[{"doi":"10.1109/ICCV.2009.5459434","publist_id":"3481","publisher":"IEEE","author":[{"full_name":"Woodford, Oliver J","first_name":"Oliver","last_name":"Woodford"},{"full_name":"Rother, Carsten","first_name":"Carsten","last_name":"Rother"},{"id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","full_name":"Vladimir Kolmogorov","last_name":"Kolmogorov","first_name":"Vladimir"}],"publication_status":"published","extern":1,"quality_controlled":0,"_id":"3203","day":"01","abstract":[{"lang":"eng","text":"In recent years the Markov Random Field (MRF) has become the de facto probabilistic model for low-level vision applications. However, in a maximum a posteriori (MAP) framework, MRFs inherently encourage delta function marginal statistics. By contrast, many low-level vision problems have heavy tailed marginal statistics, making the MRF model unsuitable. In this paper we introduce a more general Marginal Probability Field (MPF), of which the MRF is a special, linear case, and show that convex energy MPFs can be used to encourage arbitrary marginal statistics. We introduce a flexible, extensible framework for effectively optimizing the resulting NP-hard MAP problem, based around dual-decomposition and a modified mincost flow algorithm, and which achieves global optimality in some instances. We use a range of applications, including image denoising and texture synthesis, to demonstrate the benefits of this class of MPF over MRFs."}],"title":"A global perspective on MAP inference for low level vision","conference":{"name":"ICCV: International Conference on Computer Vision"},"page":"2319 - 2326","date_updated":"2021-01-12T07:41:46Z","status":"public","date_published":"2009-05-01T00:00:00Z","date_created":"2018-12-11T12:01:59Z","citation":{"ama":"Woodford O, Rother C, Kolmogorov V. A global perspective on MAP inference for low level vision. In: IEEE; 2009:2319-2326. doi:<a href=\"https://doi.org/10.1109/ICCV.2009.5459434\">10.1109/ICCV.2009.5459434</a>","apa":"Woodford, O., Rother, C., &#38; Kolmogorov, V. (2009). A global perspective on MAP inference for low level vision (pp. 2319–2326). Presented at the ICCV: International Conference on Computer Vision, IEEE. <a href=\"https://doi.org/10.1109/ICCV.2009.5459434\">https://doi.org/10.1109/ICCV.2009.5459434</a>","short":"O. Woodford, C. Rother, V. Kolmogorov, in:, IEEE, 2009, pp. 2319–2326.","ieee":"O. Woodford, C. Rother, and V. Kolmogorov, “A global perspective on MAP inference for low level vision,” presented at the ICCV: International Conference on Computer Vision, 2009, pp. 2319–2326.","mla":"Woodford, Oliver, et al. <i>A Global Perspective on MAP Inference for Low Level Vision</i>. IEEE, 2009, pp. 2319–26, doi:<a href=\"https://doi.org/10.1109/ICCV.2009.5459434\">10.1109/ICCV.2009.5459434</a>.","ista":"Woodford O, Rother C, Kolmogorov V. 2009. A global perspective on MAP inference for low level vision. ICCV: International Conference on Computer Vision, 2319–2326.","chicago":"Woodford, Oliver, Carsten Rother, and Vladimir Kolmogorov. “A Global Perspective on MAP Inference for Low Level Vision,” 2319–26. IEEE, 2009. <a href=\"https://doi.org/10.1109/ICCV.2009.5459434\">https://doi.org/10.1109/ICCV.2009.5459434</a>."},"year":"2009","type":"conference","month":"05"},{"_id":"3230","quality_controlled":0,"extern":1,"intvolume":"      5479","publication_status":"published","author":[{"full_name":"Kiltz, Eike","first_name":"Eike","last_name":"Kiltz"},{"last_name":"Pietrzak","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Krzysztof Pietrzak","orcid":"0000-0002-9139-1654"},{"last_name":"Stam","first_name":"Martijn","full_name":"Stam, Martijn"},{"full_name":"Yung, Moti","last_name":"Yung","first_name":"Moti"}],"publisher":"Springer","alternative_title":["LNCS"],"publist_id":"3449","doi":"10.1007/978-3-642-01001-9_34","month":"05","type":"conference","volume":5479,"year":"2009","citation":{"ista":"Kiltz E, Pietrzak KZ, Stam M, Yung M. 2009. A new randomness extraction paradigm for hybrid encryption. EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 5479, 590–609.","chicago":"Kiltz, Eike, Krzysztof Z Pietrzak, Martijn Stam, and Moti Yung. “A New Randomness Extraction Paradigm for Hybrid Encryption,” 5479:590–609. Springer, 2009. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_34\">https://doi.org/10.1007/978-3-642-01001-9_34</a>.","ama":"Kiltz E, Pietrzak KZ, Stam M, Yung M. A new randomness extraction paradigm for hybrid encryption. In: Vol 5479. Springer; 2009:590-609. doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_34\">10.1007/978-3-642-01001-9_34</a>","apa":"Kiltz, E., Pietrzak, K. Z., Stam, M., &#38; Yung, M. (2009). A new randomness extraction paradigm for hybrid encryption (Vol. 5479, pp. 590–609). Presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Springer. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_34\">https://doi.org/10.1007/978-3-642-01001-9_34</a>","short":"E. Kiltz, K.Z. Pietrzak, M. Stam, M. Yung, in:, Springer, 2009, pp. 590–609.","mla":"Kiltz, Eike, et al. <i>A New Randomness Extraction Paradigm for Hybrid Encryption</i>. Vol. 5479, Springer, 2009, pp. 590–609, doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_34\">10.1007/978-3-642-01001-9_34</a>.","ieee":"E. Kiltz, K. Z. Pietrzak, M. Stam, and M. Yung, “A new randomness extraction paradigm for hybrid encryption,” presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, 2009, vol. 5479, pp. 590–609."},"date_created":"2018-12-11T12:02:09Z","date_published":"2009-05-28T00:00:00Z","status":"public","date_updated":"2021-01-12T07:41:58Z","page":"590 - 609","title":"A new randomness extraction paradigm for hybrid encryption","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques"},"abstract":[{"lang":"eng","text":"We present a new approach to the design of IND-CCA2 secure hybrid encryption schemes in the standard model. Our approach provides an efficient generic transformation from 1-universal to 2-universal hash proof systems. The transformation involves a randomness extractor based on a 4-wise independent hash function as the key derivation function. Our methodology can be instantiated with efficient schemes based on standard intractability assumptions such as Decisional Diffie-Hellman, Quadratic Residuosity, and Paillier's Decisional Composite Residuosity. Interestingly, our framework also allows to prove IND-CCA2 security of a hybrid version of 1991's Damgård's ElGamal public-key encryption scheme under the DDH assumption. "}],"day":"28"},{"publication_status":"published","author":[{"last_name":"Kiltz","first_name":"Eike","full_name":"Kiltz, Eike"},{"orcid":"0000-0002-9139-1654","full_name":"Krzysztof Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z","last_name":"Pietrzak"}],"publisher":"Springer","alternative_title":["LNCS"],"publist_id":"3450","doi":"10.1007/978-3-642-01001-9_23","_id":"3231","quality_controlled":0,"extern":1,"intvolume":"      5479","date_created":"2018-12-11T12:02:09Z","date_published":"2009-05-28T00:00:00Z","status":"public","date_updated":"2021-01-12T07:41:58Z","page":"389 - 406","title":"On the security of padding based encryption schemes Why We cannot prove OAEP secure in the standard model","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques"},"abstract":[{"text":"We investigate the security of &quot;padding-based&quot; encryption schemes in the standard model. This class contains all public-key encryption schemes where the encryption algorithm first applies some invertible public transformation to the message (the &quot;padding&quot;), followed by a trapdoor permutation. In particular, this class contains OAEP and its variants. Our main result is a black-box impossibility result showing that one cannot prove any such padding-based scheme chosen-ciphertext secure even assuming the existence of ideal trapdoor permutations. The latter is a strong ideal abstraction of trapdoor permutations which inherits all security properties of uniform random permutations. ","lang":"eng"}],"day":"28","month":"05","type":"conference","volume":5479,"year":"2009","citation":{"ista":"Kiltz E, Pietrzak KZ. 2009. On the security of padding based encryption schemes Why We cannot prove OAEP secure in the standard model. EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 5479, 389–406.","chicago":"Kiltz, Eike, and Krzysztof Z Pietrzak. “On the Security of Padding Based Encryption Schemes Why We Cannot Prove OAEP Secure in the Standard Model,” 5479:389–406. Springer, 2009. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_23\">https://doi.org/10.1007/978-3-642-01001-9_23</a>.","apa":"Kiltz, E., &#38; Pietrzak, K. Z. (2009). On the security of padding based encryption schemes Why We cannot prove OAEP secure in the standard model (Vol. 5479, pp. 389–406). Presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Springer. