[{"publisher":"Springer Nature","day":"01","_id":"8026","pmid":1,"publication":"Nature Neuroscience","title":"Gating multiple signals through detailed balance of excitation and inhibition in spiking networks","article_type":"original","volume":12,"quality_controlled":"1","date_created":"2020-06-25T13:10:55Z","abstract":[{"lang":"eng","text":"Recent theoretical work has provided a basic understanding of signal propagation in networks of spiking neurons, but mechanisms for gating and controlling these signals have not been investigated previously. Here we introduce an idea for the gating of multiple signals in cortical networks that combines principles of signal propagation with aspects of balanced networks. Specifically, we studied networks in which incoming excitatory signals are normally cancelled by locally evoked inhibition, leaving the targeted layer unresponsive. Transmission can be gated 'on' by modulating excitatory and inhibitory gains to upset this detailed balance. We illustrate gating through detailed balance in large networks of integrate-and-fire neurons. We show successful gating of multiple signals and study failure modes that produce effects reminiscent of clinically observed pathologies. Provided that the individual signals are detectable, detailed balance has a large capacity for gating multiple signals."}],"intvolume":"        12","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2693069/","open_access":"1"}],"year":"2009","issue":"4","date_published":"2009-04-01T00:00:00Z","oa":1,"extern":"1","language":[{"iso":"eng"}],"citation":{"chicago":"Vogels, Tim P, and L F Abbott. “Gating Multiple Signals through Detailed Balance of Excitation and Inhibition in Spiking Networks.” <i>Nature Neuroscience</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1038/nn.2276\">https://doi.org/10.1038/nn.2276</a>.","apa":"Vogels, T. P., &#38; Abbott, L. F. (2009). Gating multiple signals through detailed balance of excitation and inhibition in spiking networks. <i>Nature Neuroscience</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nn.2276\">https://doi.org/10.1038/nn.2276</a>","ama":"Vogels TP, Abbott LF. Gating multiple signals through detailed balance of excitation and inhibition in spiking networks. <i>Nature Neuroscience</i>. 2009;12(4):483-491. doi:<a href=\"https://doi.org/10.1038/nn.2276\">10.1038/nn.2276</a>","mla":"Vogels, Tim P., and L. F. Abbott. “Gating Multiple Signals through Detailed Balance of Excitation and Inhibition in Spiking Networks.” <i>Nature Neuroscience</i>, vol. 12, no. 4, Springer Nature, 2009, pp. 483–91, doi:<a href=\"https://doi.org/10.1038/nn.2276\">10.1038/nn.2276</a>.","ista":"Vogels TP, Abbott LF. 2009. Gating multiple signals through detailed balance of excitation and inhibition in spiking networks. Nature Neuroscience. 12(4), 483–491.","short":"T.P. Vogels, L.F. Abbott, Nature Neuroscience 12 (2009) 483–491.","ieee":"T. P. Vogels and L. F. Abbott, “Gating multiple signals through detailed balance of excitation and inhibition in spiking networks,” <i>Nature Neuroscience</i>, vol. 12, no. 4. Springer Nature, pp. 483–491, 2009."},"publication_identifier":{"issn":["1097-6256","1546-1726"]},"page":"483-491","external_id":{"pmid":["19305402"]},"user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","month":"04","type":"journal_article","oa_version":"Submitted Version","publication_status":"published","doi":"10.1038/nn.2276","status":"public","date_updated":"2021-01-12T08:16:36Z","article_processing_charge":"No","author":[{"id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","orcid":"0000-0003-3295-6181","first_name":"Tim P","full_name":"Vogels, Tim P","last_name":"Vogels"},{"last_name":"Abbott","full_name":"Abbott, L F","first_name":"L F"}]},{"volume":48,"month":"11","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","title":"Direct detection of 3hJN' hydrogen-bond scalar couplings in proteins by solid-state NMR spectroscopy","page":"9322-9325","publication":"Angewandte Chemie International Edition","keyword":["General Chemistry","Catalysis"],"publication_identifier":{"issn":["1433-7851","1521-3773"]},"citation":{"mla":"Schanda, Paul, et al. “Direct Detection of 3hJN’ Hydrogen-Bond Scalar Couplings in Proteins by Solid-State NMR Spectroscopy.” <i>Angewandte Chemie International Edition</i>, vol. 48, no. 49, Wiley, 2009, pp. 9322–25, doi:<a href=\"https://doi.org/10.1002/anie.200904411\">10.1002/anie.200904411</a>.","short":"P. Schanda, M. Huber, R. Verel, M. Ernst, B. Meier, Angewandte Chemie International Edition 48 (2009) 9322–9325.","ieee":"P. Schanda, M. Huber, R. Verel, M. Ernst, and B. Meier, “Direct detection of 3hJN’ hydrogen-bond scalar couplings in proteins by solid-state NMR spectroscopy,” <i>Angewandte Chemie International Edition</i>, vol. 48, no. 49. Wiley, pp. 9322–9325, 2009.","ista":"Schanda P, Huber M, Verel R, Ernst M, Meier B. 2009. Direct detection of 3hJN’ hydrogen-bond scalar couplings in proteins by solid-state NMR spectroscopy. Angewandte Chemie International Edition. 48(49), 9322–9325.","ama":"Schanda P, Huber M, Verel R, Ernst M, Meier B. Direct detection of 3hJN’ hydrogen-bond scalar couplings in proteins by solid-state NMR spectroscopy. <i>Angewandte Chemie International Edition</i>. 2009;48(49):9322-9325. doi:<a href=\"https://doi.org/10.1002/anie.200904411\">10.1002/anie.200904411</a>","chicago":"Schanda, Paul, Matthias Huber, René Verel, Matthias Ernst, and Beat H. Meier. “Direct Detection of 3hJN’ Hydrogen-Bond Scalar Couplings in Proteins by Solid-State NMR Spectroscopy.” <i>Angewandte Chemie International Edition</i>. Wiley, 2009. <a href=\"https://doi.org/10.1002/anie.200904411\">https://doi.org/10.1002/anie.200904411</a>.","apa":"Schanda, P., Huber, M., Verel, R., Ernst, M., &#38; Meier, B. (2009). Direct detection of 3hJN’ hydrogen-bond scalar couplings in proteins by solid-state NMR spectroscopy. <i>Angewandte Chemie International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.200904411\">https://doi.org/10.1002/anie.200904411</a>"},"language":[{"iso":"eng"}],"_id":"8474","extern":"1","day":"17","publisher":"Wiley","article_processing_charge":"No","author":[{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606","first_name":"Paul","full_name":"Schanda, Paul","last_name":"Schanda"},{"first_name":"Matthias","last_name":"Huber","full_name":"Huber, Matthias"},{"first_name":"René","full_name":"Verel, René","last_name":"Verel"},{"last_name":"Ernst","full_name":"Ernst, Matthias","first_name":"Matthias"},{"last_name":"Meier","full_name":"Meier, Beat H.","first_name":"Beat H."}],"date_updated":"2021-01-12T08:19:31Z","date_published":"2009-11-17T00:00:00Z","issue":"49","year":"2009","status":"public","doi":"10.1002/anie.200904411","abstract":[{"lang":"eng","text":"Hydrogen bonds are ubiquitous interactions in proteins, and are important for their folding and functionality. Scalar coupling constants across hydrogen bonds in the protein backbone, some as small as 0.5 Hz, can be directly measured in the solid state by NMR spectroscopy (see figure). The nuclei on both sides of the hydrogen bond can be identified and the size of the coupling constant can be measured accurately."}],"date_created":"2020-09-18T10:11:33Z","publication_status":"published","intvolume":"        48","oa_version":"None","quality_controlled":"1","type":"journal_article"},{"volume":55,"month":"10","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Fast-pulsing longitudinal relaxation optimized techniques: Enriching the toolbox of fast biomolecular NMR spectroscopy","article_type":"original","page":"238-265","publication":"Progress in Nuclear Magnetic Resonance Spectroscopy","publication_identifier":{"issn":["0079-6565"]},"citation":{"chicago":"Schanda, Paul. “Fast-Pulsing Longitudinal Relaxation Optimized Techniques: Enriching the Toolbox of Fast Biomolecular NMR Spectroscopy.” <i>Progress in Nuclear Magnetic Resonance Spectroscopy</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.pnmrs.2009.05.002\">https://doi.org/10.1016/j.pnmrs.2009.05.002</a>.","apa":"Schanda, P. (2009). Fast-pulsing longitudinal relaxation optimized techniques: Enriching the toolbox of fast biomolecular NMR spectroscopy. <i>Progress in Nuclear Magnetic Resonance Spectroscopy</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.pnmrs.2009.05.002\">https://doi.org/10.1016/j.pnmrs.2009.05.002</a>","ama":"Schanda P. Fast-pulsing longitudinal relaxation optimized techniques: Enriching the toolbox of fast biomolecular NMR spectroscopy. <i>Progress in Nuclear Magnetic Resonance Spectroscopy</i>. 2009;55(3):238-265. doi:<a href=\"https://doi.org/10.1016/j.pnmrs.2009.05.002\">10.1016/j.pnmrs.2009.05.002</a>","mla":"Schanda, Paul. “Fast-Pulsing Longitudinal Relaxation Optimized Techniques: Enriching the Toolbox of Fast Biomolecular NMR Spectroscopy.” <i>Progress in Nuclear Magnetic Resonance Spectroscopy</i>, vol. 55, no. 3, Elsevier, 2009, pp. 238–65, doi:<a href=\"https://doi.org/10.1016/j.pnmrs.2009.05.002\">10.1016/j.pnmrs.2009.05.002</a>.","ieee":"P. Schanda, “Fast-pulsing longitudinal relaxation optimized techniques: Enriching the toolbox of fast biomolecular NMR spectroscopy,” <i>Progress in Nuclear Magnetic Resonance Spectroscopy</i>, vol. 55, no. 3. Elsevier, pp. 238–265, 2009.","short":"P. Schanda, Progress in Nuclear Magnetic Resonance Spectroscopy 55 (2009) 238–265.","ista":"Schanda P. 2009. Fast-pulsing longitudinal relaxation optimized techniques: Enriching the toolbox of fast biomolecular NMR spectroscopy. Progress in Nuclear Magnetic Resonance Spectroscopy. 55(3), 238–265."