[{"publisher":"Nature Publishing Group","abstract":[{"lang":"eng","text":"Plant biology is currently confronted with an overflow of expression profile data provided by high-throughput microarray transcription analyses. However, the tissue and cellular resolution of these techniques is limited. Thus, it is still necessary to examine the expression pattern of selected candidate genes at a cellular level. Here we present an in situ mRNA hybridization method that is routinely used in the analysis of gene expression patterns. The protocol is optimized for mRNA localizations in sectioned tissue of Arabidopsis seedlings including embryos, roots, hypocotyls, young primary leaves and flowers. The detailed protocol, recommended controls and troubleshooting are presented along with examples of application. The total time for the process is 10 days."}],"year":"2006","extern":1,"page":"1462 - 1467","citation":{"chicago":"Brewer, Philip, Marcus Heisler, Jan Hejátko, Jiří Friml, and Eva Benková. “In Situ Hybridization for MRNA Detection in Arabidopsis Tissue Sections.” <i>Nature Protocols</i>. Nature Publishing Group, 2006. <a href=\"https://doi.org/10.1038/nprot.2006.226\">https://doi.org/10.1038/nprot.2006.226</a>.","short":"P. Brewer, M. Heisler, J. Hejátko, J. Friml, E. Benková, Nature Protocols 1 (2006) 1462–1467.","ista":"Brewer P, Heisler M, Hejátko J, Friml J, Benková E. 2006. In situ hybridization for mRNA detection in Arabidopsis tissue sections. Nature Protocols. 1(3), 1462–1467.","apa":"Brewer, P., Heisler, M., Hejátko, J., Friml, J., &#38; Benková, E. (2006). In situ hybridization for mRNA detection in Arabidopsis tissue sections. <i>Nature Protocols</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nprot.2006.226\">https://doi.org/10.1038/nprot.2006.226</a>","mla":"Brewer, Philip, et al. “In Situ Hybridization for MRNA Detection in Arabidopsis Tissue Sections.” <i>Nature Protocols</i>, vol. 1, no. 3, Nature Publishing Group, 2006, pp. 1462–67, doi:<a href=\"https://doi.org/10.1038/nprot.2006.226\">10.1038/nprot.2006.226</a>.","ieee":"P. Brewer, M. Heisler, J. Hejátko, J. Friml, and E. Benková, “In situ hybridization for mRNA detection in Arabidopsis tissue sections,” <i>Nature Protocols</i>, vol. 1, no. 3. Nature Publishing Group, pp. 1462–1467, 2006.","ama":"Brewer P, Heisler M, Hejátko J, Friml J, Benková E. In situ hybridization for mRNA detection in Arabidopsis tissue sections. <i>Nature Protocols</i>. 2006;1(3):1462-1467. doi:<a href=\"https://doi.org/10.1038/nprot.2006.226\">10.1038/nprot.2006.226</a>"},"publication":"Nature Protocols","_id":"3014","date_published":"2006-08-01T00:00:00Z","quality_controlled":0,"status":"public","publist_id":"3687","date_updated":"2021-01-12T07:40:28Z","author":[{"last_name":"Brewer","first_name":"Philip","full_name":"Brewer, Philip B"},{"full_name":"Heisler, Marcus G","first_name":"Marcus","last_name":"Heisler"},{"last_name":"Hejátko","first_name":"Jan","full_name":"Hejátko, Jan"},{"last_name":"Friml","first_name":"Jirí","full_name":"Jirí Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Eva Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","first_name":"Eva"}],"volume":1,"type":"journal_article","publication_status":"published","intvolume":"         1","month":"08","doi":"10.1038/nprot.2006.226","date_created":"2018-12-11T12:00:52Z","day":"01","issue":"3","title":"In situ hybridization for mRNA detection in Arabidopsis tissue sections"},{"date_updated":"2021-01-12T07:40:28Z","publist_id":"3688","status":"public","publication_status":"published","type":"journal_article","volume":1,"author":[{"full_name":"Sauer, Michael","last_name":"Sauer","first_name":"Michael"},{"full_name":"Paciorek, Tomasz","last_name":"Paciorek","first_name":"Tomasz"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Eva Benková","orcid":"0000-0002-8510-9739","first_name":"Eva","last_name":"Benková"},{"last_name":"Friml","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Jirí Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T12:00:52Z","doi":"10.1038/nprot.2006.15","intvolume":"         1","month":"06","issue":"1","title":"Immunocytochemical techniques for whole mount in situ protein localization in plants","day":"01","publisher":"Nature Publishing Group","page":"98 - 103","extern":1,"year":"2006","abstract":[{"text":"As the field of plant molecular biology is swiftly advancing, a need has been created for methods that allow rapid and reliable in situ localization of proteins in plant cells. Here we describe a whole-mount 'immunolocalization' technique for various plant tissues, including roots, hypocotyls, cotyledons, young primary leaves and embryos of Arabidopsis thaliana and other species. The detailed protocol, recommended controls and troubleshooting are presented, along with examples of applications. The protocol consists of five main procedures: tissue fixation, tissue permeation, blocking, primary and secondary antibody incubation. Notably, the first procedure (tissue fixation) includes several steps (4-12) that are absolutely necessary for protein localization in hypocotyls, cotyledons and young primary leaves but should be omitted for other tissues. The protocol is usually done in 3 days, but could also be completed in 2 days.","lang":"eng"}],"citation":{"chicago":"Sauer, Michael, Tomasz Paciorek, Eva Benková, and Jiří Friml. “Immunocytochemical Techniques for Whole Mount in Situ Protein Localization in Plants.” <i>Nature Protocols</i>. Nature Publishing Group, 2006. <a href=\"https://doi.org/10.1038/nprot.2006.15\">https://doi.org/10.1038/nprot.2006.15</a>.","ista":"Sauer M, Paciorek T, Benková E, Friml J. 2006. Immunocytochemical techniques for whole mount in situ protein localization in plants. Nature Protocols. 1(1), 98–103.","short":"M. Sauer, T. Paciorek, E. Benková, J. Friml, Nature Protocols 1 (2006) 98–103.","apa":"Sauer, M., Paciorek, T., Benková, E., &#38; Friml, J. (2006). Immunocytochemical techniques for whole mount in situ protein localization in plants. <i>Nature Protocols</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nprot.2006.15\">https://doi.org/10.1038/nprot.2006.15</a>","mla":"Sauer, Michael, et al. “Immunocytochemical Techniques for Whole Mount in Situ Protein Localization in Plants.” <i>Nature Protocols</i>, vol. 1, no. 1, Nature Publishing Group, 2006, pp. 98–103, doi:<a href=\"https://doi.org/10.1038/nprot.2006.15\">10.1038/nprot.2006.15</a>.","ieee":"M. Sauer, T. Paciorek, E. Benková, and J. Friml, “Immunocytochemical techniques for whole mount in situ protein localization in plants,” <i>Nature Protocols</i>, vol. 1, no. 1. Nature Publishing Group, pp. 98–103, 2006.","ama":"Sauer M, Paciorek T, Benková E, Friml J. Immunocytochemical techniques for whole mount in situ protein localization in plants. <i>Nature Protocols</i>. 2006;1(1):98-103. doi:<a href=\"https://doi.org/10.1038/nprot.2006.15\">10.1038/nprot.2006.15</a>"},"_id":"3015","quality_controlled":0,"date_published":"2006-06-01T00:00:00Z","publication":"Nature Protocols"},{"publisher":"Cold Spring Harbor Laboratory Press","language":[{"iso":"eng"}],"article_processing_charge":"No","page":"2902 - 2911","extern":"1","year":"2006","abstract":[{"lang":"eng","text":"Plant development is characterized by a profound ability to regenerate and form tissues with new axes of polarity. An unsolved question concerns how the position within a tissue and cues from neighboring cells are integrated to specify the polarity of individual cells. The canalization hypothesis proposes a feedback effect of the phytohormone auxin on the directionality of intercellular auxin flow as a means to polarize tissues. Here we identify a cellular and molecular mechanism for canalization. Local auxin application, wounding, or auxin accumulation during de novo organ formation lead to rearrangements in the subcellular polar localization of PIN auxin transport components. This auxin effect on PIN polarity is cell-specific, does not depend on PIN transcription, and involves the Aux/IAA-ARF (indole-3-acetic acid-auxin response factor) signaling pathway. Our data suggest that auxin acts as polarizing cue, which links individual cell polarity with tissue and organ polarity through control of PIN polar targeting. This feedback regulation provides a conceptual framework for polarization during multiple regenerative and patterning processes in plants."