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_23\">https://doi.org/10.1007/978-3-642-01001-9_23</a>","ama":"Kiltz E, Pietrzak KZ. On the security of padding based encryption schemes Why We cannot prove OAEP secure in the standard model. In: Vol 5479. Springer; 2009:389-406. doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_23\">10.1007/978-3-642-01001-9_23</a>","short":"E. Kiltz, K.Z. Pietrzak, in:, Springer, 2009, pp. 389–406.","mla":"Kiltz, Eike, and Krzysztof Z. Pietrzak. <i>On the Security of Padding Based Encryption Schemes Why We Cannot Prove OAEP Secure in the Standard Model</i>. Vol. 5479, Springer, 2009, pp. 389–406, doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_23\">10.1007/978-3-642-01001-9_23</a>.","ieee":"E. Kiltz and K. Z. Pietrzak, “On the security of padding based encryption schemes Why We cannot prove OAEP secure in the standard model,” presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, 2009, vol. 5479, pp. 389–406."}},{"volume":5479,"year":"2009","month":"05","type":"conference","citation":{"ista":"Pietrzak KZ. 2009. A leakage resilient mode of operation. CRYPTO: International Cryptology Conference, LNCS, vol. 5479, 462–482.","chicago":"Pietrzak, Krzysztof Z. “A Leakage Resilient Mode of Operation,” 5479:462–82. Springer, 2009. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_27\">https://doi.org/10.1007/978-3-642-01001-9_27</a>.","ama":"Pietrzak KZ. A leakage resilient mode of operation. In: Vol 5479. Springer; 2009:462-482. doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_27\">10.1007/978-3-642-01001-9_27</a>","apa":"Pietrzak, K. Z. (2009). A leakage resilient mode of operation (Vol. 5479, pp. 462–482). Presented at the CRYPTO: International Cryptology Conference, Springer. <a href=\"https://doi.org/10.1007/978-3-642-01001-9_27\">https://doi.org/10.1007/978-3-642-01001-9_27</a>","ieee":"K. Z. Pietrzak, “A leakage resilient mode of operation,” presented at the CRYPTO: International Cryptology Conference, 2009, vol. 5479, pp. 462–482.","mla":"Pietrzak, Krzysztof Z. <i>A Leakage Resilient Mode of Operation</i>. Vol. 5479, Springer, 2009, pp. 462–82, doi:<a href=\"https://doi.org/10.1007/978-3-642-01001-9_27\">10.1007/978-3-642-01001-9_27</a>.","short":"K.Z. Pietrzak, in:, Springer, 2009, pp. 462–482."},"status":"public","date_updated":"2021-01-12T07:41:59Z","date_created":"2018-12-11T12:02:09Z","date_published":"2009-05-28T00:00:00Z","abstract":[{"lang":"eng","text":"A weak pseudorandom function (wPRF) is a cryptographic primitive similar to - but weaker than - a pseudorandom function: for wPRFs one only requires that the output is pseudorandom when queried on random inputs.We show that unlike &quot;normal&quot; PRFs, wPRFs are seedincompressible, in the sense that the output of a wPRF is pseudorandom even if a bounded amount of information about the key is leaked. As an application of this result we construct a simple mode of operation which - when instantiated with any wPRF - gives a leakage-resilient stream-cipher. The implementation of such a cipher is secure against every side-channel attack, as long as the amount of information leaked per round is bounded, but overall can be arbitrary large. The construction is simpler than the previous one (Dziembowski-Pietrzak FOCS'08) as it only uses a single primitive (a wPRF) in a straight forward manner. "}],"day":"28","page":"462 - 482","conference":{"name":"CRYPTO: International Cryptology Conference"},"title":"A leakage resilient mode of operation","extern":1,"intvolume":"      5479","quality_controlled":0,"_id":"3232","author":[{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","full_name":"Krzysztof Pietrzak","last_name":"Pietrzak","first_name":"Krzysztof Z"}],"publication_status":"published","publist_id":"3448","doi":"10.1007/978-3-642-01001-9_27","publisher":"Springer","alternative_title":["LNCS"]},{"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"3292","quality_controlled":"1","intvolume":"       284","extern":"1","publisher":"American Society for Biochemistry and Molecular Biology","doi":"10.1074/jbc.M109.070219 ","publist_id":"3353","author":[{"first_name":"Jakob","last_name":"Engel","full_name":"Engel, Jakob"},{"full_name":"Schmalhorst, Philipp S","orcid":"0000-0002-5795-0133","id":"309D50DA-F248-11E8-B48F-1D18A9856A87","first_name":"Philipp S","last_name":"Schmalhorst"},{"full_name":"Dörk Bousset, Thilo","last_name":"Dörk Bousset","first_name":"Thilo"},{"last_name":"Ferrières","first_name":"Vincent","full_name":"Ferrières, Vincent"},{"last_name":"Routier","first_name":"Françoise","full_name":"Routier, Françoise"}],"publication_status":"published","oa_version":"None","citation":{"chicago":"Engel, Jakob, Philipp S Schmalhorst, Thilo Dörk Bousset, Vincent Ferrières, and Françoise Routier. “A Single UDP Galactofuranose Transporter Is Required for Galactofuranosylation in Aspergillus Fumigatus.” <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology, 2009. <a href=\"https://doi.org/10.1074/jbc.M109.070219 \">https://doi.org/10.1074/jbc.M109.070219 </a>.","ista":"Engel J, Schmalhorst PS, Dörk Bousset T, Ferrières V, Routier F. 2009. A single UDP galactofuranose transporter is required for galactofuranosylation in Aspergillus fumigatus. Journal of Biological Chemistry. 284(49), 33859–33868.","short":"J. Engel, P.S. Schmalhorst, T. Dörk Bousset, V. Ferrières, F. Routier, Journal of Biological Chemistry 284 (2009) 33859–33868.","ieee":"J. Engel, P. S. Schmalhorst, T. Dörk Bousset, V. Ferrières, and F. Routier, “A single UDP galactofuranose transporter is required for galactofuranosylation in Aspergillus fumigatus,” <i>Journal of Biological Chemistry</i>, vol. 284, no. 49. American Society for Biochemistry and Molecular Biology, pp. 33859–33868, 2009.","mla":"Engel, Jakob, et al. “A Single UDP Galactofuranose Transporter Is Required for Galactofuranosylation in Aspergillus Fumigatus.” <i>Journal of Biological Chemistry</i>, vol. 284, no. 49, American Society for Biochemistry and Molecular Biology, 2009, pp. 33859–68, doi:<a href=\"https://doi.org/10.1074/jbc.M109.070219 \">10.1074/jbc.M109.070219 </a>.","ama":"Engel J, Schmalhorst PS, Dörk Bousset T, Ferrières V, Routier F. A single UDP galactofuranose transporter is required for galactofuranosylation in Aspergillus fumigatus. <i>Journal of Biological Chemistry</i>. 2009;284(49):33859-33868. doi:<a href=\"https://doi.org/10.1074/jbc.M109.070219 \">10.1074/jbc.M109.070219 </a>","apa":"Engel, J., Schmalhorst, P. S., Dörk Bousset, T., Ferrières, V., &#38; Routier, F. (2009). A single UDP galactofuranose transporter is required for galactofuranosylation in Aspergillus fumigatus. <i>Journal of Biological Chemistry</i>. American Society for Biochemistry and Molecular Biology. <a href=\"https://doi.org/10.1074/jbc.M109.070219 \">https://doi.org/10.1074/jbc.M109.070219 </a>"},"language":[{"iso":"eng"}],"type":"journal_article","month":"12","volume":284,"year":"2009","title":"A single UDP galactofuranose transporter is required for galactofuranosylation in Aspergillus fumigatus","publication":"Journal of Biological Chemistry","page":"33859 - 33868","day":"04","abstract":[{"text":"Galactofuranose (Galf) containing molecules have been described at the cell surface of several eukaryotes and shown to contribute to the virulence of the parasite Leishmania major and the fungus Aspergillus fumigatus. It is anticipated that a number of the surface glycoconjugates such as N-glycans or glycolipids are galactofuranosylated in the Golgi apparatus. This raises the question of how the substrate for galactofuranosylation reactions, UDP-Galf, which is synthesized in the cytosol, translocates into the organelles of the secretory pathway. Here we report the first identification of a Golgi-localized nucleotide sugar transporter, named GlfB, with specificity for a UDP-Galf. In vitro transport assays established binding of UDP-Galf to GlfB and excluded transport of several other nucleotide sugars. Furthermore, the implication of glfB in the galactofuranosylation of A. fumigatus glycoconjugates and galactomannan was demonstrated by a targeted gene deletion approach. Our data reveal a direct connection between galactomannan and the organelles of the secretory pathway that strongly suggests that the cell wall-bound polysaccharide originates from its glycosylphosphatidylinositol-anchored form.","lang":"eng"}],"date_published":"2009-12-04T00:00:00Z","issue":"49","date_created":"2018-12-11T12:02:30Z","date_updated":"2021-01-12T07:42:26Z","status":"public"},{"issue":"1-2","date_created":"2018-12-11T12:02:30Z","date_published":"2009-01-01T00:00:00Z","status":"public","date_updated":"2021-01-12T07:42:27Z","page":"210 - 9","publication":"Journal of Neurogenetics","title":"Sensory correlates of imaginal conditioning in Drosophila melanogaster","abstract":[{"text":"Chemotactic responses of Drosophila to certain esters and alcohols are experience dependent. When the flies are exposed after eclosion to these chemicals, the odorants become strongly attractive. We show that behavioral conditioning is accompanied by an increase in the electrophysiological responses of single neurons in sensilla basiconica. Sensitization involves odorants that act on a common olfactory receptor. The possible mechanism of imaginal conditioning and its ecological and evolutionary significance are discussed.","lang":"eng"}],"day":"01","month":"01","type":"journal_article","year":"2009","volume":23,"citation":{"ieee":"S. Chakraborty Tuhin, S. Goswami, and O. Siddiqi, “Sensory correlates of imaginal conditioning in Drosophila melanogaster,” <i>Journal of Neurogenetics</i>, vol. 23, no. 1–2. Informa Healthcare, pp. 210–9, 2009.","mla":"Chakraborty Tuhin, Subhra, et al. “Sensory Correlates of Imaginal Conditioning in Drosophila Melanogaster.” <i>Journal of Neurogenetics</i>, vol. 23, no. 1–2, Informa Healthcare, 2009, pp. 210–19, doi:<a href=\"https://doi.org/10.1080/01677060802491559 \">10.1080/01677060802491559 </a>.","short":"S. Chakraborty Tuhin, S. Goswami, O. Siddiqi, Journal of Neurogenetics 23 (2009) 210–9.","apa":"Chakraborty Tuhin, S., Goswami, S., &#38; Siddiqi, O. (2009). Sensory correlates of imaginal conditioning in Drosophila melanogaster. <i>Journal of Neurogenetics</i>. Informa Healthcare. <a href=\"https://doi.org/10.1080/01677060802491559 \">https://doi.org/10.1080/01677060802491559 </a>","ama":"Chakraborty Tuhin S, Goswami S, Siddiqi O. Sensory correlates of imaginal conditioning in Drosophila melanogaster. <i>Journal of Neurogenetics</i>. 