},"language":[{"iso":"eng"}],"extern":"1","_id":"8475","day":"01","publisher":"Elsevier","author":[{"last_name":"Schanda","full_name":"Schanda, Paul","first_name":"Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606"}],"article_processing_charge":"No","date_updated":"2021-01-12T08:19:32Z","date_published":"2009-10-01T00:00:00Z","issue":"3","year":"2009","status":"public","doi":"10.1016/j.pnmrs.2009.05.002","date_created":"2020-09-18T10:11:42Z","publication_status":"published","intvolume":"        55","oa_version":"None","type":"journal_article","quality_controlled":"1"},{"page":"8571-8577","publication":"Journal of the American Chemical Society","publication_identifier":{"issn":["0002-7863","1520-5126"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"06","volume":131,"title":"Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution","article_type":"original","_id":"8476","extern":"1","publisher":"American Chemical Society","day":"01","citation":{"short":"J. Farjon, J. Boisbouvier, P. Schanda, A. Pardi, J.-P. Simorre, B. Brutscher, Journal of the American Chemical Society 131 (2009) 8571–8577.","ieee":"J. Farjon, J. Boisbouvier, P. Schanda, A. Pardi, J.-P. Simorre, and B. Brutscher, “Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution,” <i>Journal of the American Chemical Society</i>, vol. 131, no. 24. American Chemical Society, pp. 8571–8577, 2009.","ista":"Farjon J, Boisbouvier J, Schanda P, Pardi A, Simorre J-P, Brutscher B. 2009. Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution. Journal of the American Chemical Society. 131(24), 8571–8577.","mla":"Farjon, Jonathan, et al. “Longitudinal-Relaxation-Enhanced NMR Experiments for the Study of Nucleic Acids in Solution.” <i>Journal of the American Chemical Society</i>, vol. 131, no. 24, American Chemical Society, 2009, pp. 8571–77, doi:<a href=\"https://doi.org/10.1021/ja901633y\">10.1021/ja901633y</a>.","ama":"Farjon J, Boisbouvier J, Schanda P, Pardi A, Simorre J-P, Brutscher B. Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution. <i>Journal of the American Chemical Society</i>. 2009;131(24):8571-8577. doi:<a href=\"https://doi.org/10.1021/ja901633y\">10.1021/ja901633y</a>","apa":"Farjon, J., Boisbouvier, J., Schanda, P., Pardi, A., Simorre, J.-P., &#38; Brutscher, B. (2009). Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/ja901633y\">https://doi.org/10.1021/ja901633y</a>","chicago":"Farjon, Jonathan, Jérôme Boisbouvier, Paul Schanda, Arthur Pardi, Jean-Pierre Simorre, and Bernhard Brutscher. “Longitudinal-Relaxation-Enhanced NMR Experiments for the Study of Nucleic Acids in Solution.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2009. <a href=\"https://doi.org/10.1021/ja901633y\">https://doi.org/10.1021/ja901633y</a>."},"language":[{"iso":"eng"}],"date_published":"2009-06-01T00:00:00Z","date_updated":"2021-01-12T08:19:32Z","year":"2009","issue":"24","author":[{"last_name":"Farjon","full_name":"Farjon, Jonathan","first_name":"Jonathan"},{"first_name":"Jérôme","last_name":"Boisbouvier","full_name":"Boisbouvier, Jérôme"},{"full_name":"Schanda, Paul","last_name":"Schanda","first_name":"Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"},{"first_name":"Arthur","full_name":"Pardi, Arthur","last_name":"Pardi"},{"first_name":"Jean-Pierre","full_name":"Simorre, Jean-Pierre","last_name":"Simorre"},{"first_name":"Bernhard","full_name":"Brutscher, Bernhard","last_name":"Brutscher"}],"article_processing_charge":"No","intvolume":"       131","abstract":[{"text":"Atomic-resolution information on the structure and dynamics of nucleic acids is essential for a better understanding of the mechanistic basis of many cellular processes. NMR spectroscopy is a powerful method for studying the structure and dynamics of nucleic acids; however, solution NMR studies are currently limited to relatively small nucleic acids at high concentrations. Thus, technological and methodological improvements that increase the experimental sensitivity and spectral resolution of NMR spectroscopy are required for studies of larger nucleic acids or protein−nucleic acid complexes. Here we introduce a series of imino-proton-detected NMR experiments that yield an over 2-fold increase in sensitivity compared to conventional pulse schemes. These methods can be applied to the detection of base pair interactions, RNA−ligand titration experiments, measurement of residual dipolar 15N−1H couplings, and direct measurements of conformational transitions. These NMR experiments employ longitudinal spin relaxation enhancement techniques that have proven useful in protein NMR spectroscopy. The performance of these new experiments is demonstrated for a 10 kDa TAR-TAR*GA RNA kissing complex and a 26 kDa tRNA.","lang":"eng"}],"date_created":"2020-09-18T10:11:49Z","publication_status":"published","doi":"10.1021/ja901633y","quality_controlled":"1","type":"journal_article","oa_version":"None","status":"public"},{"page":"3448-3449","publication":"Journal of the American Chemical Society","publication_identifier":{"issn":["0002-7863","1520-5126"]},"volume":131,"month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Fast two-dimensional NMR spectroscopy of high molecular weight protein assemblies","article_type":"original","_id":"8477","extern":"1","day":"25","publisher":"American Chemical Society","citation":{"mla":"Amero, Carlos, et al. “Fast Two-Dimensional NMR Spectroscopy of High Molecular Weight Protein Assemblies.” <i>Journal of the American Chemical Society</i>, vol. 131, no. 10, American Chemical Society, 2009, pp. 3448–49, doi:<a href=\"https://doi.org/10.1021/ja809880p\">10.1021/ja809880p</a>.","ieee":"C. Amero <i>et al.</i>, “Fast two-dimensional NMR spectroscopy of high molecular weight protein assemblies,” <i>Journal of the American Chemical Society</i>, vol. 131, no. 10. American Chemical Society, pp. 3448–3449, 2009.","ista":"Amero C, Schanda P, Durá MA, Ayala I, Marion D, Franzetti B, Brutscher B, Boisbouvier J. 2009. Fast two-dimensional NMR spectroscopy of high molecular weight protein assemblies. Journal of the American Chemical Society. 131(10), 3448–3449.","short":"C. Amero, P. Schanda, M.A. Durá, I. Ayala, D. Marion, B. Franzetti, B. Brutscher, J. Boisbouvier, Journal of the American Chemical Society 131 (2009) 3448–3449.","chicago":"Amero, Carlos, Paul Schanda, M. Asunción Durá, Isabel Ayala, Dominique Marion, Bruno Franzetti, Bernhard Brutscher, and Jérôme Boisbouvier. “Fast Two-Dimensional NMR Spectroscopy of High Molecular Weight Protein Assemblies.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2009. <a href=\"https://doi.org/10.1021/ja809880p\">https://doi.org/10.1021/ja809880p</a>.","apa":"Amero, C., Schanda, P., Durá, M. A., Ayala, I., Marion, D., Franzetti, B., … Boisbouvier, J. (2009). Fast two-dimensional NMR spectroscopy of high molecular weight protein assemblies. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/ja809880p\">https://doi.org/10.1021/ja809880p</a>","ama":"Amero C, Schanda P, Durá MA, et al. Fast two-dimensional NMR spectroscopy of high molecular weight protein assemblies. <i>Journal of the American Chemical Society</i>. 2009;131(10):3448-3449. doi:<a href=\"https://doi.org/10.1021/ja809880p\">10.1021/ja809880p</a>"},"language":[{"iso":"eng"}],"date_updated":"2021-01-12T08:19:32Z","date_published":"2009-02-25T00:00:00Z","issue":"10","year":"2009","author":[{"first_name":"Carlos","full_name":"Amero, Carlos","last_name":"Amero"},{"orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","first_name":"Paul","full_name":"Schanda, Paul","last_name":"Schanda"},{"full_name":"Durá, M. Asunción","last_name":"Durá","first_name":"M. Asunción"},{"full_name":"Ayala, Isabel","last_name":"Ayala","first_name":"Isabel"},{"last_name":"Marion","full_name":"Marion, Dominique","first_name":"Dominique"},{"last_name":"Franzetti","full_name":"Franzetti, Bruno","first_name":"Bruno"},{"last_name":"Brutscher","full_name":"Brutscher, Bernhard","first_name":"Bernhard"},{"first_name":"Jérôme","full_name":"Boisbouvier, Jérôme","last_name":"Boisbouvier"}],"article_processing_charge":"No","doi":"10.1021/ja809880p","abstract":[{"text":"An optimized NMR experiment that combines the advantages of methyl-TROSY and SOFAST-HMQC has been developed. It allows the recording of high quality methyl 1H−13C correlation spectra of protein assemblies of several hundreds of kDa in a few seconds. The SOFAST-methyl-TROSY-based experiment offers completely new opportunities for the study of structural and dynamic changes occurring in molecular nanomachines while they perform their biological function in vitro.","lang":"eng"}],"publication_status":"published","date_created":"2020-09-18T10:12:01Z","intvolume":"       131","oa_version":"None","quality_controlled":"1","type":"journal_article","status":"public"},{"author":[{"full_name":"Brüschweiler, Sven","last_name":"Brüschweiler","first_name":"Sven"},{"first_name":"Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","full_name":"Schanda, Paul"},{"first_name":"Karin","last_name":"Kloiber","full_name":"Kloiber, Karin"},{"first_name":"Bernhard","last_name":"Brutscher","full_name":"Brutscher, Bernhard"},{"full_name":"Kontaxis, Georg","last_name":"Kontaxis","first_name":"Georg"},{"first_name":"Robert","full_name":"Konrat, Robert","last_name":"Konrat"},{"first_name":"Martin","last_name":"Tollinger","full_name":"Tollinger, Martin"}],"article_processing_charge":"No","date_published":"2009-02-09T00:00:00Z","date_updated":"2021-01-12T08:19:33Z","year":"2009","issue":"8","status":"public","publication_status":"published","abstract":[{"lang":"eng","text":"Allosteric regulation is an effective mechanism of control in biological processes. In allosteric proteins a signal originating at one site in the molecule is communicated through the protein structure to trigger a specific response at a remote site. Using NMR relaxation dispersion techniques we directly observe the dynamic process through which the KIX domain of CREB binding protein communicates allosteric information between binding sites. KIX mediates cooperativity between pairs of transcription factors through binding to two distinct interaction surfaces in an allosteric manner. We show that binding the activation domain of the mixed lineage leukemia (MLL) transcription factor to KIX induces a redistribution of the relative populations of KIX conformations toward a high-energy state in which the allosterically activated second binding site is already preformed, consistent with the Monod−Wyman−Changeux (WMC) model of allostery. The structural rearrangement process that links the two conformers and by which allosteric information is communicated occurs with a time constant of 3 ms at 27 °C. Our dynamic NMR data reveal that an evolutionarily conserved network of hydrophobic amino acids constitutes the pathway through which information is transmitted."