}],"related_material":{"link":[{"relation":"erratum","url":"http://genesdev.cshlp.org/content/21/11/1431.short"}]},"citation":{"short":"M. Sauer, J. Balla, C. Luschnig, J. Wiśniewska, V. Reinöhl, J. Friml, E. Benková, Genes and Development 20 (2006) 2902–2911.","ista":"Sauer M, Balla J, Luschnig C, Wiśniewska J, Reinöhl V, Friml J, Benková E. 2006. Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity. Genes and Development. 20(20), 2902–2911.","chicago":"Sauer, Michael, Jozef Balla, Christian Luschnig, Justyna Wiśniewska, Vilém Reinöhl, Jiří Friml, and Eva Benková. “Canalization of Auxin Flow by Aux/IAA-ARF-Dependent Feedback Regulation of PIN Polarity.” <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press, 2006. <a href=\"https://doi.org/10.1101/gad.390806\">https://doi.org/10.1101/gad.390806</a>.","ama":"Sauer M, Balla J, Luschnig C, et al. Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity. <i>Genes and Development</i>. 2006;20(20):2902-2911. doi:<a href=\"https://doi.org/10.1101/gad.390806\">10.1101/gad.390806</a>","ieee":"M. Sauer <i>et al.</i>, “Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity,” <i>Genes and Development</i>, vol. 20, no. 20. Cold Spring Harbor Laboratory Press, pp. 2902–2911, 2006.","apa":"Sauer, M., Balla, J., Luschnig, C., Wiśniewska, J., Reinöhl, V., Friml, J., &#38; Benková, E. (2006). Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity. <i>Genes and Development</i>. Cold Spring Harbor Laboratory Press. <a href=\"https://doi.org/10.1101/gad.390806\">https://doi.org/10.1101/gad.390806</a>","mla":"Sauer, Michael, et al. “Canalization of Auxin Flow by Aux/IAA-ARF-Dependent Feedback Regulation of PIN Polarity.” <i>Genes and Development</i>, vol. 20, no. 20, Cold Spring Harbor Laboratory Press, 2006, pp. 2902–11, doi:<a href=\"https://doi.org/10.1101/gad.390806\">10.1101/gad.390806</a>."},"oa_version":"None","date_published":"2006-10-15T00:00:00Z","_id":"3016","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication":"Genes and Development","date_updated":"2021-11-16T07:53:09Z","publist_id":"3686","status":"public","type":"journal_article","publication_status":"published","volume":20,"author":[{"last_name":"Sauer","first_name":"Michael","full_name":"Sauer, Michael"},{"full_name":"Balla, Jozef","first_name":"Jozef","last_name":"Balla"},{"full_name":"Luschnig, Christian","last_name":"Luschnig","first_name":"Christian"},{"last_name":"Wiśniewska","first_name":"Justyna","full_name":"Wiśniewska, Justyna"},{"full_name":"Reinöhl, Vilém","last_name":"Reinöhl","first_name":"Vilém"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","first_name":"Jirí","last_name":"Friml"},{"last_name":"Benková","first_name":"Eva","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T12:00:53Z","doi":"10.1101/gad.390806","intvolume":"        20","month":"10","title":"Canalization of auxin flow by Aux/IAA-ARF-dependent feedback regulation of PIN polarity","issue":"20","day":"15"},{"title":"Spatiotemporal asymmetric auxin distribution: A means to coordinate plant development","issue":"23","day":"01","date_created":"2018-12-11T12:00:53Z","intvolume":"        63","month":"12","doi":"10.1007/s00018-006-6116-5","publication_status":"published","type":"journal_article","volume":63,"author":[{"last_name":"Tanaka","first_name":"Hirokazu","full_name":"Tanaka, Hirokazu"},{"full_name":"Dhonukshe, Pankaj","last_name":"Dhonukshe","first_name":"Pankaj"},{"full_name":"Brewer, Philip","last_name":"Brewer","first_name":"Philip"},{"last_name":"Friml","first_name":"Jirí","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2021-01-12T07:40:29Z","publist_id":"3685","status":"public","quality_controlled":"1","_id":"3017","date_published":"2006-12-01T00:00:00Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publication":"Cellular and Molecular Life Sciences","citation":{"mla":"Tanaka, Hirokazu, et al. “Spatiotemporal Asymmetric Auxin Distribution: A Means to Coordinate Plant Development.” <i>Cellular and Molecular Life Sciences</i>, vol. 63, no. 23, Birkhäuser, 2006, pp. 2738–54, doi:<a href=\"https://doi.org/10.1007/s00018-006-6116-5\">10.1007/s00018-006-6116-5</a>.","apa":"Tanaka, H., Dhonukshe, P., Brewer, P., &#38; Friml, J. (2006). Spatiotemporal asymmetric auxin distribution: A means to coordinate plant development. <i>Cellular and Molecular Life Sciences</i>. Birkhäuser. <a href=\"https://doi.org/10.1007/s00018-006-6116-5\">https://doi.org/10.1007/s00018-006-6116-5</a>","ieee":"H. Tanaka, P. Dhonukshe, P. Brewer, and J. Friml, “Spatiotemporal asymmetric auxin distribution: A means to coordinate plant development,” <i>Cellular and Molecular Life Sciences</i>, vol. 63, no. 23. Birkhäuser, pp. 2738–2754, 2006.","ama":"Tanaka H, Dhonukshe P, Brewer P, Friml J. Spatiotemporal asymmetric auxin distribution: A means to coordinate plant development. <i>Cellular and Molecular Life Sciences</i>. 2006;63(23):2738-2754. doi:<a href=\"https://doi.org/10.1007/s00018-006-6116-5\">10.1007/s00018-006-6116-5</a>","chicago":"Tanaka, Hirokazu, Pankaj Dhonukshe, Philip Brewer, and Jiří Friml. “Spatiotemporal Asymmetric Auxin Distribution: A Means to Coordinate Plant Development.” <i>Cellular and Molecular Life Sciences</i>. Birkhäuser, 2006. <a href=\"https://doi.org/10.1007/s00018-006-6116-5\">https://doi.org/10.1007/s00018-006-6116-5</a>.","short":"H. Tanaka, P. Dhonukshe, P. Brewer, J. Friml, Cellular and Molecular Life Sciences 63 (2006) 2738–2754.","ista":"Tanaka H, Dhonukshe P, Brewer P, Friml J. 2006. Spatiotemporal asymmetric auxin distribution: A means to coordinate plant development. Cellular and Molecular Life Sciences. 63(23), 2738–2754."},"oa_version":"None","page":"2738 - 2754","extern":"1","abstract":[{"text":"The plant hormone auxin plays crucial roles in regulating plant growth development, including embryo and root patterning, organ formation, vascular tissue differentiation and growth responses to environmental stimuli. Asymmetric auxin distribution patterns have been observed within tissues, and these so-called auxin gradients change dynamically during different developmental processes. Most auxin is synthesized in the shoot and distributed directionally throughout the plant. This polar auxin transport is mediated by auxin influx and efflux facilitators, whose subcellular polar localizations guide the direction of auxin flow. The polar localization of PIN auxin efflux carriers changes in response to developmental and external cues in order to channel auxin flow in a regulated manner for organized growth. Auxin itself modulates the expression and subcellular localization of PIN proteins, contributing to a complex pattern of feedback regulation. Here we review the available information mainly from studies of a model plant, Arabidopsis thaliana, on the generation of auxin gradients, the regulation of polar auxin transport and further downstream cellular events.","lang":"eng"}],"year":"2006","publisher":"Birkhäuser","language":[{"iso":"eng"}]},{"intvolume":"        18","month":"11","doi":"10.1105/tpc.106.042770","date_created":"2018-12-11T12:00:53Z","day":"01","issue":"11","title":"Subcellular trafficking of the Arabidopsis auxin influx carrier AUX1 uses a novel pathway distinct from PIN1","status":"public","date_updated":"2021-01-12T07:40:29Z","publist_id":"3684","author":[{"full_name":"Kleine-Vehn, Jürgen","first_name":"Jürgen","last_name":"Kleine Vehn"},{"full_name":"Dhonukshe, Pankaj","first_name":"Pankaj","last_name":"Dhonukshe"},{"full_name":"Swarup, Ranjan","first_name":"Ranjan","last_name":"Swarup"},{"first_name":"Malcolm","last_name":"Bennett","full_name":"Bennett, Malcolm"},{"orcid":"0000-0002-8302-7596","full_name":"Jirí Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí"}],"publication_status":"published","type":"journal_article","volume":18,"citation":{"ieee":"J. Kleine Vehn, P. Dhonukshe, R. Swarup, M. Bennett, and J. Friml, “Subcellular trafficking of the Arabidopsis auxin influx carrier AUX1 uses a novel pathway distinct from PIN1,” <i>Plant Cell</i>, vol. 18, no. 11. American Society of Plant Biologists, pp. 3171–3181, 2006.","ama":"Kleine Vehn J, Dhonukshe P, Swarup R, Bennett M, Friml J. Subcellular trafficking of the Arabidopsis auxin influx carrier AUX1 uses a novel pathway distinct from PIN1. <i>Plant Cell</i>. 