2009;23(1-2):210-219. doi:<a href=\"https://doi.org/10.1080/01677060802491559 \">10.1080/01677060802491559 </a>","chicago":"Chakraborty Tuhin, Subhra, Sarit Goswami, and Obaid Siddiqi. “Sensory Correlates of Imaginal Conditioning in Drosophila Melanogaster.” <i>Journal of Neurogenetics</i>. Informa Healthcare, 2009. <a href=\"https://doi.org/10.1080/01677060802491559 \">https://doi.org/10.1080/01677060802491559 </a>.","ista":"Chakraborty Tuhin S, Goswami S, Siddiqi O. 2009. Sensory correlates of imaginal conditioning in Drosophila melanogaster. Journal of Neurogenetics. 23(1–2), 210–9."},"publication_status":"published","author":[{"first_name":"Subhra","last_name":"Chakraborty Tuhin","full_name":"Chakraborty Tuhin, Subhra"},{"full_name":"Sarit Goswami","id":"3A578F32-F248-11E8-B48F-1D18A9856A87","first_name":"Sarit","last_name":"Goswami"},{"full_name":"Siddiqi, Obaid","first_name":"Obaid","last_name":"Siddiqi"}],"publisher":"Informa Healthcare","publist_id":"3348","doi":"10.1080/01677060802491559 ","quality_controlled":0,"_id":"3293","extern":1,"intvolume":"        23"},{"extern":1,"intvolume":"        75","_id":"3304","quality_controlled":0,"publist_id":"3336","doi":"10.1016/j.tpb.2009.02.006","publisher":"Academic Press","publication_status":"published","author":[{"id":"2D0CE020-F248-11E8-B48F-1D18A9856A87","full_name":"Daniel Weissman","last_name":"Weissman","first_name":"Daniel"},{"first_name":"Michael","last_name":"Desai","full_name":"Desai, Michael M"},{"last_name":"Fisher","first_name":"Daniel","full_name":"Fisher, Daniel S"},{"full_name":"Feldman, Marcus W","last_name":"Feldman","first_name":"Marcus"}],"citation":{"ama":"Weissman D, Desai M, Fisher D, Feldman M. The rate at which asexual populations cross fitness valleys. <i>Theoretical Population Biology</i>. 2009;75(4):286-300. doi:<a href=\"https://doi.org/10.1016/j.tpb.2009.02.006\">10.1016/j.tpb.2009.02.006</a>","apa":"Weissman, D., Desai, M., Fisher, D., &#38; Feldman, M. (2009). The rate at which asexual populations cross fitness valleys. <i>Theoretical Population Biology</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.tpb.2009.02.006\">https://doi.org/10.1016/j.tpb.2009.02.006</a>","short":"D. Weissman, M. Desai, D. Fisher, M. Feldman, Theoretical Population Biology 75 (2009) 286–300.","ieee":"D. Weissman, M. Desai, D. Fisher, and M. Feldman, “The rate at which asexual populations cross fitness valleys,” <i>Theoretical Population Biology</i>, vol. 75, no. 4. Academic Press, pp. 286–300, 2009.","mla":"Weissman, Daniel, et al. “The Rate at Which Asexual Populations Cross Fitness Valleys.” <i>Theoretical Population Biology</i>, vol. 75, no. 4, Academic Press, 2009, pp. 286–300, doi:<a href=\"https://doi.org/10.1016/j.tpb.2009.02.006\">10.1016/j.tpb.2009.02.006</a>.","ista":"Weissman D, Desai M, Fisher D, Feldman M. 2009. The rate at which asexual populations cross fitness valleys. Theoretical Population Biology. 75(4), 286–300.","chicago":"Weissman, Daniel, Michael Desai, Daniel Fisher, and Marcus Feldman. “The Rate at Which Asexual Populations Cross Fitness Valleys.” <i>Theoretical Population Biology</i>. Academic Press, 2009. <a href=\"https://doi.org/10.1016/j.tpb.2009.02.006\">https://doi.org/10.1016/j.tpb.2009.02.006</a>."},"year":"2009","volume":75,"month":"06","type":"journal_article","abstract":[{"text":"Complex traits often involve interactions between different genetic loci. This can lead to sign epistasis, whereby mutations that are individually deleterious or neutral combine to confer a fitness benefit. In order to acquire the beneficial genotype, an asexual population must cross a fitness valley or plateau by first acquiring the deleterious or neutral intermediates. Here, we present a complete, intuitive theoretical description of the valley-crossing process across the full spectrum of possible parameter regimes. We calculate the rate at which a population crosses a fitness valley or plateau of arbitrary width, as a function of the mutation rates, the population size, and the fitnesses of the intermediates. We find that when intermediates are close to neutral, a large population can cross even wide fitness valleys remarkably quickly, so that valley-crossing dynamics may be common even when mutations that directly increase fitness are also possible. Thus the evolutionary dynamics of large populations can be sensitive to the structure of an extended region of the fitness landscape — the population may not take directly uphill paths in favor of paths across valleys and plateaus that lead eventually to fitter genotypes. In smaller populations, we find that below a threshold size, which depends on the width of the fitness valley and the strength of selection against intermediate genotypes, valley-crossing is much less likely and hence the evolutionary dynamics are less influenced by distant regions of the fitness landscape.","lang":"eng"}],"day":"01","page":"286 - 300","title":"The rate at which asexual populations cross fitness valleys","publication":"Theoretical Population Biology","status":"public","date_updated":"2021-01-12T07:42:31Z","issue":"4","date_created":"2018-12-11T12:02:34Z","date_published":"2009-06-01T00:00:00Z"},{"citation":{"apa":"Uhler, C. (2009). Mastitis in dairy production: Estimation of sensitivity, specificity and disease prevalence in the absence of a gold standard. <i>Journal of Agricultural Biological and Environmental Statistics</i>. Springer. <a href=\"https://doi.org/10.1198/jabes.2009.0005\">https://doi.org/10.1198/jabes.2009.0005</a>","ama":"Uhler C. Mastitis in dairy production: Estimation of sensitivity, specificity and disease prevalence in the absence of a gold standard. <i>Journal of Agricultural Biological and Environmental Statistics</i>. 2009;14(1):79-98. doi:<a href=\"https://doi.org/10.1198/jabes.2009.0005\">10.1198/jabes.2009.0005</a>","short":"C. Uhler, Journal of Agricultural Biological and Environmental Statistics 14 (2009) 79–98.","ieee":"C. Uhler, “Mastitis in dairy production: Estimation of sensitivity, specificity and disease prevalence in the absence of a gold standard,” <i>Journal of Agricultural Biological and Environmental Statistics</i>, vol. 14, no. 1. Springer, pp. 79–98, 2009.","mla":"Uhler, Caroline. “Mastitis in Dairy Production: Estimation of Sensitivity, Specificity and Disease Prevalence in the Absence of a Gold Standard.” <i>Journal of Agricultural Biological and Environmental Statistics</i>, vol. 14, no. 1, Springer, 2009, pp. 79–98, doi:<a href=\"https://doi.org/10.1198/jabes.2009.0005\">10.1198/jabes.2009.0005</a>.","ista":"Uhler C. 2009. Mastitis in dairy production: Estimation of sensitivity, specificity and disease prevalence in the absence of a gold standard. Journal of Agricultural Biological and Environmental Statistics. 14(1), 79–98.","chicago":"Uhler, Caroline. “Mastitis in Dairy Production: Estimation of Sensitivity, Specificity and Disease Prevalence in the Absence of a Gold Standard.” <i>Journal of Agricultural Biological and Environmental Statistics</i>. Springer, 2009. <a href=\"https://doi.org/10.1198/jabes.2009.0005\">https://doi.org/10.1198/jabes.2009.0005</a>."