}],"intvolume":"       131","date_created":"2020-09-18T10:12:14Z","doi":"10.1021/ja809947w","quality_controlled":"1","type":"journal_article","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"02","volume":131,"title":"Direct observation of the dynamic process underlying allosteric signal transmission","article_type":"original","publication":"Journal of the American Chemical Society","page":"3063-3068","publication_identifier":{"issn":["0002-7863","1520-5126"]},"citation":{"apa":"Brüschweiler, S., Schanda, P., Kloiber, K., Brutscher, B., Kontaxis, G., Konrat, R., &#38; Tollinger, M. (2009). Direct observation of the dynamic process underlying allosteric signal transmission. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/ja809947w\">https://doi.org/10.1021/ja809947w</a>","chicago":"Brüschweiler, Sven, Paul Schanda, Karin Kloiber, Bernhard Brutscher, Georg Kontaxis, Robert Konrat, and Martin Tollinger. “Direct Observation of the Dynamic Process Underlying Allosteric Signal Transmission.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2009. <a href=\"https://doi.org/10.1021/ja809947w\">https://doi.org/10.1021/ja809947w</a>.","ama":"Brüschweiler S, Schanda P, Kloiber K, et al. Direct observation of the dynamic process underlying allosteric signal transmission. <i>Journal of the American Chemical Society</i>. 2009;131(8):3063-3068. doi:<a href=\"https://doi.org/10.1021/ja809947w\">10.1021/ja809947w</a>","ista":"Brüschweiler S, Schanda P, Kloiber K, Brutscher B, Kontaxis G, Konrat R, Tollinger M. 2009. Direct observation of the dynamic process underlying allosteric signal transmission. Journal of the American Chemical Society. 131(8), 3063–3068.","ieee":"S. Brüschweiler <i>et al.</i>, “Direct observation of the dynamic process underlying allosteric signal transmission,” <i>Journal of the American Chemical Society</i>, vol. 131, no. 8. American Chemical Society, pp. 3063–3068, 2009.","short":"S. Brüschweiler, P. Schanda, K. Kloiber, B. Brutscher, G. Kontaxis, R. Konrat, M. Tollinger, Journal of the American Chemical Society 131 (2009) 3063–3068.","mla":"Brüschweiler, Sven, et al. “Direct Observation of the Dynamic Process Underlying Allosteric Signal Transmission.” <i>Journal of the American Chemical Society</i>, vol. 131, no. 8, American Chemical Society, 2009, pp. 3063–68, doi:<a href=\"https://doi.org/10.1021/ja809947w\">10.1021/ja809947w</a>."},"language":[{"iso":"eng"}],"extern":"1","_id":"8478","publisher":"American Chemical Society","day":"09"},{"year":"2009","date_published":"2009-01-01T00:00:00Z","date_updated":"2021-01-12T08:19:33Z","author":[{"full_name":"Gal, Maayan","last_name":"Gal","first_name":"Maayan"},{"first_name":"Thomas","last_name":"Kern","full_name":"Kern, Thomas"},{"first_name":"Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","last_name":"Schanda"},{"full_name":"Frydman, Lucio","last_name":"Frydman","first_name":"Lucio"},{"full_name":"Brutscher, Bernhard","last_name":"Brutscher","first_name":"Bernhard"}],"article_processing_charge":"No","type":"journal_article","quality_controlled":"1","oa_version":"None","abstract":[{"lang":"eng","text":"Multidimensional NMR spectroscopy is a well-established technique for the characterization of structure and fast-time-scale dynamics of highly populated ground states of biological macromolecules. The investigation of short-lived excited states that are important for molecular folding, misfolding and function, however, remains a challenge for modern biomolecular NMR techniques. Off-equilibrium real-time kinetic NMR methods allow direct observation of conformational or chemical changes by following peak positions and intensities in a series of spectra recorded during a kinetic event. Because standard multidimensional NMR methods required to yield sufficient atom-resolution are intrinsically time-consuming, many interesting phenomena are excluded from real-time NMR analysis. Recently, spatially encoded ultrafast 2D NMR techniques have been proposed that allow one to acquire a 2D NMR experiment within a single transient. In addition, when combined with the SOFAST technique, such ultrafast experiments can be repeated at high rates. One of the problems detected for such ultrafast protein NMR experiments is related to the heteronuclear decoupling during detection with interferences between the pulses and the oscillatory magnetic field gradients arising in this scheme. Here we present a method for improved ultrafast data acquisition yielding higher signal to noise and sharper lines in single-scan 2D NMR spectra. In combination with a fast-mixing device, the recording of 1H–15N correlation spectra with repetition rates of up to a few Hertz becomes feasible, enabling real-time studies of protein kinetics occurring on time scales down to a few seconds."}],"publication_status":"published","intvolume":"        43","date_created":"2020-09-18T10:12:20Z","doi":"10.1007/s10858-008-9284-9","status":"public","publication_identifier":{"issn":["0925-2738","1573-5001"]},"page":"1-10","publication":"Journal of Biomolecular NMR","keyword":["Spectroscopy","Biochemistry"],"article_type":"original","title":"An improved ultrafast 2D NMR experiment: Towards atom-resolved real-time studies of protein kinetics at multi-Hz rates","month":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":43,"publisher":"Springer Nature","day":"01","_id":"8479","extern":"1","language":[{"iso":"eng"}],"citation":{"ama":"Gal M, Kern T, Schanda P, Frydman L, Brutscher B. An improved ultrafast 2D NMR experiment: Towards atom-resolved real-time studies of protein kinetics at multi-Hz rates. <i>Journal of Biomolecular NMR</i>. 2009;43:1-10. doi:<a href=\"https://doi.org/10.1007/s10858-008-9284-9\">10.1007/s10858-008-9284-9</a>","apa":"Gal, M., Kern, T., Schanda, P., Frydman, L., &#38; Brutscher, B. (2009). An improved ultrafast 2D NMR experiment: Towards atom-resolved real-time studies of protein kinetics at multi-Hz rates. <i>Journal of Biomolecular NMR</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10858-008-9284-9\">https://doi.org/10.1007/s10858-008-9284-9</a>","chicago":"Gal, Maayan, Thomas Kern, Paul Schanda, Lucio Frydman, and Bernhard Brutscher. “An Improved Ultrafast 2D NMR Experiment: Towards Atom-Resolved Real-Time Studies of Protein Kinetics at Multi-Hz Rates.” <i>Journal of Biomolecular NMR</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1007/s10858-008-9284-9\">https://doi.org/10.1007/s10858-008-9284-9</a>.","ieee":"M. Gal, T. Kern, P. Schanda, L. Frydman, and B. Brutscher, “An improved ultrafast 2D NMR experiment: Towards atom-resolved real-time studies of protein kinetics at multi-Hz rates,” <i>Journal of Biomolecular NMR</i>, vol. 43. Springer Nature, pp. 1–10, 2009.","short":"M. Gal, T. Kern, P. Schanda, L. Frydman, B. Brutscher, Journal of Biomolecular NMR 43 (2009) 1–10.","ista":"Gal M, Kern T, Schanda P, Frydman L, Brutscher B. 2009. An improved ultrafast 2D NMR experiment: Towards atom-resolved real-time studies of protein kinetics at multi-Hz rates. Journal of Biomolecular NMR. 43, 1–10.","mla":"Gal, Maayan, et al. “An Improved Ultrafast 2D NMR Experiment: Towards Atom-Resolved Real-Time Studies of Protein Kinetics at Multi-Hz Rates.” <i>Journal of Biomolecular NMR</i>, vol. 43, Springer Nature, 2009, pp. 1–10, doi:<a href=\"https://doi.org/10.1007/s10858-008-9284-9\">10.1007/s10858-008-9284-9</a>."}},{"status":"public","doi":"10.1134/s0081543809040063","publication_status":"published","date_created":"2020-09-18T10:48:03Z","abstract":[{"lang":"eng","text":"We study generic unfoldings of homoclinic tangencies of two-dimensional area-preserving diffeomorphisms (conservative New house phenomena) and show that they give rise to invariant hyperbolic sets of arbitrarily large Hausdorff dimension. As applications, we discuss the size of the stochastic layer of a standard map and the Hausdorff dimension of invariant hyperbolic sets for certain restricted three-body problems. We avoid involved technical details and only concentrate on the ideas of the proof of the presented results."