2006;18(11):3171-3181. doi:<a href=\"https://doi.org/10.1105/tpc.106.042770\">10.1105/tpc.106.042770</a>","mla":"Kleine Vehn, Jürgen, et al. “Subcellular Trafficking of the Arabidopsis Auxin Influx Carrier AUX1 Uses a Novel Pathway Distinct from PIN1.” <i>Plant Cell</i>, vol. 18, no. 11, American Society of Plant Biologists, 2006, pp. 3171–81, doi:<a href=\"https://doi.org/10.1105/tpc.106.042770\">10.1105/tpc.106.042770</a>.","apa":"Kleine Vehn, J., Dhonukshe, P., Swarup, R., Bennett, M., &#38; Friml, J. (2006). Subcellular trafficking of the Arabidopsis auxin influx carrier AUX1 uses a novel pathway distinct from PIN1. <i>Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.106.042770\">https://doi.org/10.1105/tpc.106.042770</a>","short":"J. Kleine Vehn, P. Dhonukshe, R. Swarup, M. Bennett, J. Friml, Plant Cell 18 (2006) 3171–3181.","ista":"Kleine Vehn J, Dhonukshe P, Swarup R, Bennett M, Friml J. 2006. Subcellular trafficking of the Arabidopsis auxin influx carrier AUX1 uses a novel pathway distinct from PIN1. Plant Cell. 18(11), 3171–3181.","chicago":"Kleine Vehn, Jürgen, Pankaj Dhonukshe, Ranjan Swarup, Malcolm Bennett, and Jiří Friml. “Subcellular Trafficking of the Arabidopsis Auxin Influx Carrier AUX1 Uses a Novel Pathway Distinct from PIN1.” <i>Plant Cell</i>. American Society of Plant Biologists, 2006. <a href=\"https://doi.org/10.1105/tpc.106.042770\">https://doi.org/10.1105/tpc.106.042770</a>."},"publication":"Plant Cell","_id":"3018","quality_controlled":0,"date_published":"2006-11-01T00:00:00Z","publisher":"American Society of Plant Biologists","page":"3171 - 3181","extern":1,"abstract":[{"lang":"eng","text":"The directional flow of the plant hormone auxin mediates multiple developmental processes, including patterning and tropisms. Apical and basal plasma membrane localization of AUXIN-RESISTANT1 (AUX1) and PIN-FORMED1 (PIN1) auxin transport components underpins the directionality of intercellular auxin flow in Arabidopsis thaliana roots. Here, we examined the mechanism of polar trafficking of AUX1. Real-time live cell analysis along with subcellular markers revealed that AUX1 resides at the apical plasma membrane of protophloem cells and at highly dynamic subpopulations of Golgi apparatus and endosomes in all cell types. Plasma membrane and intracellular pools of AUX1 are interconnected by actin-dependent constitutive trafficking, which is not sensitive to the vesicle trafficking inhibitor brefeldin A. AUX1 subcellular dynamics are not influenced by the auxin influx inhibitor NOA but are blocked by the auxin efflux inhibitors TIBA and PBA. Furthermore, auxin transport inhibitors and interference with the sterol composition of membranes disrupt polar AUX1 distribution at the plasma membrane. Compared with PIN1 trafficking, AUX1 dynamics display different sensitivities to trafficking inhibitors and are independent of the endosomal trafficking regulator ARF GEF GNOM. Hence, AUX1 uses a novel trafficking pathway in plants that is distinct from PIN trafficking, providing an additional mechanism for the fine regulation of auxin transport."}],"year":"2006"},{"volume":1,"type":"journal_article","publication_status":"published","author":[{"full_name":"Hejátko, Jan","first_name":"Jan","last_name":"Hejátko"},{"full_name":"Blilou, Ikram","last_name":"Blilou","first_name":"Ikram"},{"first_name":"Philip","last_name":"Brewer","full_name":"Brewer, Philip B"},{"full_name":"Jirí Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí"},{"full_name":"Scheres, Ben","first_name":"Ben","last_name":"Scheres"},{"first_name":"Eva","last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Eva Benková","orcid":"0000-0002-8510-9739"}],"date_updated":"2021-01-12T07:40:30Z","publist_id":"3683","status":"public","title":"In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples","issue":"4","day":"01","date_created":"2018-12-11T12:00:54Z","month":"11","intvolume":"         1","doi":"10.1038/nprot.2006.333","abstract":[{"lang":"eng","text":"High throughput microarray transcription analyses provide us with the expression profiles for large amounts of plant genes. However, their tissue and cellular resolution is limited. Thus, for detailed functional analysis, it is still necessary to examine the expression pattern of selected candidate genes at a cellular level. Here, we present an in situ mRNA hybridization method that is routinely used for the analysis of plant gene expression patterns. The protocol is optimized for whole mount mRNA localizations in Arabidopsis seedling tissues including embryos, roots, hypocotyls and young primary leaves. It can also be used for comparable tissues in other species. Part of the protocol can also be automated and performed by a liquid handling robot. Here we present a detailed protocol, recommended controls and troubleshooting, along with examples of several applications. The total time to carry out the entire procedure is ∼7 d, depending on the tissue used."}],"year":"2006","page":"1939 - 1946","extern":1,"publisher":"Nature Publishing Group","quality_controlled":0,"_id":"3020","date_published":"2006-11-01T00:00:00Z","publication":"Nature Protocols","citation":{"mla":"Hejátko, Jan, et al. “In Situ Hybridization Technique for MRNA Detection in Whole Mount Arabidopsis Samples.” <i>Nature Protocols</i>, vol. 1, no. 4, Nature Publishing Group, 2006, pp. 1939–46, doi:<a href=\"https://doi.org/10.1038/nprot.2006.333\">10.1038/nprot.2006.333</a>.","apa":"Hejátko, J., Blilou, I., Brewer, P., Friml, J., Scheres, B., &#38; Benková, E. (2006). In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples. <i>Nature Protocols</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nprot.2006.333\">https://doi.org/10.1038/nprot.2006.333</a>","ama":"Hejátko J, Blilou I, Brewer P, Friml J, Scheres B, Benková E. In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples. <i>Nature Protocols</i>. 2006;1(4):1939-1946. doi:<a href=\"https://doi.org/10.1038/nprot.2006.333\">10.1038/nprot.2006.333</a>","ieee":"J. Hejátko, I. Blilou, P. Brewer, J. Friml, B. Scheres, and E. Benková, “In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples,” <i>Nature Protocols</i>, vol. 1, no. 4. Nature Publishing Group, pp. 1939–1946, 2006.","chicago":"Hejátko, Jan, Ikram Blilou, Philip Brewer, Jiří Friml, Ben Scheres, and Eva Benková. “In Situ Hybridization Technique for MRNA Detection in Whole Mount Arabidopsis Samples.” <i>Nature Protocols</i>. Nature Publishing Group, 2006. <a href=\"https://doi.org/10.1038/nprot.2006.333\">https://doi.org/10.1038/nprot.2006.333</a>.","ista":"Hejátko J, Blilou I, Brewer P, Friml J, Scheres B, Benková E. 2006. In situ hybridization technique for mRNA detection in whole mount Arabidopsis samples. Nature Protocols. 1(4), 1939–1946.","short":"J. Hejátko, I. Blilou, P. Brewer, J. Friml, B. Scheres, E. Benková, Nature Protocols 1 (2006) 1939–1946."}},{"month":"06","intvolume":"        22","doi":"10.1146/annurev.cellbio.22.010305.103337","date_created":"2018-12-11T12:01:42Z","day":"14","title":"In vivo migration A germ cell perspective","status":"public","date_updated":"2021-01-12T07:41:25Z","publist_id":"3543","author":[{"full_name":"Kunwar, Prabhat S","last_name":"Kunwar","first_name":"Prabhat"},{"first_name":"Daria E","last_name":"Siekhaus","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8323-8353","full_name":"Daria Siekhaus"},{"last_name":"Lehmann","first_name":"Ruth","full_name":"Lehmann, Ruth"}],"type":"journal_article","publication_status":"published","volume":22,"citation":{"ista":"Kunwar P, Siekhaus DE, Lehmann R. 2006. In vivo migration A germ cell perspective. Annual Review of Cell and Developmental Biology. 