},"year":"2009","volume":14,"month":"03","type":"journal_article","abstract":[{"lang":"eng","text":"\n\nMastitis, a worldwide endemic disease of dairy cows, is an important cause of decreased efficiency in milk production. Early medical treatment can reduce the nonreversible losses in milk production caused by this infection. Various diagnostic tests for mastitis are available, including a test measuring the electrical conductivity of milk (MEC test), the industry standard of somatic cell counting (SCC test), a bacteriological test, and a recently developed test measuring mammary associated amyloid A (MAA test). None of these tests is considered a gold standard, however. The aim of the present study was to determine which of these tests provides the best results, and at what cost, to improve the efficiency of milk production. For this study, 25 cows were tested at all four quarters of the udder with each of the aforementioned mastitis diagnostic tests. Based on the data, the disease prevalence as well as the sensitivity and the specificity of the four tests were estimated with a Bayesian approach by extending the Hui and Walter model with two independent tests and two populations to a model with four partially dependent tests and one population. This model was further combined with a receiver operating characteristics analysis to estimate the overall test accuracy."}],"day":"01","page":"79 - 98","publication":"Journal of Agricultural Biological and Environmental Statistics","title":"Mastitis in dairy production: Estimation of sensitivity, specificity and disease prevalence in the absence of a gold standard","status":"public","date_updated":"2021-01-12T07:42:33Z","issue":"1","date_created":"2018-12-11T12:02:35Z","date_published":"2009-03-01T00:00:00Z","extern":1,"intvolume":"        14","_id":"3309","quality_controlled":0,"publist_id":"3331","doi":"10.1198/jabes.2009.0005","publisher":"Springer","author":[{"id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7008-0216","full_name":"Caroline Uhler","last_name":"Uhler","first_name":"Caroline"}],"publication_status":"published"},{"status":"public","date_updated":"2021-01-12T07:43:00Z","date_published":"2009-01-01T00:00:00Z","issue":"32","date_created":"2018-12-11T11:45:53Z","day":"01","abstract":[{"lang":"eng","text":"The formation of hollow vs solid particles by means of the oxidation reaction of solid metal particles depends on the differential self-diffusivities of the reactants through the composite shell, the reaction probabilities at each interface, and the concentration and diffusivity of the element in solution. By means of a kinetic model of the oxidation process, we determine the phase diagrams for the geometry of the oxidized particles and propose four shell growth regimes. We experimentally illustrate the different growth scenarios by changing the conditions of oxidation of cadmium spherical crystals using different chalcogen precursors. "}],"title":"Reaction regimes on the synthesis of hollow particles by the Kirkendall effect","publication":"Journal of the American Chemical Society","page":"11326 - 11328","volume":131,"year":"2009","type":"journal_article","article_type":"original","month":"01","language":[{"iso":"eng"}],"citation":{"chicago":"Cabot, Andreu, Maria Ibáñez, Pablo Guardia, and Paul Alivisatos. “Reaction Regimes on the Synthesis of Hollow Particles by the Kirkendall Effect.” <i>Journal of the American Chemical Society</i>. ACS, 2009. <a href=\"https://doi.org/10.1021/ja903751p\">https://doi.org/10.1021/ja903751p</a>.","ista":"Cabot A, Ibáñez M, Guardia P, Alivisatos P. 2009. Reaction regimes on the synthesis of hollow particles by the Kirkendall effect. Journal of the American Chemical Society. 131(32), 11326–11328.","ieee":"A. Cabot, M. Ibáñez, P. Guardia, and P. Alivisatos, “Reaction regimes on the synthesis of hollow particles by the Kirkendall effect,” <i>Journal of the American Chemical Society</i>, vol. 131, no. 32. ACS, pp. 11326–11328, 2009.","mla":"Cabot, Andreu, et al. “Reaction Regimes on the Synthesis of Hollow Particles by the Kirkendall Effect.” <i>Journal of the American Chemical Society</i>, vol. 131, no. 32, ACS, 2009, pp. 11326–28, doi:<a href=\"https://doi.org/10.1021/ja903751p\">10.1021/ja903751p</a>.","short":"A. Cabot, M. Ibáñez, P. Guardia, P. Alivisatos, Journal of the American Chemical Society 131 (2009) 11326–11328.","apa":"Cabot, A., Ibáñez, M., Guardia, P., &#38; Alivisatos, P. (2009). Reaction regimes on the synthesis of hollow particles by the Kirkendall effect. <i>Journal of the American Chemical Society</i>. ACS. <a href=\"https://doi.org/10.1021/ja903751p\">https://doi.org/10.1021/ja903751p</a>","ama":"Cabot A, Ibáñez M, Guardia P, Alivisatos P. Reaction regimes on the synthesis of hollow particles by the Kirkendall effect. <i>Journal of the American Chemical Society</i>. 2009;131(32):11326-11328. doi:<a href=\"https://doi.org/10.1021/ja903751p\">10.1021/ja903751p</a>"},"oa_version":"None","author":[{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"},{"first_name":"Maria","last_name":"Ibáñez","orcid":"0000-0001-5013-2843","full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Pablo","last_name":"Guardia","full_name":"Guardia, Pablo"},{"full_name":"Alivisatos, Paul","first_name":"Paul","last_name":"Alivisatos"}],"publication_status":"published","doi":"10.1021/ja903751p","publist_id":"7494","publisher":"ACS","intvolume":"       131","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"337","article_processing_charge":"No","quality_controlled":"1"},{"abstract":[{"lang":"eng","text":"Why is a particular architecture for a pathway chosen over seemingly equivalent alternatives? Çağatay et al. (2009) use a synthetic biology approach to show that fluctuations—or noise—in protein levels may play a key role in determining which network design is selected during evolution."}],"day":"30","page":"460 - 461","title":"Quiet gene circuit more fragile than its noisy peer","publication":"Cell","status":"public","date_updated":"2021-01-12T07:43:12Z","issue":"3","date_created":"2018-12-11T12:03:07Z","date_published":"2009-10-30T00:00:00Z","language":[{"iso":"eng"}],"citation":{"ama":"Bollenbach MT, Kishony R. Quiet gene circuit more fragile than its noisy peer. <i>Cell</i>. 2009;139(3):460-461. doi:<a href=\"https://doi.org/10.1016/j.cell.2009.10.005\">10.1016/j.cell.2009.10.005</a>","apa":"Bollenbach, M. T., &#38; Kishony, R. (2009). Quiet gene circuit more fragile than its noisy peer. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2009.10.005\">https://doi.org/10.1016/j.cell.2009.10.005</a>","ieee":"M. T. Bollenbach and R. Kishony, “Quiet gene circuit more fragile than its noisy peer,” <i>Cell</i>, vol. 139, no. 3. Cell Press, pp. 460–461, 2009.","mla":"Bollenbach, Mark Tobias, and Roy Kishony. “Quiet Gene Circuit More Fragile than Its Noisy Peer.” <i>Cell</i>, vol. 139, no. 3, Cell Press, 2009, pp. 460–61, doi:<a href=\"https://doi.org/10.1016/j.cell.2009.10.005\">10.1016/j.cell.2009.10.005</a>.","short":"M.T. Bollenbach, R. Kishony, Cell 139 (2009) 460–461.","ista":"Bollenbach MT, Kishony R. 2009. Quiet gene circuit more fragile than its noisy peer. Cell. 139(3), 460–461.","chicago":"Bollenbach, Mark Tobias, and Roy Kishony. “Quiet Gene Circuit More Fragile than Its Noisy Peer.” <i>Cell</i>. Cell Press, 2009. <a href=\"https://doi.org/10.1016/j.cell.2009.10.005\">https://doi.org/10.1016/j.cell.2009.10.005</a>."},"oa_version":"None","year":"2009","volume":139,"month":"10","type":"journal_article","publist_id":"3061","doi":"10.1016/j.cell.2009.10.005","publisher":"Cell Press","author":[{"last_name":"Bollenbach","first_name":"Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","full_name":"Bollenbach, Tobias","orcid":"0000-0003-4398-476X"},{"first_name":"Roy","last_name":"Kishony","full_name":"Kishony, Roy"}],"publication_status":"published","extern":"1","intvolume":"       139","_id":"3398","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"publication_status":"published","author":[{"first_name":"Philipp S","last_name":"Schmalhorst","orcid":"0000-0002-5795-0133","full_name":"Philipp Schmalhorst","id":"309D50DA-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Gottfried Wilhelm Leibniz Universität Hannover","publist_id":"3058","_id":"3400","quality_controlled":0,"extern":1,"main_file_link":[{"open_access":"0","url":"http://edok01.tib.uni-hannover.de/edoks/e01dh09/609861891.pdf"}],"date_published":"2009-08-13T00:00:00Z","date_created":"2018-12-11T12:03:07Z","status":"public","date_updated":"2021-01-12T07:43:13Z","title":"Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus fumigatus","page":"1 - 72","day":"13","abstract":[{"text":"Invasive fungal infections pose a serious threat to immunocompromised people. Most of these infections are caused by either Candida or Aspergillus species, with A. fumigatus being the predominant causative agent of Invasive Aspergillosis. Affected people comprise mainly haematopoietic stem cell or solid organ transplant patients who receive either high-dose corticosteroids or immunosuppressants. These risk factors predispose to the development of Invasive\nAspergillosis which is lethal in 20 to 80 % of the cases, largely due to insufficient efficacy of current antifungal therapy. Thus one major aim in current mycological research is the identification of new drug targets.\nThe polysaccharide-based fungal cell wall is both essential to fungi and absent from human cells which makes it appear an attractive new target. Notably, many components of the A. fumigatus cell wall, including the polysaccharide galactomannan, glycoproteins, and glycolipids, contain the unusual sugar galactofuranose (Galf). In contrast to the other cell wall monosaccharides, Galf does not occur on human cells but is known as component of cell surface molecules of many pathogenic bacteria and protozoa, such as Mycobacterium tuberculosis or Leishmania major. These molecules are often essential for virulence or viability of these organisms which suggested a possible role of Galf in the pathogenicity of A. fumigatus.