}],"intvolume":"       267","oa_version":"None","type":"journal_article","quality_controlled":"1","article_processing_charge":"No","author":[{"first_name":"Anton","last_name":"Gorodetski","full_name":"Gorodetski, Anton"},{"first_name":"Vadim","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","orcid":"0000-0002-6051-2628","last_name":"Kaloshin","full_name":"Kaloshin, Vadim"}],"date_updated":"2021-01-12T08:19:46Z","date_published":"2009-12-01T00:00:00Z","issue":"1","year":"2009","citation":{"mla":"Gorodetski, Anton, and Vadim Kaloshin. “Conservative Homoclinic Bifurcations and Some Applications.” <i>Proceedings of the Steklov Institute of Mathematics</i>, vol. 267, no. 1, Springer Nature, 2009, pp. 76–90, doi:<a href=\"https://doi.org/10.1134/s0081543809040063\">10.1134/s0081543809040063</a>.","ieee":"A. Gorodetski and V. Kaloshin, “Conservative homoclinic bifurcations and some applications,” <i>Proceedings of the Steklov Institute of Mathematics</i>, vol. 267, no. 1. Springer Nature, pp. 76–90, 2009.","ista":"Gorodetski A, Kaloshin V. 2009. Conservative homoclinic bifurcations and some applications. Proceedings of the Steklov Institute of Mathematics. 267(1), 76–90.","short":"A. Gorodetski, V. Kaloshin, Proceedings of the Steklov Institute of Mathematics 267 (2009) 76–90.","ama":"Gorodetski A, Kaloshin V. Conservative homoclinic bifurcations and some applications. <i>Proceedings of the Steklov Institute of Mathematics</i>. 2009;267(1):76-90. doi:<a href=\"https://doi.org/10.1134/s0081543809040063\">10.1134/s0081543809040063</a>","chicago":"Gorodetski, Anton, and Vadim Kaloshin. “Conservative Homoclinic Bifurcations and Some Applications.” <i>Proceedings of the Steklov Institute of Mathematics</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1134/s0081543809040063\">https://doi.org/10.1134/s0081543809040063</a>.","apa":"Gorodetski, A., &#38; Kaloshin, V. (2009). Conservative homoclinic bifurcations and some applications. <i>Proceedings of the Steklov Institute of Mathematics</i>. Springer Nature. <a href=\"https://doi.org/10.1134/s0081543809040063\">https://doi.org/10.1134/s0081543809040063</a>"},"language":[{"iso":"eng"}],"_id":"8508","extern":"1","day":"01","publisher":"Springer Nature","volume":267,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"12","title":"Conservative homoclinic bifurcations and some applications","article_type":"original","publication":"Proceedings of the Steklov Institute of Mathematics","keyword":["Mathematics (miscellaneous)"],"page":"76-90","publication_identifier":{"issn":["0081-5438","1531-8605"]}},{"publisher":"American Institute of Physics","day":"25","_id":"88","pmid":1,"publication":"Review of Scientific Instruments","title":"Generation of Mie size microdroplet aerosols with applications in laser-driven fusion experiments","volume":80,"publist_id":"7966","quality_controlled":"1","abstract":[{"lang":"eng","text":"We have developed a tunable source of Mie scale microdroplet aerosols that can be used for the generation of energetic ions. To demonstrate this potential, a terawatt Ti: Al2 O3 laser focused to 2×10 19 W/cm2 was used to irradiate heavy water (D2 O) aerosols composed of micron-scale droplets. Energetic deuterium ions, which were generated in the laser-droplet interaction, produced deuterium-deuterium fusion with approximately 2×10^3 fusion neutrons measured per joule of incident laser energy. "}],"intvolume":"        80","date_created":"2018-12-11T11:44:34Z","main_file_link":[{"open_access":"1","url":"https://www.osti.gov/biblio/22053583"}],"year":"2009","issue":"6","date_published":"2009-06-25T00:00:00Z","oa":1,"extern":"1","language":[{"iso":"eng"}],"citation":{"ama":"Higginbotham AP, Semonin O, Bruce S, et al. Generation of Mie size microdroplet aerosols with applications in laser-driven fusion experiments. <i>Review of Scientific Instruments</i>. 2009;80(6). doi:<a href=\"https://doi.org/10.1063/1.3155302\">10.1063/1.3155302</a>","chicago":"Higginbotham, Andrew P, Octavi Semonin, S Bruce, C Chan, M Maindi, Tom Donnelly, M Maurer, et al. “Generation of Mie Size Microdroplet Aerosols with Applications in Laser-Driven Fusion Experiments.” <i>Review of Scientific Instruments</i>. American Institute of Physics, 2009. <a href=\"https://doi.org/10.1063/1.3155302\">https://doi.org/10.1063/1.3155302</a>.","apa":"Higginbotham, A. P., Semonin, O., Bruce, S., Chan, C., Maindi, M., Donnelly, T., … Ditmire, T. (2009). Generation of Mie size microdroplet aerosols with applications in laser-driven fusion experiments. <i>Review of Scientific Instruments</i>. American Institute of Physics. <a href=\"https://doi.org/10.1063/1.3155302\">https://doi.org/10.1063/1.3155302</a>","mla":"Higginbotham, Andrew P., et al. “Generation of Mie Size Microdroplet Aerosols with Applications in Laser-Driven Fusion Experiments.” <i>Review of Scientific Instruments</i>, vol. 80, no. 6, 063503, American Institute of Physics, 2009, doi:<a href=\"https://doi.org/10.1063/1.3155302\">10.1063/1.3155302</a>.","short":"A.P. Higginbotham, O. Semonin, S. Bruce, C. Chan, M. Maindi, T. Donnelly, M. Maurer, W. Bang, I.. Churina, J. Osterholz, I. Kim, A. Bernstein, T. Ditmire, Review of Scientific Instruments 80 (2009).","ieee":"A. P. Higginbotham <i>et al.</i>, “Generation of Mie size microdroplet aerosols with applications in laser-driven fusion experiments,” <i>Review of Scientific Instruments</i>, vol. 80, no. 6. American Institute of Physics, 2009.","ista":"Higginbotham AP, Semonin O, Bruce S, Chan C, Maindi M, Donnelly T, Maurer M, Bang W, Churina I., Osterholz J, Kim I, Bernstein A, Ditmire T. 2009. Generation of Mie size microdroplet aerosols with applications in laser-driven fusion experiments. Review of Scientific Instruments. 80(6), 063503."},"article_number":"063503","acknowledgement":"This work was supported by the National Science Foundation under Grant Nos. PHY-0456898, PHY-0757989, and PHY-0456870 and the National Nuclear Security Administration under Cooperative Agreement No. DE-FC52-03NA00156. Acknowledgment is made to the Donors of the Petroleum Research Fund administered by the American Chemical Society for partial support of this research.","external_id":{"pmid":["    19566203"]},"month":"06","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","type":"journal_article","oa_version":"Submitted Version","publication_status":"published","doi":"10.1063/1.3155302","status":"public","date_updated":"2021-01-12T08:21:06Z","author":[{"first_name":"Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2607-2363","last_name":"Higginbotham","full_name":"Higginbotham, Andrew P"},{"full_name":"Semonin, Octavi","last_name":"Semonin","first_name":"Octavi"},{"full_name":"Bruce, S","last_name":"Bruce","first_name":"S"},{"full_name":"Chan, C","last_name":"Chan","first_name":"C"},{"full_name":"Maindi, M","last_name":"Maindi","first_name":"M"},{"first_name":"Tom","last_name":"Donnelly","full_name":"Donnelly, Tom"},{"full_name":"Maurer, M","last_name":"Maurer","first_name":"M"},{"last_name":"Bang","full_name":"Bang, Woosuk","first_name":"Woosuk"},{"full_name":"Churina, I.V","last_name":"Churina","first_name":"I.V"},{"first_name":"Jens","full_name":"Osterholz, Jens","last_name":"Osterholz"},{"first_name":"I","last_name":"Kim","full_name":"Kim, I"},{"last_name":"Bernstein","full_name":"Bernstein, Aaron","first_name":"Aaron"},{"full_name":"Ditmire, Todd","last_name":"Ditmire","first_name":"Todd"}]},{"_id":"908","extern":1,"day":"03","publisher":"Elsevier","citation":{"short":"E. Alkalaeva, B. Eliseev, A. Ambrogelly, P. Vlasov, F. Kondrashov, S. Gundllapalli, L. Frolova, D. Söll, L. Kisselev, FEBS Letters 583 (2009) 3455–3460.","ista":"Alkalaeva E, Eliseev B, Ambrogelly A, Vlasov P, Kondrashov F, Gundllapalli S, Frolova L, Söll D, Kisselev L. 2009. Translation termination in pyrrolysine-utilizing archaea. FEBS Letters. 583(21), 3455–3460.","ieee":"E. Alkalaeva <i>et al.</i>, “Translation termination in pyrrolysine-utilizing archaea,” <i>FEBS Letters</i>, vol. 583, no. 21. Elsevier, pp. 3455–3460, 2009.","mla":"Alkalaeva, Elena, et al. “Translation Termination in Pyrrolysine-Utilizing Archaea.” <i>FEBS Letters</i>, vol. 583, no. 21, Elsevier, 2009, pp. 3455–60, doi:<a href=\"https://doi.org/10.1016/j.febslet.2009.09.044\">10.1016/j.febslet.2009.09.044</a>.","ama":"Alkalaeva E, Eliseev B, Ambrogelly A, et al. Translation termination in pyrrolysine-utilizing archaea. <i>FEBS Letters</i>. 2009;583(21):3455-3460. doi:<a href=\"https://doi.org/10.1016/j.febslet.2009.09.044\">10.1016/j.febslet.2009.09.044</a>","apa":"Alkalaeva, E., Eliseev, B., Ambrogelly, A., Vlasov, P., Kondrashov, F., Gundllapalli, S., … Kisselev, L. (2009). Translation termination in pyrrolysine-utilizing archaea. <i>FEBS Letters</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.febslet.2009.09.044\">https://doi.org/10.1016/j.febslet.2009.09.044</a>","chicago":"Alkalaeva, Elena, Boris Eliseev, Alexandre Ambrogelly, Peter Vlasov, Fyodor Kondrashov, Sarath Gundllapalli, Ludmila Frolova, Dieter Söll, and Lev Kisselev. “Translation Termination in Pyrrolysine-Utilizing Archaea.” <i>FEBS Letters</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.febslet.2009.09.044\">https://doi.org/10.1016/j.febslet.2009.09.044</a>."},"acknowledgement":"We are grateful to Andrey Poltaraus and his colleagues for sequencing a/eRF1 genes. We thank Tatyana Pestova and Chris Hellen for the gift of plasmids encoding initiation factors eIF1, eIF1A, eIF4A, eIF4B, eIF4G, eIF5, eIF5B, and Anna Yaremchuk and Michael Tukalo for M. jannaschii aRF1. This work was supported by grants from the Presidium of the (Program Molecular and Cell Biology), the Russian Foundation for Basic Research (08-04-01091-а to E.A. and 08-04-00375a to L.F.), the National Institute for General Medical Sciences (to D.S.), the National Science Foundation (to D.S.) and the Office of Basic Energy Sciences, DOE (to D.S.).","page":"3455 - 3460","publication":"FEBS Letters","volume":583,"publist_id":"6740","month":"11","title":"Translation termination in pyrrolysine-utilizing archaea","doi":"10.1016/j.febslet.2009.09.044","date_created":"2018-12-11T11:49:08Z","abstract":[{"lang":"eng","text":"Although some data link archaeal and eukaryotic translation, the overall mechanism of protein synthesis in archaea remains largely obscure. Both archaeal (aRF1) and eukaryotic (eRF1) single release factors recognize all three stop codons. The archaeal genus Methanosarcinaceae contains two aRF1 homologs, and also uses the UAG stop to encode the 22nd amino acid, pyrrolysine. Here we provide an analysis of the last stage of archaeal translation in pyrrolysine-utilizing species. We demonstrated that only one of two Methanosarcina barkeri aRF1 homologs possesses activity and recognizes all three stop codons. The second aRF1 homolog may have another unknown function. The mechanism of pyrrolysine incorporation in the Methanosarcinaceae is discussed."