matzke M, Jacobsen SE. 2003. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Current Biology. 13(24), 2212–2217.","ieee":"X. Cao <i>et al.</i>, “Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation,” <i>Current Biology</i>, vol. 13, no. 24. Elsevier, pp. 2212–2217, 2003.","chicago":"Cao, Xiaofeng, Werner Aufsatz, Daniel Zilberman, M.Florian Mette, Michael S. Huang, Marjori Matzke, and Steven E. Jacobsen. “Role of the DRM and CMT3 Methyltransferases in RNA-Directed DNA Methylation.” <i>Current Biology</i>. Elsevier, 2003. <a href=\"https://doi.org/10.1016/j.cub.2003.11.052\">https://doi.org/10.1016/j.cub.2003.11.052</a>.","short":"X. Cao, W. Aufsatz, D. Zilberman, M.F. Mette, M.S. Huang, M. Matzke, S.E. Jacobsen, Current Biology 13 (2003) 2212–2217.","mla":"Cao, Xiaofeng, et al. “Role of the DRM and CMT3 Methyltransferases in RNA-Directed DNA Methylation.” <i>Current Biology</i>, vol. 13, no. 24, Elsevier, 2003, pp. 2212–17, doi:<a href=\"https://doi.org/10.1016/j.cub.2003.11.052\">10.1016/j.cub.2003.11.052</a>."},"month":"12","author":[{"full_name":"Cao, Xiaofeng","last_name":"Cao","first_name":"Xiaofeng"},{"last_name":"Aufsatz","first_name":"Werner","full_name":"Aufsatz, Werner"},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","first_name":"Daniel","full_name":"Zilberman, Daniel","orcid":"0000-0002-0123-8649"},{"full_name":"Mette, M.Florian","first_name":"M.Florian","last_name":"Mette"},{"last_name":"Huang","first_name":"Michael S.","full_name":"Huang, Michael S."},{"full_name":"Matzke, Marjori","first_name":"Marjori","last_name":"Matzke"},{"full_name":"Jacobsen, Steven E.","first_name":"Steven E.","last_name":"Jacobsen"}],"oa":1,"article_processing_charge":"No","year":"2003","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"day":"16","date_updated":"2021-12-14T08:41:38Z","title":"Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation","doi":"10.1016/j.cub.2003.11.052","external_id":{"pmid":["14680640"]}},{"abstract":[{"text":"In metazoa, the nuclear envelope breaks down and reforms during each cell cycle. Nuclear pore complexes (NPCs), which serve as channels for transport between the nucleus and cytoplasm1, assemble into the reforming nuclear envelope in a sequential process involving association of a subset of NPC proteins, nucleoporins, with chromatin followed by the formation of a closed nuclear envelope fenestrated by NPCs2,3,4,5,6,7. How chromatin recruitment of nucleoporins and NPC assembly are regulated is unknown. Here we demonstrate that RanGTP production is required to dissociate nucleoporins Nup107, Nup153 and Nup358 from Importin β, to target them to chromatin and to induce association between separate NPC subcomplexes. Additionally, either an excess of RanGTP or removal of Importin β induces formation of NPC-containing membrane structures—annulate lamellae—both in vitro in the absence of chromatin and in vivo. Annulate lamellae formation is strongly and specifically inhibited by an excess of Importin β. The data demonstrate that RanGTP triggers distinct steps of NPC assembly, and suggest a mechanism for the spatial restriction of NPC assembly to the surface of chromatin.","lang":"eng"}],"status":"public","date_published":"2003-07-30T00:00:00Z","publication":"Nature","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","intvolume":"       424","oa_version":"None","scopus_import":"1","extern":"1","date_created":"2022-04-07T07:57:02Z","volume":424,"type":"journal_article","pmid":1,"quality_controlled":"1","publication_status":"published","publisher":"Springer Nature","page":"689-694","issue":"6949","language":[{"iso":"eng"}],"_id":"11121","month":"07","author":[{"first_name":"Tobias C.","last_name":"Walther","full_name":"Walther, Tobias C."},{"full_name":"Askjaer, Peter","first_name":"Peter","last_name":"Askjaer"},{"full_name":"Gentzel, Marc","first_name":"Marc","last_name":"Gentzel"},{"full_name":"Habermann, Anja","last_name":"Habermann","first_name":"Anja"},{"full_name":"Griffiths, Gareth","last_name":"Griffiths","first_name":"Gareth"},{"first_name":"Matthias","last_name":"Wilm","full_name":"Wilm, Matthias"},{"first_name":"Iain W.","last_name":"Mattaj","full_name":"Mattaj, Iain W."},{"orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","first_name":"Martin W"}],"article_type":"original","keyword":["Multidisciplinary"],"citation":{"ama":"Walther TC, Askjaer P, Gentzel M, et al. RanGTP mediates nuclear pore complex assembly. <i>Nature</i>. 2003;424(6949):689-694. doi:<a href=\"https://doi.org/10.1038/nature01898\">10.1038/nature01898</a>","apa":"Walther, T. C., Askjaer, P., Gentzel, M., Habermann, A., Griffiths, G., Wilm, M., … Hetzer, M. (2003). RanGTP mediates nuclear pore complex assembly. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nature01898\">https://doi.org/10.1038/nature01898</a>","ista":"Walther TC, Askjaer P, Gentzel M, Habermann A, Griffiths G, Wilm M, Mattaj IW, Hetzer M. 2003. RanGTP mediates nuclear pore complex assembly. Nature. 424(6949), 689–694.","ieee":"T. C. Walther <i>et al.</i>, “RanGTP mediates nuclear pore complex assembly,” <i>Nature</i>, vol. 424, no. 6949. Springer Nature, pp. 689–694, 2003.","chicago":"Walther, Tobias C., Peter Askjaer, Marc Gentzel, Anja Habermann, Gareth Griffiths, Matthias Wilm, Iain W. Mattaj, and Martin Hetzer. “RanGTP Mediates Nuclear Pore Complex Assembly.” <i>Nature</i>. Springer Nature, 2003. <a href=\"https://doi.org/10.1038/nature01898\">https://doi.org/10.1038/nature01898</a>.","short":"T.C. Walther, P. Askjaer, M. Gentzel, A. Habermann, G. Griffiths, M. Wilm, I.W. Mattaj, M. Hetzer, Nature 424 (2003) 689–694.","mla":"Walther, Tobias C., et al. “RanGTP Mediates Nuclear Pore Complex Assembly.” <i>Nature</i>, vol. 424, no. 6949, Springer Nature, 2003, pp. 689–94, doi:<a href=\"https://doi.org/10.1038/nature01898\">10.1038/nature01898</a>."},"year":"2003","article_processing_charge":"No","title":"RanGTP mediates nuclear pore complex assembly","doi":"10.1038/nature01898","external_id":{"pmid":["12894213"]},"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"day":"30","date_updated":"2022-07-18T08:57:40Z"}]