\nTo address the importance of Galf in A. fumigatus, the key biosynthesis gene glfA, encoding UDPgalactopyranose mutase (UGM), was deleted. In different experimental approaches it was demonstrated that the absence of the glfA gene led to a complete loss of Galf-containing glycans.\nAnalysis of the DeltaglfA phenotype revealed growth and sporulation defects, reduced thermotolerance and an increased susceptibility to antifungal drugs. Electron Microscopy indicated a cell wall defect as a likely cause for the observed impairments. Furthermore, the virulence of the DeltaglfA mutant was found to be severely attenuated in a murine model of Invasive Aspergillosis.\nThe second focus of this study was laid on further elucidation of the galactofuranosylation pathway in A. fumigatus. In eukaryotes, a UDP-Galf transporter is likely required to transport UDP-Galf from the\ncytosol into the organelles of the secretory pathway, but no such activity had been described. Sixteen candidate genes were identified in the A. fumigatus genome of which one, glfB, was found in close proximity to the glfA gene. In vitro transport assays revealed specificity of GlfB for UDP-Galf suggesting that glfB encoded indeed a UDP-Galf transporter. The influence of glfB on\ngalactofuranosylation was determined by a DeltaglfB deletion mutant, which closely recapitulated the DeltaglfA phenotype and was likewise found to be completely devoid of Galf. It could be concluded that all galactofuranosylation processes in A. fumigatus occur in the secretory pathway, including the biosynthesis of the cell wall polysaccharide galactomannan whose subcellular origin was previously disputed.\n\nThus in the course of this study the first UDP-Galf specific nucleotide sugar transporter was identified and its requirement for galactofuranosylation in A. fumigatus demonstrated. Moreover, it was shown that blocking the galactofuranosylation pathway impaired virulence of A. fumigatus which suggests the UDP-Galf biosynthesis enzyme UGM as a target for new antifungal drugs.","lang":"eng"}],"type":"dissertation","month":"08","year":"2009","citation":{"apa":"Schmalhorst, P. S. (2009). <i>Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus fumigatus</i>. Gottfried Wilhelm Leibniz Universität Hannover.","ama":"Schmalhorst PS. Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus fumigatus. 2009:1-72.","short":"P.S. Schmalhorst, Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus Fumigatus, Gottfried Wilhelm Leibniz Universität Hannover, 2009.","mla":"Schmalhorst, Philipp S. <i>Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus Fumigatus</i>. Gottfried Wilhelm Leibniz Universität Hannover, 2009, pp. 1–72.","ieee":"P. S. Schmalhorst, “Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus fumigatus,” Gottfried Wilhelm Leibniz Universität Hannover, 2009.","ista":"Schmalhorst PS. 2009. Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus fumigatus. Gottfried Wilhelm Leibniz Universität Hannover.","chicago":"Schmalhorst, Philipp S. “Biosynthesis of Galactofuranose Containing Glycans and Their Relevance for the Pathogenic Fungus Aspergillus Fumigatus.” Gottfried Wilhelm Leibniz Universität Hannover, 2009."}},{"publication_status":"published","author":[{"first_name":"Piotr","last_name":"Szymczak","full_name":"Szymczak, Piotr"},{"first_name":"Harald L","last_name":"Janovjak","full_name":"Harald Janovjak","orcid":"0000-0002-8023-9315","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87"}],"publist_id":"2994","doi":"10.1016/j.jmb.2009.04.071","publisher":"Elsevier","extern":1,"intvolume":"       390","quality_controlled":0,"_id":"3408","status":"public","date_updated":"2021-01-12T07:43:16Z","issue":"3","date_created":"2018-12-11T12:03:10Z","date_published":"2009-07-17T00:00:00Z","abstract":[{"lang":"eng","text":"Mechanical forces govern physiological processes in all living organisms. Many cellular forces, for example, those generated in cyclic conformational changes of biological machines, have repetitive components. In apparent contrast, little is known about how dynamic protein structures respond to periodic mechanical information. Ubiquitin is a small protein found in all eukaryotes. We developed molecular dynamics simulations to unfold single and multimeric ubiquitins with periodic forces. By using a coarse-grained representation, we were able to model forces with periods about 2 orders of magnitude longer than the protein's relaxation time. We found that even a moderate periodic force weakened the protein and shifted its unfolding pathways in a frequency- and amplitude-dependent manner. A complex dynamic response with secondary structure refolding and an increasing importance of local interactions was revealed. Importantly, repetitive forces with broadly distributed frequencies elicited very similar molecular responses compared to fixed-frequency forces. When testing the influence of pulling geometry on ubiquitin's mechanical stability, it was found that the linkage involved in the mechanical degradation of cellular proteins renders the protein remarkably insensitive to periodic forces. We also devised a complementary kinetic energy landscape model that traces these observations and explains periodic-force, single-molecule measurements. In turn, this analytical model is capable of predicting dynamic protein responses. These results provide new insights into ubiquitin mechanics and a potential mechanical role during protein degradation, as well as first frameworks for dynamic protein stability and the modeling of repetitive mechanical processes."}],"day":"17","page":"443 - 456","title":"Periodic forces trigger a complex mechanical response in ubiquitin","publication":"Journal of Molecular Biology","year":"2009","volume":390,"month":"07","type":"journal_article","citation":{"chicago":"Szymczak, Piotr, and Harald L Janovjak. “Periodic Forces Trigger a Complex Mechanical Response in Ubiquitin.” <i>Journal of Molecular Biology</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.jmb.2009.04.071\">https://doi.org/10.1016/j.jmb.2009.04.071</a>.","ista":"Szymczak P, Janovjak HL. 2009. Periodic forces trigger a complex mechanical response in ubiquitin. Journal of Molecular Biology. 390(3), 443–456.","short":"P. Szymczak, H.L. Janovjak, Journal of Molecular Biology 390 (2009) 443–456.","mla":"Szymczak, Piotr, and Harald L. Janovjak. “Periodic Forces Trigger a Complex Mechanical Response in Ubiquitin.” <i>Journal of Molecular Biology</i>, vol. 390, no. 3, Elsevier, 2009, pp. 443–56, doi:<a href=\"https://doi.org/10.1016/j.jmb.2009.04.071\">10.1016/j.jmb.2009.04.071</a>.","ieee":"P. Szymczak and H. L. Janovjak, “Periodic forces trigger a complex mechanical response in ubiquitin,” <i>Journal of Molecular Biology</i>, vol. 390, no. 3. Elsevier, pp. 443–456, 2009.","ama":"Szymczak P, Janovjak HL. Periodic forces trigger a complex mechanical response in ubiquitin. <i>Journal of Molecular Biology</i>. 2009;390(3):443-456. doi:<a href=\"https://doi.org/10.1016/j.jmb.2009.04.071\">10.1016/j.jmb.2009.04.071</a>","apa":"Szymczak, P., &#38; Janovjak, H. L. (2009). Periodic forces trigger a complex mechanical response in ubiquitin. <i>Journal of Molecular Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jmb.2009.04.071\">https://doi.org/10.1016/j.jmb.2009.04.071</a>"}},{"publication_status":"published","author":[{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Mark Tobias","last_name":"Bollenbach","first_name":"Mark Tobias"},{"last_name":"Kishony","first_name":"Roy","full_name":"Kishony, Roy"}],"doi":"10.1016/j.molcel.2009.11.027","publist_id":"2972","publisher":"Cell Press","intvolume":"        36","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","_id":"3428","date_updated":"2021-01-12T07:43:24Z","status":"public","date_published":"2009-12-11T00:00:00Z","issue":"5","date_created":"2018-12-11T12:03:17Z","day":"11","abstract":[{"lang":"eng","text":"In this issue of Molecular Cell, Davies et al. (2009) work out a sequence of active cellular events that lead to the death of Escherichia coli in the presence of the drug hydroxyurea."