}],"publication_status":"published","intvolume":"       583","type":"journal_article","quality_controlled":0,"status":"public","date_updated":"2021-01-12T08:21:49Z","date_published":"2009-11-03T00:00:00Z","issue":"21","year":"2009","author":[{"full_name":"Alkalaeva, Elena Z","last_name":"Alkalaeva","first_name":"Elena"},{"last_name":"Eliseev","full_name":"Eliseev, Boris D","first_name":"Boris"},{"last_name":"Ambrogelly","full_name":"Ambrogelly, Alexandre","first_name":"Alexandre"},{"last_name":"Vlasov","full_name":"Vlasov, Peter K","first_name":"Peter"},{"first_name":"Fyodor","orcid":"0000-0001-8243-4694","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","last_name":"Kondrashov","full_name":"Fyodor Kondrashov"},{"last_name":"Gundllapalli","full_name":"Gundllapalli, Sarath B","first_name":"Sarath"},{"last_name":"Frolova","full_name":"Frolova, Ludmila Y","first_name":"Ludmila"},{"first_name":"Dieter","last_name":"Söll","full_name":"Söll, Dieter G"},{"full_name":"Kisselev, Lev L","last_name":"Kisselev","first_name":"Lev"}]},{"_id":"9147","publisher":"American Meteorological Society","day":"01","publication":"Journal of Physical Oceanography","keyword":["Oceanography"],"volume":39,"article_type":"original","title":"Saturation of the internal tides and induced mixing in the abyssal ocean","date_created":"2021-02-15T14:41:08Z","intvolume":"        39","abstract":[{"lang":"eng","text":"As part of an ongoing effort to develop a parameterization of wave-induced abyssal mixing, the authors derive an heuristic model for nonlinear wave breaking and energy dissipation associated with internal tides. Then the saturation and dissipation of internal tides for idealized and observed topography samples are investigated. One of the main results is that the wave-induced mixing could be more intense and more confined to the bottom than previously assumed in numerical models. Furthermore, in this model wave breaking and mixing clearly depend on the small scales of the topography below 10 km or so, which is below the current resolution of global bathymetry. This motivates the use of a statistical approach to represent the unresolved topography when addressing the role of internal tides in mixing the deep ocean."}],"main_file_link":[{"url":"https://doi.org/10.1175/2009JPO4141.1","open_access":"1"}],"quality_controlled":"1","date_published":"2009-09-01T00:00:00Z","year":"2009","issue":"9","oa":1,"extern":"1","citation":{"apa":"Muller, C. J., &#38; Bühler, O. (2009). Saturation of the internal tides and induced mixing in the abyssal ocean. <i>Journal of Physical Oceanography</i>. American Meteorological Society. <a href=\"https://doi.org/10.1175/2009jpo4141.1\">https://doi.org/10.1175/2009jpo4141.1</a>","chicago":"Muller, Caroline J, and Oliver Bühler. “Saturation of the Internal Tides and Induced Mixing in the Abyssal Ocean.” <i>Journal of Physical Oceanography</i>. American Meteorological Society, 2009. <a href=\"https://doi.org/10.1175/2009jpo4141.1\">https://doi.org/10.1175/2009jpo4141.1</a>.","ama":"Muller CJ, Bühler O. Saturation of the internal tides and induced mixing in the abyssal ocean. <i>Journal of Physical Oceanography</i>. 2009;39(9):2077-2096. doi:<a href=\"https://doi.org/10.1175/2009jpo4141.1\">10.1175/2009jpo4141.1</a>","short":"C.J. Muller, O. Bühler, Journal of Physical Oceanography 39 (2009) 2077–2096.","ista":"Muller CJ, Bühler O. 2009. Saturation of the internal tides and induced mixing in the abyssal ocean. Journal of Physical Oceanography. 39(9), 2077–2096.","ieee":"C. J. Muller and O. Bühler, “Saturation of the internal tides and induced mixing in the abyssal ocean,” <i>Journal of Physical Oceanography</i>, vol. 39, no. 9. American Meteorological Society, pp. 2077–2096, 2009.","mla":"Muller, Caroline J., and Oliver Bühler. “Saturation of the Internal Tides and Induced Mixing in the Abyssal Ocean.” <i>Journal of Physical Oceanography</i>, vol. 39, no. 9, American Meteorological Society, 2009, pp. 2077–96, doi:<a href=\"https://doi.org/10.1175/2009jpo4141.1\">10.1175/2009jpo4141.1</a>."},"language":[{"iso":"eng"}],"page":"2077-2096","publication_identifier":{"issn":["1520-0485","0022-3670"]},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","month":"09","publication_status":"published","doi":"10.1175/2009jpo4141.1","type":"journal_article","oa_version":"Published Version","status":"public","date_updated":"2022-01-24T13:50:37Z","article_processing_charge":"No","author":[{"first_name":"Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","orcid":"0000-0001-5836-5350","full_name":"Muller, Caroline J","last_name":"Muller"},{"first_name":"Oliver","full_name":"Bühler, Oliver","last_name":"Bühler"}]},{"extern":"1","language":[{"iso":"eng"}],"article_number":"L16804","citation":{"ama":"Muller CJ, Back LE, O’Gorman PA, Emanuel KA. A model for the relationship between tropical precipitation and column water vapor. <i>Geophysical Research Letters</i>. 2009;36(16). doi:<a href=\"https://doi.org/10.1029/2009gl039667\">10.1029/2009gl039667</a>","chicago":"Muller, Caroline J, Larissa E. Back, Paul A. O’Gorman, and Kerry A. Emanuel. “A Model for the Relationship between Tropical Precipitation and Column Water Vapor.” <i>Geophysical Research Letters</i>. American Geophysical Union, 2009. <a href=\"https://doi.org/10.1029/2009gl039667\">https://doi.org/10.1029/2009gl039667</a>.","apa":"Muller, C. J., Back, L. E., O’Gorman, P. A., &#38; Emanuel, K. A. (2009). A model for the relationship between tropical precipitation and column water vapor. <i>Geophysical Research Letters</i>. American Geophysical Union. <a href=\"https://doi.org/10.1029/2009gl039667\">https://doi.org/10.1029/2009gl039667</a>","mla":"Muller, Caroline J., et al. “A Model for the Relationship between Tropical Precipitation and Column Water Vapor.” <i>Geophysical Research Letters</i>, vol. 36, no. 16, L16804, American Geophysical Union, 2009, doi:<a href=\"https://doi.org/10.1029/2009gl039667\">10.1029/2009gl039667</a>.","ieee":"C. J. Muller, L. E. Back, P. A. O’Gorman, and K. A. Emanuel, “A model for the relationship between tropical precipitation and column water vapor,” <i>Geophysical Research Letters</i>, vol. 36, no. 16. American Geophysical Union, 2009.","ista":"Muller CJ, Back LE, O’Gorman PA, Emanuel KA. 2009. A model for the relationship between tropical precipitation and column water vapor. Geophysical Research Letters. 36(16), L16804.","short":"C.J. Muller, L.E. Back, P.A. O’Gorman, K.A. Emanuel, Geophysical Research Letters 36 (2009)."},"publication_identifier":{"issn":["0094-8276"]},"month":"08","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","type":"journal_article","doi":"10.1029/2009gl039667","publication_status":"published","status":"public","date_updated":"2022-01-24T13:50:15Z","article_processing_charge":"No","author":[{"orcid":"0000-0001-5836-5350","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","full_name":"Muller, Caroline J","last_name":"Muller"},{"first_name":"Larissa E.","last_name":"Back","full_name":"Back, Larissa E."},{"full_name":"O'Gorman, Paul A.","last_name":"O'Gorman","first_name":"Paul A."},{"first_name":"Kerry A.","last_name":"Emanuel","full_name":"Emanuel, Kerry A."}],"day":"25","publisher":"American Geophysical Union","_id":"9148","keyword":["General Earth and Planetary Sciences","Geophysics"],"publication":"Geophysical Research Letters","title":"A model for the relationship between tropical precipitation and column water vapor","article_type":"original","volume":36,"quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1029/2009GL039667","open_access":"1"}],"abstract":[{"lang":"eng","text":"Several observational studies have shown a tight relationship between tropical precipitation and column‐integrated water vapor. We show that the observed relationship in the tropics between column‐integrated water vapor, precipitation, and its variance can be qualitatively reproduced by a simple and physically motivated two‐layer model. It has previously been argued that features of this relationship could be explained by analogy with the theory of continuous phase transitions. Instead, our model explicitly assumes that the onset of precipitation is governed by a stability threshold involving boundary‐layer water vapor. This allows us to explain the precipitation‐humidity relationship over a broader range of water vapor values, and may explain the observed temperature dependence of the relationship."