22, 237–265.","short":"P. Kunwar, D.E. Siekhaus, R. Lehmann, Annual Review of Cell and Developmental Biology 22 (2006) 237–265.","chicago":"Kunwar, Prabhat, Daria E Siekhaus, and Ruth Lehmann. “In Vivo Migration A Germ Cell Perspective.” <i>Annual Review of Cell and Developmental Biology</i>. Annual Reviews, 2006. <a href=\"https://doi.org/10.1146/annurev.cellbio.22.010305.103337\">https://doi.org/10.1146/annurev.cellbio.22.010305.103337</a>.","ama":"Kunwar P, Siekhaus DE, Lehmann R. In vivo migration A germ cell perspective. <i>Annual Review of Cell and Developmental Biology</i>. 2006;22:237-265. doi:<a href=\"https://doi.org/10.1146/annurev.cellbio.22.010305.103337\">10.1146/annurev.cellbio.22.010305.103337</a>","ieee":"P. Kunwar, D. E. Siekhaus, and R. Lehmann, “In vivo migration A germ cell perspective,” <i>Annual Review of Cell and Developmental Biology</i>, vol. 22. Annual Reviews, pp. 237–265, 2006.","apa":"Kunwar, P., Siekhaus, D. E., &#38; Lehmann, R. (2006). In vivo migration A germ cell perspective. <i>Annual Review of Cell and Developmental Biology</i>. Annual Reviews. <a href=\"https://doi.org/10.1146/annurev.cellbio.22.010305.103337\">https://doi.org/10.1146/annurev.cellbio.22.010305.103337</a>","mla":"Kunwar, Prabhat, et al. “In Vivo Migration A Germ Cell Perspective.” <i>Annual Review of Cell and Developmental Biology</i>, vol. 22, Annual Reviews, 2006, pp. 237–65, doi:<a href=\"https://doi.org/10.1146/annurev.cellbio.22.010305.103337\">10.1146/annurev.cellbio.22.010305.103337</a>."},"publication":"Annual Review of Cell and Developmental Biology","date_published":"2006-06-14T00:00:00Z","_id":"3152","quality_controlled":0,"publisher":"Annual Reviews","page":"237 - 265","extern":1,"year":"2006","abstract":[{"text":"The basic concepts of the molecular machinery that mediates cell migration have been gleaned from cell culture systems. However, the three-dimensional environment within an organism presents migrating cells with a much greater challenge. They must move between and among other cells while interpreting multiple attractive and repulsive cues to choose their proper path. They must coordinate their cell adhesion with their surroundings and know when to start and stop moving. New insights into the control of these remaining mysteries have emerged from genetic dissection and live imaging of germ cell migration in Drosophila, zebrafish, and mouse embryos. In this review, we first describe germ cell migration in cellular and mechanistic detail in these different model systems. We then compare these systems to highlight the emerging principles. Finally, we contrast the migration of germ cells with that of immune and cancer cells to outline the conserved and different mechanisms.","lang":"eng"}]},{"author":[{"full_name":"Szeliski, Richard S","first_name":"Richard","last_name":"Szeliski"},{"first_name":"Ramin","last_name":"Zabih","full_name":"Zabih, Ramin"},{"first_name":"Daniel","last_name":"Scharstein","full_name":"Scharstein, Daniel"},{"full_name":"Veksler, Olga","last_name":"Veksler","first_name":"Olga"},{"last_name":"Kolmogorov","first_name":"Vladimir","full_name":"Vladimir Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Agarwala","first_name":"Aseem","full_name":"Agarwala, Aseem"},{"first_name":"Marshall","last_name":"Tappen","full_name":"Tappen, Marshall F"},{"last_name":"Rother","first_name":"Carsten","full_name":"Rother, Carsten"}],"type":"conference","publication_status":"published","volume":3952,"status":"public","date_updated":"2021-01-12T07:41:37Z","publist_id":"3499","day":"03","title":"A comparative study of energy minimization methods for Markov random fields","doi":"10.1007/11744047_2","month":"05","intvolume":"      3952","date_created":"2018-12-11T12:01:51Z","conference":{"name":"ECCV: European Conference on Computer Vision"},"main_file_link":[{"url":"http://research-srv.microsoft.com/pubs/67896/szsvkatr-eccv06.pdf","open_access":"0"}],"page":"16 - 29","extern":1,"year":"2006","abstract":[{"text":"One of the most exciting advances in early vision has been the development of efficient energy minimization algorithms. Many early vision tasks require labeling each pixel with some quantity such as depth or texture. While many such problems can be elegantly expressed in the language of Markov Random Fields (MRF's), the resulting energy minimization problems were widely viewed as intractable. Recently, algorithms such as graph cuts and loopy belief propagation (LBP) have proven to be very powerful: for example, such methods form the basis for almost all the top-performing stereo methods. Unfortunately, most papers define their own energy function, which is minimized with a specific algorithm of their choice. As a result, the tradeoffs among different energy minimization algorithms are not well understood. In this paper we describe a set of energy minimization benchmarks, which we use to compare the solution quality and running time of several common energy minimization algorithms. We investigate three promising recent methods - graph cuts, LBP, and tree-reweighted message passing - as well as the well-known older iterated conditional modes (ICM) algorithm. Our benchmark problems are drawn from published energy functions used for stereo, image stitching and interactive segmentation. We also provide a general-purpose software interface that allows vision researchers to easily switch between optimization methods with minimal overhead. We expect that the availability of our benchmarks and interface will make it significantly easier for vision researchers to adopt the best method for their specific problems. Benchmarks, code, results and images are available at http://vision.middlebury.edu/MRF.","lang":"eng"}],"publisher":"Springer","_id":"3180","quality_controlled":0,"date_published":"2006-05-03T00:00:00Z","citation":{"ieee":"R. Szeliski <i>et al.</i>, “A comparative study of energy minimization methods for Markov random fields,” presented at the ECCV: European Conference on Computer Vision, 2006, vol. 3952, pp. 16–29.","ama":"Szeliski R, Zabih R, Scharstein D, et al. A comparative study of energy minimization methods for Markov random fields. In: Vol 3952. Springer; 2006:16-29. doi:<a href=\"https://doi.org/10.1007/11744047_2\">10.1007/11744047_2</a>","mla":"Szeliski, Richard, et al. <i>A Comparative Study of Energy Minimization Methods for Markov Random Fields</i>. Vol. 3952, Springer, 2006, pp. 16–29, doi:<a href=\"https://doi.org/10.1007/11744047_2\">10.1007/11744047_2</a>.","apa":"Szeliski, R., Zabih, R., Scharstein, D., Veksler, O., Kolmogorov, V., Agarwala, A., … Rother, C. (2006). A comparative study of energy minimization methods for Markov random fields (Vol. 3952, pp. 16–29). Presented at the ECCV: European Conference on Computer Vision, Springer. <a href=\"https://doi.org/10.1007/11744047_2\">https://doi.org/10.1007/11744047_2</a>","short":"R. Szeliski, R. Zabih, D. Scharstein, O. Veksler, V. Kolmogorov, A. Agarwala, M. Tappen, C. Rother, in:, Springer, 2006, pp. 16–29.","ista":"Szeliski R, Zabih R, Scharstein D, Veksler O, Kolmogorov V, Agarwala A, Tappen M, Rother C. 2006. A comparative study of energy minimization methods for Markov random fields. ECCV: European Conference on Computer Vision vol. 3952, 16–29.","chicago":"Szeliski, Richard, Ramin Zabih, Daniel Scharstein, Olga Veksler, Vladimir Kolmogorov, Aseem Agarwala, Marshall Tappen, and Carsten Rother. “A Comparative Study of Energy Minimization Methods for Markov Random Fields,” 3952:16–29. Springer, 2006. <a href=\"https://doi.org/10.1007/11744047_2\">https://doi.org/10.1007/11744047_2</a>."