}],"title":"Hydroxyurea triggers cellular responses that actively cause bacterial cell death","publication":"Molecular Cell","page":"728 - 729","year":"2009","volume":36,"type":"journal_article","month":"12","language":[{"iso":"eng"}],"oa_version":"None","citation":{"short":"M.T. Bollenbach, R. Kishony, Molecular Cell 36 (2009) 728–729.","mla":"Bollenbach, Mark Tobias, and Roy Kishony. “Hydroxyurea Triggers Cellular Responses That Actively Cause Bacterial Cell Death.” <i>Molecular Cell</i>, vol. 36, no. 5, Cell Press, 2009, pp. 728–29, doi:<a href=\"https://doi.org/10.1016/j.molcel.2009.11.027\">10.1016/j.molcel.2009.11.027</a>.","ieee":"M. T. Bollenbach and R. Kishony, “Hydroxyurea triggers cellular responses that actively cause bacterial cell death,” <i>Molecular Cell</i>, vol. 36, no. 5. Cell Press, pp. 728–729, 2009.","apa":"Bollenbach, M. T., &#38; Kishony, R. (2009). Hydroxyurea triggers cellular responses that actively cause bacterial cell death. <i>Molecular Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.molcel.2009.11.027\">https://doi.org/10.1016/j.molcel.2009.11.027</a>","ama":"Bollenbach MT, Kishony R. Hydroxyurea triggers cellular responses that actively cause bacterial cell death. <i>Molecular Cell</i>. 2009;36(5):728-729. doi:<a href=\"https://doi.org/10.1016/j.molcel.2009.11.027\">10.1016/j.molcel.2009.11.027</a>","chicago":"Bollenbach, Mark Tobias, and Roy Kishony. “Hydroxyurea Triggers Cellular Responses That Actively Cause Bacterial Cell Death.” <i>Molecular Cell</i>. Cell Press, 2009. <a href=\"https://doi.org/10.1016/j.molcel.2009.11.027\">https://doi.org/10.1016/j.molcel.2009.11.027</a>.","ista":"Bollenbach MT, Kishony R. 2009. Hydroxyurea triggers cellular responses that actively cause bacterial cell death. Molecular Cell. 36(5), 728–729."}},{"oa":1,"author":[{"first_name":"Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Krishnendu Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Thomas A","last_name":"Henzinger","full_name":"Thomas Henzinger","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"}],"publication_status":"published","publisher":"Springer","alternative_title":["LNCS"],"publist_id":"2884","doi":"10.1007/978-3-642-03092-5_4","_id":"3503","quality_controlled":0,"extern":1,"intvolume":"      5489","date_created":"2018-12-11T12:03:40Z","main_file_link":[{"url":"http://arxiv.org/abs/0809.1465","open_access":"1"}],"date_published":"2009-12-15T00:00:00Z","status":"public","date_updated":"2021-01-12T07:43:54Z","page":"32 - 45","conference":{"name":"ILC: Infinity in Logic and Computation"},"title":"Probabilistic systems with limsup and liminf objectives","abstract":[{"text":"We give polynomial-time algorithms for computing the values of Markov decision processes (MDPs) with limsup and liminf objectives. A real-valued reward is assigned to each state, and the value of an infinite path in the MDP is the limsup (resp. liminf) of all rewards along the path. The value of an MDP is the maximal expected value of an infinite path that can be achieved by resolving the decisions of the MDP. Using our result on MDPs, we show that turn-based stochastic games with limsup and liminf objectives can be solved in NP ∩ coNP. ","lang":"eng"}],"day":"15","month":"12","type":"conference","year":"2009","volume":5489,"citation":{"short":"K. Chatterjee, T.A. Henzinger, in:, Springer, 2009, pp. 32–45.","ieee":"K. Chatterjee and T. A. Henzinger, “Probabilistic systems with limsup and liminf objectives,” presented at the ILC: Infinity in Logic and Computation, 2009, vol. 5489, pp. 32–45.","mla":"Chatterjee, Krishnendu, and Thomas A. Henzinger. <i>Probabilistic Systems with Limsup and Liminf Objectives</i>. Vol. 5489, Springer, 2009, pp. 32–45, doi:<a href=\"https://doi.org/10.1007/978-3-642-03092-5_4\">10.1007/978-3-642-03092-5_4</a>.","ama":"Chatterjee K, Henzinger TA. Probabilistic systems with limsup and liminf objectives. In: Vol 5489. Springer; 2009:32-45. doi:<a href=\"https://doi.org/10.1007/978-3-642-03092-5_4\">10.1007/978-3-642-03092-5_4</a>","apa":"Chatterjee, K., &#38; Henzinger, T. A. (2009). Probabilistic systems with limsup and liminf objectives (Vol. 5489, pp. 32–45). Presented at the ILC: Infinity in Logic and Computation, Springer. <a href=\"https://doi.org/10.1007/978-3-642-03092-5_4\">https://doi.org/10.1007/978-3-642-03092-5_4</a>","chicago":"Chatterjee, Krishnendu, and Thomas A Henzinger. “Probabilistic Systems with Limsup and Liminf Objectives,” 5489:32–45. Springer, 2009. <a href=\"https://doi.org/10.1007/978-3-642-03092-5_4\">https://doi.org/10.1007/978-3-642-03092-5_4</a>.","ista":"Chatterjee K, Henzinger TA. 2009. Probabilistic systems with limsup and liminf objectives. ILC: Infinity in Logic and Computation, LNCS, vol. 5489, 32–45."}},{"issue":"6","date_created":"2018-12-11T12:03:54Z","date_published":"2009-03-26T00:00:00Z","date_updated":"2021-01-12T07:44:13Z","status":"public","page":"906 - 916","title":"Activity-dependent control of neuronal output by local and global dendritic spike attenuation","publication":"Neuron","abstract":[{"lang":"eng","text":"Neurons possess elaborate dendritic arbors which receive and integrate excitatory synaptic signals. Individual dendritic subbranches exhibit local membrane potential supralinearities, termed dendritic spikes, which control transfer of local synaptic input to the soma. Here, we show that dendritic spikes in CA1 pyramidal cells are strongly regulated by specific types of prior input. While input in the linear range is without effect, supralinear input inhibits subsequent spikes, causing them to attenuate and ultimately fail due to dendritic Na+ channel inactivation. This mechanism acts locally within the boundaries of the input branch. If an input is sufficiently strong to trigger axonal action potentials, their back-propagation into the dendritic tree causes a widespread global reduction in dendritic excitability which is prominent after firing patterns occurring in vivo. Together, these mechanisms control the capability of individual dendritic branches to trigger somatic action potential output. They are invoked at frequencies encountered during learning, and impose limits on the storage and retrieval rates of information encoded as branch excitability."}],"day":"26","month":"03","type":"journal_article","year":"2009","volume":61,"citation":{"ama":"Remy S, Csicsvari JL, Beck H. Activity-dependent control of neuronal output by local and global dendritic spike attenuation. <i>Neuron</i>. 2009;61(6):906-916. doi:<a href=\"https://doi.org/10.1016/j.neuron.2009.01.032\">10.1016/j.neuron.2009.01.032</a>","apa":"Remy, S., Csicsvari, J. L., &#38; Beck, H. (2009). Activity-dependent control of neuronal output by local and global dendritic spike attenuation. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2009.01.032\">https://doi.org/10.1016/j.neuron.2009.01.032</a>","short":"S. Remy, J.L. Csicsvari, H. Beck, Neuron 61 (2009) 906–916.","ieee":"S. Remy, J. L. Csicsvari, and H. Beck, “Activity-dependent control of neuronal output by local and global dendritic spike attenuation,” <i>Neuron</i>, vol. 61, no. 6. Elsevier, pp. 906–916, 2009.","mla":"Remy, Stefan, et al. “Activity-Dependent Control of Neuronal Output by Local and Global Dendritic Spike Attenuation.” <i>Neuron</i>, vol. 61, no. 6, Elsevier, 2009, pp. 906–16, doi:<a href=\"https://doi.org/10.1016/j.neuron.2009.01.032\">10.1016/j.neuron.2009.01.032</a>.","ista":"Remy S, Csicsvari JL, Beck H. 2009. Activity-dependent control of neuronal output by local and global dendritic spike attenuation. Neuron. 61(6), 906–916.","chicago":"Remy, Stefan, Jozsef L Csicsvari, and Heinz Beck. “Activity-Dependent Control of Neuronal Output by Local and Global Dendritic Spike Attenuation.” <i>Neuron</i>. Elsevier, 2009. <a href=\"https://doi.org/10.1016/j.neuron.2009.01.032\">https://doi.org/10.1016/j.neuron.2009.01.032</a>."},"author":[{"last_name":"Remy","first_name":"Stefan","full_name":"Remy,Stefan"},{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036","full_name":"Jozsef Csicsvari","last_name":"Csicsvari","first_name":"Jozsef L"},{"full_name":"Beck,Heinz","last_name":"Beck","first_name":"Heinz"}],"publication_status":"published","publisher":"Elsevier","publist_id":"2838","doi":"10.1016/j.neuron.2009.01.032","_id":"3547","quality_controlled":0,"extern":1,"intvolume":"        61"},{"status":"public","date_updated":"2021-01-12T07:44:25Z","date_created":"2018-12-11T12:04:03Z","main_file_link":[{"url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.103.9122","open_access":"0"}],"date_published":"2009-06-22T00:00:00Z","abstract":[{"lang":"eng","text":"The medial axis of a geometric shape captures its connectivity. In spite of its inherent instability, it has found applications in a number of areas that deal with shapes. In this survey paper, we focus on results that shed light on this instability and use the new insights to generate simplified and stable modifications of the medial axis."