}],"date_created":"2021-02-15T14:41:28Z","intvolume":"        36","issue":"16","year":"2009","date_published":"2009-08-25T00:00:00Z","oa":1},{"keyword":["Multidisciplinary"],"publication":"Science","volume":324,"title":"Genome-wide demethylation of Arabidopsis endosperm","article_type":"original","_id":"9453","day":"12","publisher":"American Association for the Advancement of Science","pmid":1,"date_published":"2009-06-12T00:00:00Z","issue":"5933","year":"2009","oa":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4044190/"}],"intvolume":"       324","abstract":[{"text":"Parent-of-origin-specific (imprinted) gene expression is regulated in Arabidopsis thaliana endosperm by cytosine demethylation of the maternal genome mediated by the DNA glycosylase DEMETER, but the extent of the methylation changes is not known. Here, we show that virtually the entire endosperm genome is demethylated, coupled with extensive local non-CG hypermethylation of small interfering RNA–targeted sequences. Mutation of DEMETER partially restores endosperm CG methylation to levels found in other tissues, indicating that CG demethylation is specific to maternal sequences. Endosperm demethylation is accompanied by CHH hypermethylation of embryo transposable elements. Our findings demonstrate extensive reconfiguration of the endosperm methylation landscape that likely reinforces transposon silencing in the embryo.","lang":"eng"}],"date_created":"2021-06-04T08:55:41Z","quality_controlled":"1","external_id":{"pmid":["19520962"]},"page":"1451-1454","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"month":"06","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","scopus_import":"1","extern":"1","citation":{"chicago":"Hsieh, Tzung-Fu, Christian A. Ibarra, Pedro Silva, Assaf Zemach, Leor Eshed-Williams, Robert L. Fischer, and Daniel Zilberman. “Genome-Wide Demethylation of Arabidopsis Endosperm.” <i>Science</i>. American Association for the Advancement of Science, 2009. <a href=\"https://doi.org/10.1126/science.1172417\">https://doi.org/10.1126/science.1172417</a>.","apa":"Hsieh, T.-F., Ibarra, C. A., Silva, P., Zemach, A., Eshed-Williams, L., Fischer, R. L., &#38; Zilberman, D. (2009). Genome-wide demethylation of Arabidopsis endosperm. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1172417\">https://doi.org/10.1126/science.1172417</a>","ama":"Hsieh T-F, Ibarra CA, Silva P, et al. Genome-wide demethylation of Arabidopsis endosperm. <i>Science</i>. 2009;324(5933):1451-1454. doi:<a href=\"https://doi.org/10.1126/science.1172417\">10.1126/science.1172417</a>","mla":"Hsieh, Tzung-Fu, et al. “Genome-Wide Demethylation of Arabidopsis Endosperm.” <i>Science</i>, vol. 324, no. 5933, American Association for the Advancement of Science, 2009, pp. 1451–54, doi:<a href=\"https://doi.org/10.1126/science.1172417\">10.1126/science.1172417</a>.","short":"T.-F. Hsieh, C.A. Ibarra, P. Silva, A. Zemach, L. Eshed-Williams, R.L. Fischer, D. Zilberman, Science 324 (2009) 1451–1454.","ista":"Hsieh T-F, Ibarra CA, Silva P, Zemach A, Eshed-Williams L, Fischer RL, Zilberman D. 2009. Genome-wide demethylation of Arabidopsis endosperm. Science. 324(5933), 1451–1454.","ieee":"T.-F. Hsieh <i>et al.</i>, “Genome-wide demethylation of Arabidopsis endosperm,” <i>Science</i>, vol. 324, no. 5933. American Association for the Advancement of Science, pp. 1451–1454, 2009."},"language":[{"iso":"eng"}],"date_updated":"2021-12-14T08:53:26Z","department":[{"_id":"DaZi"}],"article_processing_charge":"No","author":[{"first_name":"Tzung-Fu","last_name":"Hsieh","full_name":"Hsieh, Tzung-Fu"},{"last_name":"Ibarra","full_name":"Ibarra, Christian A.","first_name":"Christian A."},{"full_name":"Silva, Pedro","last_name":"Silva","first_name":"Pedro"},{"first_name":"Assaf","full_name":"Zemach, Assaf","last_name":"Zemach"},{"full_name":"Eshed-Williams, Leor","last_name":"Eshed-Williams","first_name":"Leor"},{"last_name":"Fischer","full_name":"Fischer, Robert L.","first_name":"Robert L."},{"first_name":"Daniel","orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","full_name":"Zilberman, Daniel","last_name":"Zilberman"}],"doi":"10.1126/science.1172417","publication_status":"published","oa_version":"Submitted Version","type":"journal_article","status":"public"},{"page":"140 - 145","month":"01","volume":1134,"publist_id":"6435","conference":{"name":"Landau Memorial Conference on Advances in Theoretical Physics"},"title":"Giant nernst effect due to fluctuating cooper Pairs in superconductors","extern":1,"_id":"964","publisher":"American Institute of Physics","day":"01","citation":{"chicago":"Serbyn, Maksym, Mikhail Skvortsov, Andrei Varlamov, and Victor Galitski. “Giant Nernst Effect Due to Fluctuating Cooper Pairs in Superconductors,” 1134:140–45. American Institute of Physics, 2009. <a href=\"https://doi.org/10.1063/1.3149485\">https://doi.org/10.1063/1.3149485</a>.","apa":"Serbyn, M., Skvortsov, M., Varlamov, A., &#38; Galitski, V. (2009). Giant nernst effect due to fluctuating cooper Pairs in superconductors (Vol. 1134, pp. 140–145). Presented at the Landau Memorial Conference on Advances in Theoretical Physics, American Institute of Physics. <a href=\"https://doi.org/10.1063/1.3149485\">https://doi.org/10.1063/1.3149485</a>","ama":"Serbyn M, Skvortsov M, Varlamov A, Galitski V. Giant nernst effect due to fluctuating cooper Pairs in superconductors. In: Vol 1134. American Institute of Physics; 2009:140-145. doi:<a href=\"https://doi.org/10.1063/1.3149485\">10.1063/1.3149485</a>","mla":"Serbyn, Maksym, et al. <i>Giant Nernst Effect Due to Fluctuating Cooper Pairs in Superconductors</i>. Vol. 1134, American Institute of Physics, 2009, pp. 140–45, doi:<a href=\"https://doi.org/10.1063/1.3149485\">10.1063/1.3149485</a>.","short":"M. Serbyn, M. Skvortsov, A. Varlamov, V. Galitski, in:, American Institute of Physics, 2009, pp. 140–145.","ieee":"M. Serbyn, M. Skvortsov, A. Varlamov, and V. Galitski, “Giant nernst effect due to fluctuating cooper Pairs in superconductors,” presented at the Landau Memorial Conference on Advances in Theoretical Physics, 2009, vol. 1134, pp. 140–145.","ista":"Serbyn M, Skvortsov M, Varlamov A, Galitski V. 2009. Giant nernst effect due to fluctuating cooper Pairs in superconductors. Landau Memorial Conference on Advances in Theoretical Physics vol. 1134, 140–145."},"date_published":"2009-01-01T00:00:00Z","date_updated":"2021-01-12T08:22:17Z","year":"2009","author":[{"first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827","full_name":"Maksym Serbyn","last_name":"Serbyn"},{"first_name":"Mikhail","full_name":"Skvortsov, Mikhail A","last_name":"Skvortsov"},{"full_name":"Varlamov, Andrei A","last_name":"Varlamov","first_name":"Andrei"},{"full_name":"Galitski, Victor M","last_name":"Galitski","first_name":"Victor"}],"publication_status":"published","date_created":"2018-12-11T11:49:26Z","abstract":[{"lang":"eng","text":"A theory of the fluctuation-induced Nernst efl'ect is developed for a two-dimensional superconductor in a perpendicular magnetic field. First, we derive a simple phenomenological formula for the Nernst coefficient, which naturally explains the giant Nernst signal due to fluctuating Cooper pairs. The latter signal is shown to be large even far from the transition and may exceed by orders of magnitude the Fermi liquid terms. We also present a complete microscopic calculation of the Nernst coefficient for arbitrary magnetic fields and temperatures, which is based on the standard definition of heat current vertices. It is shown that the magnitude and the behavior of the Nernst signal observed experimentally in disordered superconducting films can be well understood on the basis of superconducting fluctuation theory."}],"intvolume":"      1134","doi":"10.1063/1.3149485","type":"conference","quality_controlled":0,"status":"public"},{"abstract":[{"text":"We consider probabilistic automata on infinite words with acceptance defined by safety, reachability, Büchi, coBüchi and limit-average conditions. We consider quantitative and qualitative decision problems. We present extensions and adaptations of proofs of [GO09] and present a precise characterization of the decidability and undecidability frontier of the quantitative and qualitative decision problems.","lang":"eng"}],"date_created":"2018-12-12T11:39:04Z","oa":1,"date_published":"2009-11-02T00:00:00Z","alternative_title":["IST Austria Technical Report"],"year":"2009","ddc":["005"],"_id":"5392","day":"02","publisher":"IST Austria","title":"Probabilistic automata on infinite words: Decidability and undecidability results","status":"public","doi":"10.15479/AT:IST-2009-0004","publication_status":"published","oa_version":"Published Version","type":"technical_report","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"}],"date_updated":"2025-04-14T13:37:25Z","department":[{"_id":"KrCh"}],"has_accepted_license":"1","citation":{"apa":"Chatterjee, K. (2009). <i>Probabilistic automata on infinite words: Decidability and undecidability results</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2009-0004\">https://doi.org/10.15479/AT:IST-2009-0004</a>","chicago":"Chatterjee, Krishnendu. <i>Probabilistic Automata on Infinite Words: Decidability and Undecidability Results</i>. IST Austria, 2009. <a href=\"https://doi.org/10.15479/AT:IST-2009-0004\">https://doi.org/10.15479/AT:IST-2009-0004</a>.","ama":"Chatterjee K. <i>Probabilistic Automata on Infinite Words: Decidability and Undecidability Results</i>. IST Austria; 2009. doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0004\">10.15479/AT:IST-2009-0004</a>","ista":"Chatterjee K. 2009. Probabilistic automata on infinite words: Decidability and undecidability results, IST Austria, 17p.","short":"K. Chatterjee, Probabilistic Automata on Infinite Words: Decidability and Undecidability Results, IST Austria, 2009.","ieee":"K. Chatterjee, <i>Probabilistic automata on infinite words: Decidability and undecidability results</i>. IST Austria, 2009.","mla":"Chatterjee, Krishnendu. <i>Probabilistic Automata on Infinite Words: Decidability and Undecidability Results</i>. IST Austria, 2009, doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0004\">10.15479/AT:IST-2009-0004</a>."