}},{"status":"public","date_updated":"2021-01-12T07:41:39Z","publist_id":"3498","author":[{"first_name":"Vladimir","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","full_name":"Vladimir Kolmogorov"},{"full_name":"Rother, Carsten","first_name":"Carsten","last_name":"Rother"}],"volume":"3952 LNCS","publication_status":"published","type":"conference","doi":"10.1007/11744047_1","month":"05","date_created":"2018-12-11T12:01:52Z","day":"03","title":"Comparison of energy minimization algorithms for highly connected graphs","publisher":"Springer","main_file_link":[{"url":"http://research.microsoft.com/pubs/67889/paper_eccv06-trw.pdf","open_access":"0"}],"conference":{"name":"ECCV: European Conference on Computer Vision"},"abstract":[{"text":"Algorithms for discrete energy minimization play a fundamental role for low-level vision. Known techniques include graph cuts, belief propagation (BP) and recently introduced tree-reweighted message passing (TRW). So far, the standard benchmark for their comparison has been a 4-connected grid-graph arising in pixel-labelling stereo. This minimization problem, however, has been largely solved: recent work shows that for many scenes TRW finds the global optimum. Furthermore, it is known that a 4-connecled grid-graph is a poor stereo model since it does not take occlusions into account. We propose the problem of stereo with occlusions as a new test bed for minimization algorithms. This is a more challenging graph since it has much larger connectivity, and it also serves as a better stereo model. An attractive feature of this problem is that increased connectivity does not result in increased complexity of message passing algorithms. Indeed, one contribution of this paper is to show that sophisticated implementations of BP and TRW have the same time and memory complexity as that of 4-connecled grid-graph stereo. The main conclusion of our experimental study is that for our problem graph cut outperforms both TRW and BP considerably. TRW achieves consistently a lower energy than BP. However, as connectivity increases the speed of convergence of TRW becomes slower. Unlike 4-connected grids, the difference between the energy of the best optimization method and the lower bound of TRW appears significant. This shows the hardness of the problem and motivates future research.","lang":"eng"}],"year":"2006","extern":1,"page":"1 - 15","citation":{"short":"V. Kolmogorov, C. Rother, in:, Springer, 2006, pp. 1–15.","ista":"Kolmogorov V, Rother C. 2006. Comparison of energy minimization algorithms for highly connected graphs. ECCV: European Conference on Computer Vision, LNCS, vol. 3952 LNCS, 1–15.","chicago":"Kolmogorov, Vladimir, and Carsten Rother. “Comparison of Energy Minimization Algorithms for Highly Connected Graphs,” 3952 LNCS:1–15. Springer, 2006. <a href=\"https://doi.org/10.1007/11744047_1\">https://doi.org/10.1007/11744047_1</a>.","ieee":"V. Kolmogorov and C. Rother, “Comparison of energy minimization algorithms for highly connected graphs,” presented at the ECCV: European Conference on Computer Vision, 2006, vol. 3952 LNCS, pp. 1–15.","ama":"Kolmogorov V, Rother C. Comparison of energy minimization algorithms for highly connected graphs. In: Vol 3952 LNCS. Springer; 2006:1-15. doi:<a href=\"https://doi.org/10.1007/11744047_1\">10.1007/11744047_1</a>","mla":"Kolmogorov, Vladimir, and Carsten Rother. <i>Comparison of Energy Minimization Algorithms for Highly Connected Graphs</i>. Vol. 3952 LNCS, Springer, 2006, pp. 1–15, doi:<a href=\"https://doi.org/10.1007/11744047_1\">10.1007/11744047_1</a>.","apa":"Kolmogorov, V., &#38; Rother, C. (2006). Comparison of energy minimization algorithms for highly connected graphs (Vol. 3952 LNCS, pp. 1–15). Presented at the ECCV: European Conference on Computer Vision, Springer. <a href=\"https://doi.org/10.1007/11744047_1\">https://doi.org/10.1007/11744047_1</a>"},"alternative_title":["LNCS"],"_id":"3184","date_published":"2006-05-03T00:00:00Z","quality_controlled":0},{"main_file_link":[{"url":"http://research.microsoft.com/pubs/67414/criminisi_pami2006.pdf","open_access":"0"}],"extern":1,"page":"1480 - 1492","year":"2006","abstract":[{"lang":"eng","text":"This paper describes models and algorithms for the real-time segmentation of foreground from background layers in stereo video sequences. Automatic separation of layers from color/contrast or from stereo alone is known to be error-prone. Here, color, contrast, and stereo matching information are fused to infer layers accurately and efficiently. The first algorithm, Layered Dynamic Programming (LDP), solves stereo in an extended six-state space that represents both foreground/background layers and occluded regions. The stereo-match likelihood is then fused with a contrast-sensitive color model that is learned on-the-fly and stereo disparities are obtained by dynamic programming. The second algorithm, Layered Graph Cut (LGC), does not directly solve stereo. Instead, the stereo match likelihood is marginalized over disparities to evaluate foreground and background hypotheses and then fused with a contrast-sensitive color model like the one used in LDP. Segmentation is solved efficiently by ternary graph cut. Both algorithms are evaluated with respect to ground truth data and found to have similar performance, substantially better than either stereo or color/contrast alone. However, their characteristics with respect to computational efficiency are rather different. The algorithms are demonstrated in the application of background substitution and shown to give good quality composite video output."}],"publisher":"IEEE","publication":"IEEE Transactions on Pattern Analysis and Machine Intelligence","date_published":"2006-09-01T00:00:00Z","_id":"3185","quality_controlled":0,"citation":{"chicago":"Kolmogorov, Vladimir, Antonio Criminisi, Andrew Blake, Geoffrey Cross, and Carsten Rother. “Probabilistic Fusion of Stereo with Color and Contrast for Bilayer Segmentation.” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. IEEE, 2006. <a href=\"https://doi.org/10.1109/TPAMI.2006.193\">https://doi.org/10.1109/TPAMI.2006.193</a>.","ista":"Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. 2006. Probabilistic fusion of stereo with color and contrast for bilayer segmentation. IEEE Transactions on Pattern Analysis and Machine Intelligence. 28(9), 1480–1492.","short":"V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, C. Rother, IEEE Transactions on Pattern Analysis and Machine Intelligence 28 (2006) 1480–1492.","mla":"Kolmogorov, Vladimir, et al. “Probabilistic Fusion of Stereo with Color and Contrast for Bilayer Segmentation.” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>, vol. 28, no. 9, IEEE, 2006, pp. 1480–92, doi:<a href=\"https://doi.org/10.1109/TPAMI.2006.193\">10.1109/TPAMI.2006.193</a>.","apa":"Kolmogorov, V., Criminisi, A., Blake, A., Cross, G., &#38; Rother, C. (2006). Probabilistic fusion of stereo with color and contrast for bilayer segmentation. <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. IEEE. <a href=\"https://doi.org/10.1109/TPAMI.2006.193\">https://doi.org/10.1109/TPAMI.2006.193</a>","ama":"Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. Probabilistic fusion of stereo with color and contrast for bilayer segmentation. <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. 2006;28(9):1480-1492. doi:<a href=\"https://doi.org/10.1109/TPAMI.2006.193\">10.1109/TPAMI.2006.193</a>","ieee":"V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, and C. Rother, “Probabilistic fusion of stereo with color and contrast for bilayer segmentation,” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>, vol. 28, no. 9. IEEE, pp. 1480–1492, 2006."