}],"day":"22","page":"109 - 125","publication":"Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration","title":"Stability and computation of medial axes: a state-of-the-art report","year":"2009","month":"06","type":"book_chapter","citation":{"apa":"Attali, D., Boissonnat, J., &#38; Edelsbrunner, H. (2009). Stability and computation of medial axes: a state-of-the-art report. In <i>Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration</i> (pp. 109–125). Springer. <a href=\"https://doi.org/10.1007/b106657_6\">https://doi.org/10.1007/b106657_6</a>","ama":"Attali D, Boissonnat J, Edelsbrunner H. Stability and computation of medial axes: a state-of-the-art report. In: <i>Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration</i>. Springer; 2009:109-125. doi:<a href=\"https://doi.org/10.1007/b106657_6\">10.1007/b106657_6</a>","mla":"Attali, Dominique, et al. “Stability and Computation of Medial Axes: A State-of-the-Art Report.” <i>Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration</i>, Springer, 2009, pp. 109–25, doi:<a href=\"https://doi.org/10.1007/b106657_6\">10.1007/b106657_6</a>.","ieee":"D. Attali, J. Boissonnat, and H. Edelsbrunner, “Stability and computation of medial axes: a state-of-the-art report,” in <i>Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration</i>, Springer, 2009, pp. 109–125.","short":"D. Attali, J. Boissonnat, H. Edelsbrunner, in:, Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration, Springer, 2009, pp. 109–125.","ista":"Attali D, Boissonnat J, Edelsbrunner H. 2009.Stability and computation of medial axes: a state-of-the-art report. In: Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration. Mathematics and Visualization, , 109–125.","chicago":"Attali, Dominique, Jean Boissonnat, and Herbert Edelsbrunner. “Stability and Computation of Medial Axes: A State-of-the-Art Report.” In <i>Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration</i>, 109–25. Springer, 2009. <a href=\"https://doi.org/10.1007/b106657_6\">https://doi.org/10.1007/b106657_6</a>."},"author":[{"full_name":"Attali, Dominique","first_name":"Dominique","last_name":"Attali"},{"full_name":"Boissonnat, Jean-Daniel","last_name":"Boissonnat","first_name":"Jean"},{"first_name":"Herbert","last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833","full_name":"Herbert Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"}],"publication_status":"published","publist_id":"2807","doi":"10.1007/b106657_6","publisher":"Springer","alternative_title":["Mathematics and Visualization"],"extern":1,"quality_controlled":0,"_id":"3578"},{"publisher":"Cold Spring Harbor Laboratory Press","publist_id":"2708","doi":"10.1101/sqb.2009.74.030","publication_status":"published","author":[{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"NiBa"}],"quality_controlled":"1","_id":"3675","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Royal Society and the Engineering and Physical Sciences for support (GR/ T11753/01)","intvolume":"        74","page":"187 - 195","publication":"Cold Spring Harbor Symposia on Quantitative Biology","title":"Why sex and recombination? ","abstract":[{"text":"Sex and recombination have long been seen as adaptations that facilitate natural selection by generating favorable variations. If recombination is to aid selection, there must be negative linkage disequilibria—favorable alleles must be found together less often than expected by chance. These negative linkage disequilibria can be generated directly by selection, but this must involve negative epistasis of just the right strength, which is not expected, from either experiment or theory. Random drift provides a more general source of negative associations: Favorable mutations almost always arise on different genomes, and negative associations tend to persist, precisely because they shield variation from selection.\r\n\r\nWe can understand how recombination aids adaptation by determining the maximum possible rate of adaptation. With unlinked loci, this rate increases only logarithmically with the influx of favorable mutations. With a linear genome, a scaling argument shows that in a large population, the rate of adaptive substitution depends only on the expected rate in the absence of interference, divided by the total rate of recombination. A two-locus approximation predicts an upper bound on the rate of substitution, proportional to recombination rate.\r\n\r\nIf associations between linked loci do impede adaptation, there can be substantial selection for modifiers that increase recombination. Whether this can account for the maintenance of high rates of sex and recombination depends on the extent of selection. It is clear that the rate of species-wide substitutions is typically far too low to generate appreciable selection for recombination. However, local sweeps within a subdivided population may be effective.","lang":"eng"}],"day":"10","date_created":"2018-12-11T12:04:33Z","date_published":"2009-11-10T00:00:00Z","status":"public","date_updated":"2021-01-12T07:45:04Z","oa_version":"None","citation":{"chicago":"Barton, Nicholas H. “Why Sex and Recombination? .” In <i>Cold Spring Harbor Symposia on Quantitative Biology</i>, 74:187–95. Cold Spring Harbor Laboratory Press, 2009. <a href=\"https://doi.org/10.1101/sqb.2009.74.030\">https://doi.org/10.1101/sqb.2009.74.030</a>.","ista":"Barton NH. 2009.Why sex and recombination? . In: Cold Spring Harbor Symposia on Quantitative Biology. vol. 74, 187–195.","ieee":"N. H. Barton, “Why sex and recombination? ,” in <i>Cold Spring Harbor Symposia on Quantitative Biology</i>, vol. 74, Cold Spring Harbor Laboratory Press, 2009, pp. 187–195.","mla":"Barton, Nicholas H. “Why Sex and Recombination? .” <i>Cold Spring Harbor Symposia on Quantitative Biology</i>, vol. 74, Cold Spring Harbor Laboratory Press, 2009, pp. 187–95, doi:<a href=\"https://doi.org/10.1101/sqb.2009.74.030\">10.1101/sqb.2009.74.030</a>.","short":"N.H. Barton, in:, Cold Spring Harbor Symposia on Quantitative Biology, Cold Spring Harbor Laboratory Press, 2009, pp. 187–195.","ama":"Barton NH. Why sex and recombination? . In: <i>Cold Spring Harbor Symposia on Quantitative Biology</i>. Vol 74. Cold Spring Harbor Laboratory Press; 2009:187-195. doi:<a href=\"https://doi.org/10.1101/sqb.2009.74.030\">10.1101/sqb.2009.74.030</a>","apa":"Barton, N. H. (2009). Why sex and recombination? . In <i>Cold Spring Harbor Symposia on Quantitative Biology</i> (Vol. 74, pp. 187–195). Cold Spring Harbor Laboratory Press. <a href=\"https://doi.org/10.1101/sqb.2009.74.030\">https://doi.org/10.1101/sqb.2009.74.030</a>"},"language":[{"iso":"eng"}],"month":"11","type":"book_chapter","year":"2009","volume":74,"scopus_import":1},{"publisher":"IEEE","doi":"10.1109/CVPRW.2009.5204237","publist_id":"2675","publication_status":"published","author":[{"first_name":"Paramveer","last_name":"Dhillon","full_name":"Dhillon, Paramveer S"},{"first_name":"Sebastian","last_name":"Nowozin","full_name":"Nowozin, Sebastian"},{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Christoph Lampert","orcid":"0000-0001-8622-7887","last_name":"Lampert","first_name":"Christoph"}],"quality_controlled":0,"_id":"3690","extern":1,"title":"Combining appearance and motion for human action classification in videos","conference":{"name":"CVPR: Computer Vision and Pattern Recognition"},"page":"22 - 29","day":"01","abstract":[{"lang":"eng","text":"An important cue to high level scene understanding is to analyze the objects in the scene and their behavior and interactions. In this paper, we study the problem of classification of activities in videos, as this is an integral component of any scene understanding system, and present a novel approach for recognizing human action categories in videos by combining information from appearance and motion of human body parts. Our approach is based on tracking human body parts by using mixture particle filters and then clustering the particles using local non - parametric clustering, hence associating a local set of particles to each cluster mode. The trajectory of these cluster modes provides the &quot;motion&quot; information and the &quot;appearance&quot; information is provided by the statistical information about the relative motion of these local set of particles over a number of frames. Later we use a &quot;Bag of Words&quot; model to build one histogram per video sequence from the set of these robust appearance and motion descriptors. These histograms provide us characteristic information which helps us to discriminate among various human actions which ultimately helps us in better understanding of the complete scene. We tested our approach on the standard KTH and Weizmann human action dataseis and the results were comparable to the state of the art methods. Additionally our approach is able to distinguish between activities that involve the motion of complete body from those in which only certain body parts move. In other words, our method discriminates well between activities with &quot;global body motion&quot; like running, jogging etc. and &quot;local motion&quot; like waving, boxing etc."