},"language":[{"iso":"eng"}],"pubrep_id":"28","file_date_updated":"2020-07-14T12:46:43Z","corr_author":"1","month":"11","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","page":"17","related_material":{"record":[{"status":"public","relation":"later_version","id":"3857"}]},"file":[{"date_created":"2018-12-12T11:54:08Z","access_level":"open_access","file_id":"5530","creator":"system","content_type":"application/pdf","date_updated":"2020-07-14T12:46:43Z","file_name":"IST-2009-0004_IST-2009-0004.pdf","file_size":311065,"checksum":"fb7563150231325b00b1718d956f687b","relation":"main_file"}],"publication_identifier":{"issn":["2664-1690"]}},{"department":[{"_id":"KrCh"},{"_id":"ToHe"}],"date_updated":"2025-04-14T13:37:27Z","author":[{"full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724","first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger"},{"first_name":"Barbara","full_name":"Jobstmann, Barbara","last_name":"Jobstmann"},{"last_name":"Radhakrishna","full_name":"Radhakrishna, Arjun","first_name":"Arjun","id":"3B51CAC4-F248-11E8-B48F-1D18A9856A87"}],"type":"technical_report","oa_version":"Published Version","publication_status":"published","doi":"10.15479/AT:IST-2009-0003","status":"public","publication_identifier":{"issn":["2664-1690"]},"page":"12","related_material":{"record":[{"status":"public","relation":"later_version","id":"4388"}]},"file":[{"file_id":"5459","access_level":"open_access","date_created":"2018-12-12T11:52:58Z","creator":"system","content_type":"application/pdf","date_updated":"2020-07-14T12:46:43Z","file_name":"IST-2009-0003_IST-2009-0003.pdf","relation":"main_file","checksum":"49551ac552915b17593a14c993845274","file_size":386866}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"10","corr_author":"1","file_date_updated":"2020-07-14T12:46:43Z","language":[{"iso":"eng"}],"pubrep_id":"29","citation":{"chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, Barbara Jobstmann, and Arjun Radhakrishna. <i>Gist: A Solver for Probabilistic Games</i>. IST Austria, 2009. <a href=\"https://doi.org/10.15479/AT:IST-2009-0003\">https://doi.org/10.15479/AT:IST-2009-0003</a>.","apa":"Chatterjee, K., Henzinger, T. A., Jobstmann, B., &#38; Radhakrishna, A. (2009). <i>Gist: A solver for probabilistic games</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2009-0003\">https://doi.org/10.15479/AT:IST-2009-0003</a>","ama":"Chatterjee K, Henzinger TA, Jobstmann B, Radhakrishna A. <i>Gist: A Solver for Probabilistic Games</i>. IST Austria; 2009. doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0003\">10.15479/AT:IST-2009-0003</a>","mla":"Chatterjee, Krishnendu, et al. <i>Gist: A Solver for Probabilistic Games</i>. IST Austria, 2009, doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0003\">10.15479/AT:IST-2009-0003</a>.","short":"K. Chatterjee, T.A. Henzinger, B. Jobstmann, A. Radhakrishna, Gist: A Solver for Probabilistic Games, IST Austria, 2009.","ieee":"K. Chatterjee, T. A. Henzinger, B. Jobstmann, and A. Radhakrishna, <i>Gist: A solver for probabilistic games</i>. IST Austria, 2009.","ista":"Chatterjee K, Henzinger TA, Jobstmann B, Radhakrishna A. 2009. Gist: A solver for probabilistic games, IST Austria, 12p."},"has_accepted_license":"1","year":"2009","alternative_title":["IST Austria Technical Report"],"date_published":"2009-10-09T00:00:00Z","oa":1,"date_created":"2018-12-12T11:39:05Z","abstract":[{"text":"Gist is a tool that (a) solves the qualitative analysis problem of turn-based probabilistic games with ω-regular objectives; and (b) synthesizes reasonable environment assumptions for synthesis of unrealizable specifications. Our tool provides efficient implementations of several reduction based techniques to solve turn-based probabilistic games, and uses the analysis of turn-based probabilistic games for synthesizing environment assumptions for unrealizable specifications.","lang":"eng"}],"title":"Gist: A solver for probabilistic games","publisher":"IST Austria","day":"09","_id":"5393","ddc":["000","005"]},{"file":[{"content_type":"application/pdf","creator":"system","file_id":"5511","date_created":"2018-12-12T11:53:50Z","access_level":"open_access","checksum":"1c50a9723fbae1b2c46d18138968efb3","relation":"main_file","file_size":238091,"date_updated":"2020-07-14T12:46:43Z","file_name":"IST-2009-0002_IST-2009-0002.pdf"}],"page":"11","publication_identifier":{"issn":["2664-1690"]},"month":"09","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Improved lower bounds for request-response and finitary Streett games","_id":"5394","publisher":"IST Austria","corr_author":"1","file_date_updated":"2020-07-14T12:46:43Z","day":"09","ddc":["004"],"citation":{"mla":"Chatterjee, Krishnendu, et al. <i>Improved Lower Bounds for Request-Response and Finitary Streett Games</i>. IST Austria, 2009, doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0002\">10.15479/AT:IST-2009-0002</a>.","ieee":"K. Chatterjee, T. A. Henzinger, and F. Horn, <i>Improved lower bounds for request-response and finitary Streett games</i>. IST Austria, 2009.","ista":"Chatterjee K, Henzinger TA, Horn F. 2009. Improved lower bounds for request-response and finitary Streett games, IST Austria, 11p.","short":"K. Chatterjee, T.A. Henzinger, F. Horn, Improved Lower Bounds for Request-Response and Finitary Streett Games, IST Austria, 2009.","chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, and Florian Horn. <i>Improved Lower Bounds for Request-Response and Finitary Streett Games</i>. IST Austria, 2009. <a href=\"https://doi.org/10.15479/AT:IST-2009-0002\">https://doi.org/10.15479/AT:IST-2009-0002</a>.","apa":"Chatterjee, K., Henzinger, T. A., &#38; Horn, F. (2009). <i>Improved lower bounds for request-response and finitary Streett games</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2009-0002\">https://doi.org/10.15479/AT:IST-2009-0002</a>","ama":"Chatterjee K, Henzinger TA, Horn F. <i>Improved Lower Bounds for Request-Response and Finitary Streett Games</i>. IST Austria; 2009. doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0002\">10.15479/AT:IST-2009-0002</a>"},"has_accepted_license":"1","pubrep_id":"30","language":[{"iso":"eng"}],"date_published":"2009-09-09T00:00:00Z","date_updated":"2024-10-09T21:08:23Z","year":"2009","alternative_title":["IST Austria Technical Report"],"department":[{"_id":"KrCh"},{"_id":"ToHe"}],"author":[{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"},{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","first_name":"Thomas A","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"id":"37327ACE-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","full_name":"Horn, Florian","last_name":"Horn"}],"oa":1,"publication_status":"published","date_created":"2018-12-12T11:39:05Z","abstract":[{"lang":"eng","text":"We consider two-player games played on graphs with request-response and finitary Streett objectives. We show these games are PSPACE-hard, improving the previous known NP-hardness. We also improve the lower bounds on memory required by the winning strategies for the players."}],"doi":"10.15479/AT:IST-2009-0002","type":"technical_report","oa_version":"Published Version","status":"public"},{"ddc":["005"],"day":"09","publisher":"IST Austria","_id":"5395","title":"Qualitative analysis of partially-observable Markov decision processes","abstract":[{"lang":"eng","text":"We study observation-based strategies for partially-observable Markov decision processes (POMDPs) with omega-regular objectives. An observation-based strategy relies on partial information about the history of a play, namely, on the past sequence of observa- tions. We consider the qualitative analysis problem: given a POMDP with an omega-regular objective, whether there is an observation-based strategy to achieve the objective with probability 1 (almost-sure winning), or with positive probability (positive winning). Our main results are twofold. First, we present a complete picture of the computational complexity of the qualitative analysis of POMDPs with parity objectives (a canonical form to express omega-regular objectives) and its subclasses. Our contribution consists in establishing several upper and lower bounds that were not known in literature. Second, we present optimal bounds (matching upper and lower bounds) on the memory required by pure and randomized observation-based strategies for the qualitative analysis of POMDPs with parity objectives and its subclasses."}],"date_created":"2018-12-12T11:39:05Z","oa":1,"alternative_title":["IST Austria Technical Report"],"year":"2009","date_published":"2009-09-09T00:00:00Z","pubrep_id":"31","language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"apa":"Chatterjee, K., Doyen, L., &#38; Henzinger, T. A. (2009). <i>Qualitative analysis of partially-observable Markov decision processes</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2009-0001\">https://doi.org/10.15479/AT:IST-2009-0001</a>","chicago":"Chatterjee, Krishnendu, Laurent Doyen, and Thomas A Henzinger. <i>Qualitative Analysis of Partially-Observable Markov Decision Processes</i>. IST Austria, 2009. <a href=\"https://doi.org/10.15479/AT:IST-2009-0001\">https://doi.org/10.15479/AT:IST-2009-0001</a>.","ama":"Chatterjee K, Doyen L, Henzinger TA. <i>Qualitative Analysis of Partially-Observable Markov Decision Processes</i>. IST Austria; 2009. doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0001\">10.15479/AT:IST-2009-0001</a>","short":"K. Chatterjee, L. Doyen, T.A. Henzinger, Qualitative Analysis of Partially-Observable Markov Decision Processes, IST Austria, 2009.","ista":"Chatterjee K, Doyen L, Henzinger TA. 2009. Qualitative analysis of partially-observable Markov decision processes, IST Austria, 20p.","ieee":"K. Chatterjee, L. Doyen, and T. A. Henzinger, <i>Qualitative analysis of partially-observable Markov decision processes</i>. IST Austria, 2009.","mla":"Chatterjee, Krishnendu, et al. <i>Qualitative Analysis of Partially-Observable Markov Decision Processes</i>. IST Austria, 2009, doi:<a href=\"https://doi.org/10.15479/AT:IST-2009-0001\">10.15479/AT:IST-2009-0001</a>."