},"author":[{"last_name":"Kolmogorov","first_name":"Vladimir","full_name":"Vladimir Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Antonio","last_name":"Criminisi","full_name":"Criminisi, Antonio"},{"full_name":"Blake, Andrew","first_name":"Andrew","last_name":"Blake"},{"full_name":"Cross, Geoffrey","last_name":"Cross","first_name":"Geoffrey"},{"full_name":"Rother, Carsten","first_name":"Carsten","last_name":"Rother"}],"type":"journal_article","publication_status":"published","volume":28,"status":"public","date_updated":"2021-01-12T07:41:39Z","publist_id":"3496","day":"01","title":"Probabilistic fusion of stereo with color and contrast for bilayer segmentation","issue":"9","month":"09","doi":"10.1109/TPAMI.2006.193","intvolume":"        28","date_created":"2018-12-11T12:01:53Z"},{"quality_controlled":0,"_id":"3186","date_published":"2006-04-28T00:00:00Z","alternative_title":["LNCS"],"citation":{"apa":"Boykov, Y., Kolmogorov, V., Cremers, D., &#38; Delong, A. (2006). An integral solution to surface evolution PDEs via geo cuts (Vol. 3953, pp. 409–422). Presented at the ECCV: European Conference on Computer Vision, Springer. <a href=\"https://doi.org/10.1007/11744078_32\">https://doi.org/10.1007/11744078_32</a>","mla":"Boykov, Yuri, et al. <i>An Integral Solution to Surface Evolution PDEs via Geo Cuts</i>. Vol. 3953, Springer, 2006, pp. 409–22, doi:<a href=\"https://doi.org/10.1007/11744078_32\">10.1007/11744078_32</a>.","ieee":"Y. Boykov, V. Kolmogorov, D. Cremers, and A. Delong, “An integral solution to surface evolution PDEs via geo cuts,” presented at the ECCV: European Conference on Computer Vision, 2006, vol. 3953, pp. 409–422.","ama":"Boykov Y, Kolmogorov V, Cremers D, Delong A. An integral solution to surface evolution PDEs via geo cuts. In: Vol 3953. Springer; 2006:409-422. doi:<a href=\"https://doi.org/10.1007/11744078_32\">10.1007/11744078_32</a>","chicago":"Boykov, Yuri, Vladimir Kolmogorov, Daniel Cremers, and Andrew Delong. “An Integral Solution to Surface Evolution PDEs via Geo Cuts,” 3953:409–22. Springer, 2006. <a href=\"https://doi.org/10.1007/11744078_32\">https://doi.org/10.1007/11744078_32</a>.","ista":"Boykov Y, Kolmogorov V, Cremers D, Delong A. 2006. An integral solution to surface evolution PDEs via geo cuts. ECCV: European Conference on Computer Vision, LNCS, vol. 3953, 409–422.","short":"Y. Boykov, V. Kolmogorov, D. Cremers, A. Delong, in:, Springer, 2006, pp. 409–422."},"page":"409 - 422","extern":1,"abstract":[{"text":"We introduce a new approach to modelling gradient flows of contours and surfaces. While standard variational methods (e.g. level sets) compute local interface motion in a differential fashion by estimating local contour velocity via energy derivatives, we propose to solve surface evolution PDEs by explicitly estimating integral motion of the whole surface. We formulate an optimization problem directly based on an integral characterization of gradient flow as an infinitesimal move of the (whole) surface giving the largest energy decrease among all moves of equal size. We show that this problem can be efficiently solved using recent advances in algorithms for global hypersurface optimization [4, 2, 11]. In particular, we employ the geo-cuts method [4] that uses ideas from integral geometry to represent continuous surfaces as cuts on discrete graphs. The resulting interface evolution algorithm is validated on some 2D and 3D examples similar to typical demonstrations of level-set methods. Our method can compute gradient flows of hypersurfaces with respect to a fairly general class of continuous functional and it is flexible with respect to distance metrics on the space of contours/surfaces. Preliminary tests for standard L2 distance metric demonstrate numerical stability, topological changes and an absence of any oscillatory motion.","lang":"eng"}],"year":"2006","conference":{"name":"ECCV: European Conference on Computer Vision"},"publisher":"Springer","title":"An integral solution to surface evolution PDEs via geo cuts","day":"28","date_created":"2018-12-11T12:01:53Z","month":"04","doi":"10.1007/11744078_32","intvolume":"      3953","type":"conference","publication_status":"published","volume":3953,"author":[{"last_name":"Boykov","first_name":"Yuri","full_name":"Boykov, Yuri"},{"full_name":"Vladimir Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","last_name":"Kolmogorov","first_name":"Vladimir"},{"last_name":"Cremers","first_name":"Daniel","full_name":"Cremers, Daniel"},{"first_name":"Andrew","last_name":"Delong","full_name":"Delong, Andrew"}],"publist_id":"3497","date_updated":"2021-01-12T07:41:39Z","status":"public"},{"author":[{"first_name":"Carsten","last_name":"Rother","full_name":"Rother, Carsten"},{"first_name":"Vladimir","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","full_name":"Vladimir Kolmogorov"},{"first_name":"Thomas","last_name":"Minka","full_name":"Minka, Thomas P"},{"full_name":"Blake, Andrew","first_name":"Andrew","last_name":"Blake"}],"type":"conference","publication_status":"published","status":"public","date_updated":"2021-01-12T07:41:40Z","publist_id":"3493","day":"05","title":"Cosegmentation of image pairs by histogram matching - Incorporating a global constraint into MRFs","doi":"10.1109/CVPR.2006.91","month":"07","date_created":"2018-12-11T12:01:54Z","conference":{"name":"CVPR: Computer Vision and Pattern Recognition"},"abstract":[{"text":"We introduce the term cosegmentation which denotes the task of segmenting simultaneously the common parts of an image pair. A generative model for cosegmentation is presented. Inference in the model leads to minimizing an energy with an MRF term encoding spatial coherency and a global constraint which attempts to match the appearance histograms of the common parts. This energy has not been proposed previously and its optimization is challenging and NP-hard. For this problem a novel optimization scheme which we call trust region graph cuts is presented. We demonstrate that this framework has the potential to improve a wide range of research: Object driven image retrieval, video tracking and segmentation, and interactive image editing. The power of the framework lies in its generality, the common part can be a rigid/non-rigid object (or scene), observed from different viewpoints or even similar objects of the same class.","lang":"eng"}],"year":"2006","page":"993 - 1000","extern":1,"publisher":"IEEE","date_published":"2006-07-05T00:00:00Z","_id":"3188","quality_controlled":0,"citation":{"short":"C. Rother, V. Kolmogorov, T. Minka, A. Blake, in:, IEEE, 2006, pp. 993–1000.","ista":"Rother C, Kolmogorov V, Minka T, Blake A. 2006. Cosegmentation of image pairs by histogram matching - Incorporating a global constraint into MRFs. CVPR: Computer Vision and Pattern Recognition, 993–1000.","chicago":"Rother, Carsten, Vladimir Kolmogorov, Thomas Minka, and Andrew Blake. “Cosegmentation of Image Pairs by Histogram Matching - Incorporating a Global Constraint into MRFs,” 993–1000. IEEE, 2006. <a href=\"https://doi.org/10.1109/CVPR.2006.91\">https://doi.org/10.1109/CVPR.2006.91</a>.","ama":"Rother C, Kolmogorov V, Minka T, Blake A. Cosegmentation of image pairs by histogram matching - Incorporating a global constraint into MRFs. In: IEEE; 2006:993-1000. doi:<a href=\"https://doi.org/10.1109/CVPR.2006.91\">10.1109/CVPR.2006.91</a>","ieee":"C. Rother, V. Kolmogorov, T. Minka, and A. Blake, “Cosegmentation of image pairs by histogram matching - Incorporating a global constraint into MRFs,” presented at the CVPR: Computer Vision and Pattern Recognition, 2006, pp. 993–1000.","apa":"Rother, C., Kolmogorov, V., Minka, T., &#38; Blake, A. (2006). Cosegmentation of image pairs by histogram matching - Incorporating a global constraint into MRFs (pp. 993–1000). Presented at the CVPR: Computer Vision and Pattern Recognition, IEEE. <a href=\"https://doi.org/10.1109/CVPR.2006.91\">https://doi.org/10.1109/CVPR.2006.91</a>","mla":"Rother, Carsten, et al. <i>Cosegmentation of Image Pairs by Histogram Matching - Incorporating a Global Constraint into MRFs</i>. IEEE, 2006, pp. 993–1000, doi:<a href=\"https://doi.org/10.1109/CVPR.2006.91\">10.1109/CVPR.2006.91</a>."