}],"date_published":"2009-01-01T00:00:00Z","issue":"174","date_created":"2018-12-11T12:04:38Z","status":"public","date_updated":"2021-01-12T07:48:59Z","citation":{"mla":"Dhillon, Paramveer, et al. <i>Combining Appearance and Motion for Human Action Classification in Videos</i>. no. 174, IEEE, 2009, pp. 22–29, doi:<a href=\"https://doi.org/10.1109/CVPRW.2009.5204237\">10.1109/CVPRW.2009.5204237</a>.","ieee":"P. Dhillon, S. Nowozin, and C. Lampert, “Combining appearance and motion for human action classification in videos,” presented at the CVPR: Computer Vision and Pattern Recognition, 2009, no. 174, pp. 22–29.","short":"P. Dhillon, S. Nowozin, C. Lampert, in:, IEEE, 2009, pp. 22–29.","ama":"Dhillon P, Nowozin S, Lampert C. Combining appearance and motion for human action classification in videos. In: IEEE; 2009:22-29. doi:<a href=\"https://doi.org/10.1109/CVPRW.2009.5204237\">10.1109/CVPRW.2009.5204237</a>","apa":"Dhillon, P., Nowozin, S., &#38; Lampert, C. (2009). Combining appearance and motion for human action classification in videos (pp. 22–29). Presented at the CVPR: Computer Vision and Pattern Recognition, IEEE. <a href=\"https://doi.org/10.1109/CVPRW.2009.5204237\">https://doi.org/10.1109/CVPRW.2009.5204237</a>","chicago":"Dhillon, Paramveer, Sebastian Nowozin, and Christoph Lampert. “Combining Appearance and Motion for Human Action Classification in Videos,” 22–29. IEEE, 2009. <a href=\"https://doi.org/10.1109/CVPRW.2009.5204237\">https://doi.org/10.1109/CVPRW.2009.5204237</a>.","ista":"Dhillon P, Nowozin S, Lampert C. 2009. Combining appearance and motion for human action classification in videos. CVPR: Computer Vision and Pattern Recognition, 22–29."},"type":"conference","month":"01","year":"2009"},{"extern":1,"intvolume":"        77","_id":"3696","quality_controlled":0,"author":[{"orcid":"0000-0001-8622-7887","full_name":"Christoph Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","last_name":"Lampert"},{"full_name":"Blaschko,Matthew B","last_name":"Blaschko","first_name":"Matthew"}],"publication_status":"published","publist_id":"2663","doi":"10.1007/s10994-009-5111-0","publisher":"Springer","volume":77,"year":"2009","month":"04","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"citation":{"apa":"Lampert, C., &#38; Blaschko, M. (2009). Structured prediction by joint kernel support estimation. <i>Machine Learning</i>. Springer. <a href=\"https://doi.org/10.1007/s10994-009-5111-0\">https://doi.org/10.1007/s10994-009-5111-0</a>","ama":"Lampert C, Blaschko M. Structured prediction by joint kernel support estimation. <i>Machine Learning</i>. 2009;77(2-3):249-269. doi:<a href=\"https://doi.org/10.1007/s10994-009-5111-0\">10.1007/s10994-009-5111-0</a>","short":"C. Lampert, M. Blaschko, Machine Learning 77 (2009) 249–269.","mla":"Lampert, Christoph, and Matthew Blaschko. “Structured Prediction by Joint Kernel Support Estimation.” <i>Machine Learning</i>, vol. 77, no. 2–3, Springer, 2009, pp. 249–69, doi:<a href=\"https://doi.org/10.1007/s10994-009-5111-0\">10.1007/s10994-009-5111-0</a>.","ieee":"C. Lampert and M. Blaschko, “Structured prediction by joint kernel support estimation,” <i>Machine Learning</i>, vol. 77, no. 2–3. Springer, pp. 249–269, 2009.","ista":"Lampert C, Blaschko M. 2009. Structured prediction by joint kernel support estimation. Machine Learning. 77(2–3), 249–269.","chicago":"Lampert, Christoph, and Matthew Blaschko. “Structured Prediction by Joint Kernel Support Estimation.” <i>Machine Learning</i>. Springer, 2009. <a href=\"https://doi.org/10.1007/s10994-009-5111-0\">https://doi.org/10.1007/s10994-009-5111-0</a>."},"date_updated":"2021-01-12T07:49:01Z","status":"public","issue":"2-3","date_created":"2018-12-11T12:04:40Z","date_published":"2009-04-07T00:00:00Z","abstract":[{"lang":"eng","text":"Discriminative techniques, such as conditional random fields (CRFs) or structure aware maximum-margin techniques (maximum margin Markov networks (M3N), structured output support vector machines (S-SVM)), are state-of-the-art in the prediction of structured data. However, to achieve good results these techniques require complete and reliable ground truth, which is not always available in realistic problems. Furthermore, training either CRFs or margin-based techniques is computationally costly, because the runtime of current training methods depends not only on the size of the training set but also on properties of the output space to which the training samples are assigned. We propose an alternative model for structured output prediction, Joint Kernel Support Estimation (JKSE), which is rather generative in nature as it relies on estimating the joint probability density of samples and labels in the training set. This makes it tolerant against incomplete or incorrect labels and also opens the possibility of learning in situations where more than one output label can be considered correct. At the same time, we avoid typical problems of generative models as we do not attempt to learn the full joint probability distribution, but we model only its support in a joint reproducing kernel Hilbert space. As a consequence, JKSE training is possible by an adaption of the classical one-class SVM procedure. The resulting optimization problem is convex and efficiently solvable even with tens of thousands of training examples. A particular advantage of JKSE is that the training speed depends only on the size of the training set, and not on the total size of the label space. No inference step during training is required (as M3N and S-SVM would) nor do we have calculate a partition function (as CRFs do). Experiments on realistic data show that, for suitable kernel functions, our method works efficiently and robustly in situations that discriminative techniques have problems with or that are computationally infeasible for them."}],"day":"07","page":"249 - 269","publication":"Machine Learning","title":"Structured prediction by joint kernel support estimation"},{"citation":{"chicago":"Blaschko, Matthew, Christoph Lampert, and Andreas Bartels. <i>Semi-Supervised Analysis of Human FMRI Data</i>. <i>BBCI: Berlin Brain-Computer Interface Workshop - Advances in Neurotechnology</i>. Berlin Institute of Technology, 2009.","ista":"Blaschko M, Lampert C, Bartels A. 2009. Semi-supervised analysis of human fMRI data, Berlin Institute of Technology,p.","short":"M. Blaschko, C. Lampert, A. Bartels, Semi-Supervised Analysis of Human FMRI Data, Berlin Institute of Technology, 2009.","ieee":"M. Blaschko, C. Lampert, and A. Bartels, <i>Semi-supervised analysis of human fMRI data</i>. Berlin Institute of Technology, 2009.","mla":"Blaschko, Matthew, et al. “Semi-Supervised Analysis of Human FMRI Data.” <i>BBCI: Berlin Brain-Computer Interface Workshop - Advances in Neurotechnology</i>, Berlin Institute of Technology, 2009.","ama":"Blaschko M, Lampert C, Bartels A. <i>Semi-Supervised Analysis of Human FMRI Data</i>. Berlin Institute of Technology; 2009.","apa":"Blaschko, M., Lampert, C., &#38; Bartels, A. (2009). <i>Semi-supervised analysis of human fMRI data</i>. <i>BBCI: Berlin Brain-Computer Interface Workshop - Advances in Neurotechnology</i>. Berlin Institute of Technology."},"type":"conference_poster","month":"07","year":"2009","title":"Semi-supervised analysis of human fMRI data","publication":"BBCI: Berlin Brain-Computer Interface Workshop - Advances in Neurotechnology","day":"10","abstract":[{"lang":"eng","text":"Kernel Canonical Correlation Analysis (KCCA) is a general technique for subspace learning that incorporates principal components analysis (PCA) and Fisher linear discriminant analysis (LDA) as special cases. By finding directions that maximize correlation, CCA learns representations tied more closely to underlying process generating the the data and can ignore high-variance noise directions. However, for data where acquisition in a given modality is expensive or otherwise limited, CCA may suffer from small sample effects. We propose to use semisupervised Laplacian regularization to utilize data that are present in only one modality. This approach is able to find highly correlated directions that also lie along the data manifold, resulting in a more robust estimate of correlated subspaces. Functional magnetic resonance imaging (fMRI) acquired data are naturally amenable to subspace techniques as data are well aligned. fMRI data of the human brain are a particularly interesting candidate. In this study we implemented various supervised and semi-supervised versions of CCA on human fMRI data, with regression to single and multivariate labels (corresponding to video content subjects viewed during the image acquisition). In each variate condition, the semi-supervised variants of CCA performed better than the supervised variants, including a supervised variant with Laplacian regularization. We additionally analyze the weights learned by the regression in order to infer brain regions that are important to different types of visual processing."}],"main_file_link":[{"url":"http://pubman.mpdl.mpg.de/pubman/faces/viewItemOverviewPage.jsp?itemId=escidoc:1789281","open_access":"0"}],"date_published":"2009-07-10T00:00:00Z","date_created":"2018-12-11T12:04:41Z","date_updated":"2019-04-26T07:22:33Z","status":"public","quality_controlled":0,"_id":"3699","extern":1,"publisher":"Berlin Institute of Technology","publist_id":"2661","publication_status":"published","author":[{"full_name":"Blaschko,Matthew B","first_name":"Matthew","last_name":"Blaschko"},{"last_name":"Lampert","first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Christoph Lampert","orcid":"0000-0001-8622-7887"},{"full_name":"Bartels, Andreas","last_name":"Bartels","first_name":"Andreas"}]}]