},"file_date_updated":"2020-07-14T12:46:43Z","corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"09","publication_identifier":{"issn":["2664-1690"]},"related_material":{"record":[{"status":"public","relation":"later_version","id":"3855"}]},"file":[{"relation":"main_file","checksum":"04d9cc065cc19598a4e8631c47f1a562","file_size":342088,"date_updated":"2020-07-14T12:46:43Z","file_name":"IST-2009-0001_IST-2009-0001.pdf","creator":"system","content_type":"application/pdf","file_id":"5486","access_level":"open_access","date_created":"2018-12-12T11:53:25Z"}],"page":"20","status":"public","oa_version":"Published Version","type":"technical_report","doi":"10.15479/AT:IST-2009-0001","publication_status":"published","author":[{"first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"},{"first_name":"Laurent","last_name":"Doyen","full_name":"Doyen, Laurent"},{"orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger"}],"department":[{"_id":"KrCh"},{"_id":"ToHe"}],"date_updated":"2025-04-14T13:37:25Z"},{"extern":"1","_id":"599","publisher":"Cold Spring Harbor Laboratory Press","day":"15","citation":{"ama":"Knuesel M, Meyer K, Bernecky C, Taatjes D. The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function. <i>Genes and Development</i>. 2009;23(4):439-451. doi:<a href=\"https://doi.org/10.1101/gad.1767009\">10.1101/gad.1767009</a>","chicago":"Knuesel, Matthew, Krista Meyer, Carrie Bernecky, and Dylan Taatjes. “The Human CDK8 Subcomplex Is a Molecular Switch That Controls Mediator Coactivator Function.” <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press, 2009. <a href=\"https://doi.org/10.1101/gad.1767009\">https://doi.org/10.1101/gad.1767009</a>.","apa":"Knuesel, M., Meyer, K., Bernecky, C., &#38; Taatjes, D. (2009). The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function. <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press. <a href=\"https://doi.org/10.1101/gad.1767009\">https://doi.org/10.1101/gad.1767009</a>","mla":"Knuesel, Matthew, et al. “The Human CDK8 Subcomplex Is a Molecular Switch That Controls Mediator Coactivator Function.” <i>Genes and Development</i>, vol. 23, no. 4, Cold Spring Harbor Laboratory Press, 2009, pp. 439–51, doi:<a href=\"https://doi.org/10.1101/gad.1767009\">10.1101/gad.1767009</a>.","short":"M. Knuesel, K. Meyer, C. Bernecky, D. Taatjes, Genes and Development 23 (2009) 439–451.","ista":"Knuesel M, Meyer K, Bernecky C, Taatjes D. 2009. The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function. Genes and Development. 23(4), 439–451.","ieee":"M. Knuesel, K. Meyer, C. Bernecky, and D. Taatjes, “The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function,” <i>Genes and Development</i>, vol. 23, no. 4. Cold Spring Harbor Laboratory Press, pp. 439–451, 2009."},"language":[{"iso":"eng"}],"publication":"Genes and Development","page":"439 - 451","month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"7211","volume":23,"title":"The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function","publication_status":"published","intvolume":"        23","date_created":"2018-12-11T11:47:25Z","abstract":[{"text":"The human CDK8 subcomplex (CDK8, cyclin C, Med12, and Med13) negatively regulates transcription in ways not completely defined; past studies suggested CDK8 kinase activity was required for its repressive function. Using a reconstituted transcription system together with recombinant or endogenous CDK8 subcomplexes, we demonstrate that, in fact, Med12 and Med13 are critical for subcomplex-dependent repression, whereas CDK8 kinase activity is not. A hallmark of activated transcription is efficient reinitiation from promoter-bound scaffold complexes that recruit a series of pol II enzymes to the gene. Notably, the CDK8 submodule strongly represses even reinitiation events, suggesting a means to fine tune transcript levels. Structural and biochemical studies confirm the CDK8 submodule binds the Mediator leg/tail domain via the Med13 subunit, and this submodule-Mediator association precludes pol II recruitment. Collectively, these results reveal the CDK8 subcomplex functions as a simple switch that controls the Mediator-pol II interaction to help regulate transcription initiation and reinitiation events. As Mediator is generally required for expression of protein-coding genes, this may reflect a common mechanism by which activated transcription is shut down in human cells.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2648653/"}],"doi":"10.1101/gad.1767009","type":"journal_article","oa_version":"None","status":"public","date_published":"2009-02-15T00:00:00Z","date_updated":"2021-01-12T08:05:32Z","year":"2009","issue":"4","author":[{"first_name":"Matthew","full_name":"Knuesel, Matthew","last_name":"Knuesel"},{"last_name":"Meyer","full_name":"Meyer, Krista","first_name":"Krista"},{"first_name":"Carrie A","id":"2CB9DFE2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0893-7036","last_name":"Bernecky","full_name":"Bernecky, Carrie A"},{"full_name":"Taatjes, Dylan","last_name":"Taatjes","first_name":"Dylan"}],"article_processing_charge":"No","oa":1},{"language":[{"iso":"eng"}],"pmid":1,"citation":{"mla":"Persson, Annelie, et al. “Natural Variation in a Neural Globin Tunes Oxygen Sensing in Wild Caenorhabditis Elegans.” <i>Nature</i>, vol. 458, no. 7241, Springer Nature, 2009, pp. 1030–33, doi:<a href=\"https://doi.org/10.1038/nature07820\">10.1038/nature07820</a>.","ieee":"A. Persson, E. Gross, P. Laurent, K. E. Busch, H. Bretes, and M. de Bono, “Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans,” <i>Nature</i>, vol. 458, no. 7241. Springer Nature, pp. 1030–1033, 2009.","ista":"Persson A, Gross E, Laurent P, Busch KE, Bretes H, de Bono M. 2009. Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans. Nature. 458(7241), 1030–1033.","short":"A. Persson, E. Gross, P. Laurent, K.E. Busch, H. Bretes, M. de Bono, Nature 458 (2009) 1030–1033.","ama":"Persson A, Gross E, Laurent P, Busch KE, Bretes H, de Bono M. Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans. <i>Nature</i>. 2009;458(7241):1030-1033. doi:<a href=\"https://doi.org/10.1038/nature07820\">10.1038/nature07820</a>","chicago":"Persson, Annelie, Einav Gross, Patrick Laurent, Karl Emanuel Busch, Hugo Bretes, and Mario de Bono. “Natural Variation in a Neural Globin Tunes Oxygen Sensing in Wild Caenorhabditis Elegans.” <i>Nature</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1038/nature07820\">https://doi.org/10.1038/nature07820</a>.","apa":"Persson, A., Gross, E., Laurent, P., Busch, K. E., Bretes, H., &#38; de Bono, M. (2009). Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nature07820\">https://doi.org/10.1038/nature07820</a>"},"day":"23","publisher":"Springer Nature","extern":"1","_id":"6144","title":"Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans","volume":458,"month":"04","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0028-0836","1476-4687"]},"external_id":{"pmid":["19262507"]},"publication":"Nature","page":"1030-1033","status":"public","oa_version":"None","type":"journal_article","quality_controlled":"1","doi":"10.1038/nature07820","date_created":"2019-03-21T07:48:44Z","publication_status":"published","abstract":[{"text":"Behaviours evolve by iterations of natural selection, but we have few insights into the molecular and neural mechanisms involved. Here we show that some Caenorhabditis elegans wild strains switch between two foraging behaviours in response to subtle changes in ambient oxygen. This finely tuned switch is conferred by a naturally variable hexacoordinated globin, GLB-5. GLB-5 acts with the atypical soluble guanylate cyclases1,2,3, which are a different type of oxygen binding protein, to tune the dynamic range of oxygen-sensing neurons close to atmospheric (21%) concentrations. Calcium imaging indicates that one group of these neurons is activated when oxygen rises towards 21%, and is inhibited as oxygen drops below 21%. The soluble guanylate cyclase GCY-35 is required for high oxygen to activate the neurons; GLB-5 provides inhibitory input when oxygen decreases below 21%. Together, these oxygen binding proteins tune neuronal and behavioural responses to a narrow oxygen concentration range close to atmospheric levels. The effect of the glb-5 gene on oxygen sensing and foraging is modified by the naturally variable neuropeptide receptor npr-1 (refs 4, 5), providing insights into how polygenic variation reshapes neural circuit function.","lang":"eng"}],"intvolume":"       458","author":[{"first_name":"Annelie","full_name":"Persson, Annelie","last_name":"Persson"},{"first_name":"Einav","full_name":"Gross, Einav","last_name":"Gross"},{"full_name":"Laurent, Patrick","last_name":"Laurent","first_name":"Patrick"},{"first_name":"Karl Emanuel","full_name":"Busch, Karl Emanuel","last_name":"Busch"},{"last_name":"Bretes","full_name":"Bretes, Hugo","first_name":"Hugo"},{"first_name":"Mario","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443","last_name":"de Bono","full_name":"de Bono, Mario"}],"issue":"7241","year":"2009","date_updated":"2021-01-12T08:06:20Z","date_published":"2009-04-23T00:00:00Z"}]