}},{"status":"public","publist_id":"3494","date_updated":"2021-01-12T07:41:40Z","author":[{"last_name":"Criminisi","first_name":"Antonio","full_name":"Criminisi, Antonio"},{"full_name":"Cross, Geoffrey","last_name":"Cross","first_name":"Geoffrey"},{"full_name":"Blake, Andrew","last_name":"Blake","first_name":"Andrew"},{"first_name":"Vladimir","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","full_name":"Vladimir Kolmogorov"}],"publication_status":"published","type":"conference","volume":1,"intvolume":"         1","month":"07","doi":"10.1109/CVPR.2006.69","date_created":"2018-12-11T12:01:54Z","day":"05","title":"Bilayer segmentation of live video","publisher":"IEEE","conference":{"name":"CVPR: Computer Vision and Pattern Recognition"},"main_file_link":[{"url":"http://research.microsoft.com/en-us/um/people/ablake/papers/ablake/criminisi_cvpr06.pdf","open_access":"0"}],"page":"53 - 60","extern":1,"abstract":[{"lang":"eng","text":"This paper presents an algorithm capable of real-time separation of foreground from background in monocular video sequences. Automatic segmentation of layers from colour/contrast or from motion alone is known to be error-prone. Here motion, colour and contrast cues are probabilistically fused together with spatial and temporal priors to infer layers accurately and efficiently. Central to our algorithm is the fact that pixel velocities are not needed, thus removing the need for optical flow estimation, with its tendency to error and computational expense. Instead, an efficient motion vs non-motion classifier is trained to operate directly and jointly on intensity-change and contrast. Its output is then fused with colour information. The prior on segmentation is represented by a second order, temporal, Hidden Markov Model, together with a spatial MRF favouring coherence except where contrast is high. Finally, accurate layer segmentation and explicit occlusion detection are efficiently achieved by binary graph cut. The segmentation accuracy of the proposed algorithm is quantitatively evaluated with respect to existing ground-truth data and found to be comparable to the accuracy of a state of the art stereo segmentation algorithm. Fore-ground/background segmentation is demonstrated in the application of live background substitution and shown to generate convincingly good quality composite video."}],"year":"2006","citation":{"chicago":"Criminisi, Antonio, Geoffrey Cross, Andrew Blake, and Vladimir Kolmogorov. “Bilayer Segmentation of Live Video,” 1:53–60. IEEE, 2006. <a href=\"https://doi.org/10.1109/CVPR.2006.69\">https://doi.org/10.1109/CVPR.2006.69</a>.","short":"A. Criminisi, G. Cross, A. Blake, V. Kolmogorov, in:, IEEE, 2006, pp. 53–60.","ista":"Criminisi A, Cross G, Blake A, Kolmogorov V. 2006. Bilayer segmentation of live video. CVPR: Computer Vision and Pattern Recognition vol. 1, 53–60.","mla":"Criminisi, Antonio, et al. <i>Bilayer Segmentation of Live Video</i>. Vol. 1, IEEE, 2006, pp. 53–60, doi:<a href=\"https://doi.org/10.1109/CVPR.2006.69\">10.1109/CVPR.2006.69</a>.","apa":"Criminisi, A., Cross, G., Blake, A., &#38; Kolmogorov, V. (2006). Bilayer segmentation of live video (Vol. 1, pp. 53–60). Presented at the CVPR: Computer Vision and Pattern Recognition, IEEE. <a href=\"https://doi.org/10.1109/CVPR.2006.69\">https://doi.org/10.1109/CVPR.2006.69</a>","ama":"Criminisi A, Cross G, Blake A, Kolmogorov V. Bilayer segmentation of live video. In: Vol 1. IEEE; 2006:53-60. doi:<a href=\"https://doi.org/10.1109/CVPR.2006.69\">10.1109/CVPR.2006.69</a>","ieee":"A. Criminisi, G. Cross, A. Blake, and V. Kolmogorov, “Bilayer segmentation of live video,” presented at the CVPR: Computer Vision and Pattern Recognition, 2006, vol. 1, pp. 53–60."},"_id":"3189","date_published":"2006-07-05T00:00:00Z","quality_controlled":0},{"intvolume":"        28","month":"08","doi":"10.1109/TPAMI.2006.200","date_created":"2018-12-11T12:01:55Z","day":"21","title":"Convergent tree reweighted message passing for energy minimization","issue":"10","status":"public","date_updated":"2021-01-12T07:41:41Z","publist_id":"3495","author":[{"id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","full_name":"Vladimir Kolmogorov","first_name":"Vladimir","last_name":"Kolmogorov"}],"publication_status":"published","type":"journal_article","volume":28,"citation":{"chicago":"Kolmogorov, Vladimir. “Convergent Tree Reweighted Message Passing for Energy Minimization.” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. IEEE, 2006. <a href=\"https://doi.org/10.1109/TPAMI.2006.200\">https://doi.org/10.1109/TPAMI.2006.200</a>.","ista":"Kolmogorov V. 2006. Convergent tree reweighted message passing for energy minimization. IEEE Transactions on Pattern Analysis and Machine Intelligence. 28(10), 1568–1583.","short":"V. Kolmogorov, IEEE Transactions on Pattern Analysis and Machine Intelligence 28 (2006) 1568–1583.","apa":"Kolmogorov, V. (2006). Convergent tree reweighted message passing for energy minimization. <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. IEEE. <a href=\"https://doi.org/10.1109/TPAMI.2006.200\">https://doi.org/10.1109/TPAMI.2006.200</a>","mla":"Kolmogorov, Vladimir. “Convergent Tree Reweighted Message Passing for Energy Minimization.” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>, vol. 28, no. 10, IEEE, 2006, pp. 1568–83, doi:<a href=\"https://doi.org/10.1109/TPAMI.2006.200\">10.1109/TPAMI.2006.200</a>.","ama":"Kolmogorov V. Convergent tree reweighted message passing for energy minimization. <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>. 2006;28(10):1568-1583. doi:<a href=\"https://doi.org/10.1109/TPAMI.2006.200\">10.1109/TPAMI.2006.200</a>","ieee":"V. Kolmogorov, “Convergent tree reweighted message passing for energy minimization,” <i>IEEE Transactions on Pattern Analysis and Machine Intelligence</i>, vol. 28, no. 10. IEEE, pp. 1568–1583, 2006."},"publication":"IEEE Transactions on Pattern Analysis and Machine Intelligence","_id":"3190","quality_controlled":0,"date_published":"2006-08-21T00:00:00Z","publisher":"IEEE","main_file_link":[{"open_access":"0","url":"http://research.microsoft.com/pubs/67371/trw_maxproduct_aistats05.pdf"}],"page":"1568 - 1583","extern":1,"year":"2006","abstract":[{"text":"Algorithms for discrete energy minimization are of fundamental importance in computer vision. In this paper, we focus on the recent technique proposed by Wainwright et al. (Nov. 2005)- tree-reweighted max-product message passing (TRW). It was inspired by the problem of maximizing a lower bound on the energy. However, the algorithm is not guaranteed to increase this bound - it may actually go down. In addition, TRW does not always converge. We develop a modification of this algorithm which we call sequential tree-reweighted message passing. Its main property is that the bound is guaranteed not to decrease. We also give a weak tree agreement condition which characterizes local maxima of the bound with respect to TRW algorithms. We prove that our algorithm has a limit point that achieves weak tree agreement. Finally, we show that, our algorithm requires half as much memory as traditional message passing approaches. Experimental results demonstrate that on certain synthetic and real problems, our algorithm outperforms both the ordinary belief propagation and tree-reweighted algorithm in (M. J. Wainwright, et al., Nov. 2005). In addition, on stereo problems with Potts interactions, we obtain a lower energy than graph cuts.","lang":"eng"}]},{"acknowledgement":"Most of this work was done while the K. Pietrzak was a PhD student at ETH where he was supported by the Swiss National Science Foundation, project No. 200020- 103847/1. Currently he is partially supported by the Commission of the European Communities through the IST program under contract IST-2002-507932 ECRYPT.","publisher":"Springer","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques"},"year":"2006","abstract":[{"text":"The Feistel-network is a popular structure underlying many block-ciphers where the cipher is constructed from many simpler rounds, each defined by some function which is derived from the secret key.\nLuby and Rackoff showed that the three-round Feistel-network – each round instantiated with a pseudorandom function secure against adaptive chosen plaintext attacks (CPA) – is a CPA secure pseudorandom permutation, thus giving some confidence in the soundness of using a Feistel-network to design block-ciphers.\nBut the round functions used in actual block-ciphers are – for efficiency reasons – far from being pseudorandom. We investigate the security of the Feistel-network against CPA distinguishers when the only security guarantee we have for the round functions is that they are secure against non-adaptive chosen plaintext attacks (nCPA). We show that in the information-theoretic setting, four rounds with nCPA secure round functions are sufficient (and necessary) to get a CPA secure permutation. Unfortunately, this result does not translate into the more interesting pseudorandom setting. In fact, under the so-called Inverse Decisional Diffie-Hellman assumption the Feistel-network with four rounds, each instantiated with a nCPA secure pseudorandom function, is in general not a CPA secure pseudorandom permutation.","lang":"eng"}],"page":"391 - 408","extern":1,"citation":{"ista":"Maurer U, Oswald Y, Pietrzak KZ, Sjödin J. 2006. Luby Rackoff ciphers from weak round functions . EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 4004, 391–408.","short":"U. Maurer, Y. Oswald, K.Z. Pietrzak, J. Sjödin, in:, Springer, 2006, pp. 391–408.","chicago":"Maurer, Ueli, Yvonne Oswald, Krzysztof Z Pietrzak, and Johan Sjödin. “Luby Rackoff Ciphers from Weak Round Functions ,” 4004:391–408. Springer, 2006. <a href=\"https://doi.org/10.1007/11761679_24\">https://doi.org/10.1007/11761679_24</a>.","ieee":"U. Maurer, Y. Oswald, K. Z. Pietrzak, and J. Sjödin, “Luby Rackoff ciphers from weak round functions ,” presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, 2006, vol. 4004, pp. 391–408.","ama":"Maurer U, Oswald Y, Pietrzak KZ, Sjödin J. Luby Rackoff ciphers from weak round functions . In: Vol 4004. Springer; 2006:391-408. doi:<a href=\"https://doi.org/10.1007/11761679_24\">10.1007/11761679_24</a>","mla":"Maurer, Ueli, et al. <i>Luby Rackoff Ciphers from Weak Round Functions </i>. Vol. 4004, Springer, 2006, pp. 391–408, doi:<a href=\"https://doi.org/10.1007/11761679_24\">10.1007/11761679_24</a>.","apa":"Maurer, U., Oswald, Y., Pietrzak, K. Z., &#38; Sjödin, J. (2006). Luby Rackoff ciphers from weak round functions  (Vol. 4004, pp. 391–408). Presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Springer. <a href=\"https://doi.org/10.1007/11761679_24\">https://doi.org/10.1007/11761679_24</a>"},"alternative_title":["LNCS"],"quality_controlled":0,"_id":"3214","date_published":"2006-07-11T00:00:00Z","status":"public","date_updated":"2021-01-12T07:41:51Z","publist_id":"3465","author":[{"last_name":"Maurer","first_name":"Ueli","full_name":"Maurer, Ueli M"},{"full_name":"Oswald, Yvonne A","first_name":"Yvonne","last_name":"Oswald"},{"first_name":"Krzysztof Z","last_name":"Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Krzysztof Pietrzak","orcid":"0000-0002-9139-1654"},{"first_name":"Johan","last_name":"Sjödin","full_name":"Sjödin,  Johan"}],"volume":4004,"publication_status":"published","type":"conference","doi":"10.1007/11761679_24","month":"07","intvolume":"      4004","date_created":"2018-12-11T12:02:03Z","day":"11","title":"Luby Rackoff ciphers from weak round functions "},{"title":"Separating sources for encryption and secret sharing","day":"11","date_created":"2018-12-11T12:02:04Z","doi":"10.1007/11681878_31","month":"04","intvolume":"      3876","volume":3876,"type":"conference","publication_status":"published","author":[{"first_name":"Yevgeniy","last_name":"Dodis","full_name":"Dodis, Yevgeniy"},{"orcid":"0000-0002-9139-1654","full_name":"Krzysztof Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","first_name":"Krzysztof Z"},{"full_name":"Przydatek, Bartosz","first_name":"Bartosz","last_name":"Przydatek"}],"publist_id":"3466","date_updated":"2021-01-12T07:41:51Z","status":"public","_id":"3215","date_published":"2006-04-11T00:00:00Z","quality_controlled":0,"alternative_title":["LNCS"],"citation":{"chicago":"Dodis, Yevgeniy, Krzysztof Z Pietrzak, and Bartosz Przydatek. “Separating Sources for Encryption and Secret Sharing,” 3876:601–16. Springer, 2006. <a href=\"https://doi.org/10.1007/11681878_31\">https://doi.org/10.1007/11681878_31</a>.","ista":"Dodis Y, Pietrzak KZ, Przydatek B. 2006. Separating sources for encryption and secret sharing. TCC: Theory of Cryptography Conference, LNCS, vol. 3876, 601–616.","short":"Y. Dodis, K.Z. Pietrzak, B. Przydatek, in:, Springer, 2006, pp. 601–616.","mla":"Dodis, Yevgeniy, et al. <i>Separating Sources for Encryption and Secret Sharing</i>. Vol. 3876, Springer, 2006, pp. 601–16, doi:<a href=\"https://doi.org/10.1007/11681878_31\">10.1007/11681878_31</a>.","apa":"Dodis, Y., Pietrzak, K. Z., &#38; Przydatek, B. (2006). Separating sources for encryption and secret sharing (Vol. 3876, pp. 601–616). Presented at the TCC: Theory of Cryptography Conference, Springer. <a href=\"https://doi.org/10.1007/11681878_31\">https://doi.org/10.1007/11681878_31</a>","ama":"Dodis Y, Pietrzak KZ, Przydatek B. Separating sources for encryption and secret sharing. In: Vol 3876. Springer; 2006:601-616. doi:<a href=\"https://doi.org/10.1007/11681878_31\">10.1007/11681878_31</a>","ieee":"Y. Dodis, K. Z. Pietrzak, and B. Przydatek, “Separating sources for encryption and secret sharing,” presented at the TCC: Theory of Cryptography Conference, 2006, vol. 3876, pp. 601–616."},"year":"2006","abstract":[{"text":"Most cryptographic primitives such as encryption, authentication or secret sharing require randomness. Usually one assumes that perfect randomness is available, but those primitives might also be realized under weaker assumptions. In this work we continue the study of building secure cryptographic primitives from imperfect random sources initiated by Dodis and Spencer (FOCS’02). Their main result shows that there exists a (high-entropy) source of randomness allowing for perfect encryption of a bit, and yet from which one cannot extract even a single weakly random bit, separating encryption from extraction. Our main result separates encryption from 2-out-2 secret sharing (both in the information-theoretic and in the computational settings): any source which can be used to achieve one-bit encryption also can be used for 2-out-2 secret sharing of one bit, but the converse is false, even for high-entropy sources. Therefore, possibility of extraction strictly implies encryption, which in turn strictly implies 2-out-2 secret sharing.","lang":"eng"}],"page":"601 - 616","extern":1,"conference":{"name":"TCC: Theory of Cryptography Conference"},"publisher":"Springer","acknowledgement":"Supported in part by NSF career award CCR-0133806 and NSF grant CCR-0311095. Supported by the Swiss National Science Foundation, project No. 200020-103847/1."},{"conference":{"name":"ICALP: Automata, Languages and Programming"},"year":"2006","abstract":[{"lang":"eng","text":"We prove a new upper bound on the advantage of any adversary for distinguishing the encrypted CBC-MAC (EMAC) based on random permutations from a random function. Our proof uses techniques recently introduced in [BPR05], which again were inspired by [DGH + 04].\nThe bound we prove is tight — in the sense that it matches the advantage of known attacks up to a constant factor — for a wide range of the parameters: let n denote the block-size, q the number of queries the adversary is allowed to make and ℓ an upper bound on the length (i.e. number of blocks) of the messages, then for ℓ ≤ 2 n/8 and q≥ł2 the advantage is in the order of q 2/2 n (and in particular independent of ℓ). This improves on the previous bound of q 2ℓΘ(1/ln ln ℓ)/2 n from [BPR05] and matches the trivial attack (which thus is basically optimal) where one simply asks random queries until a collision is found."}],"page":"168 - 179","extern":1,"publisher":"Springer","acknowledgement":"Part of this work is supported by the Commission of the European Communities through the IST program under contract IST-2002-507932 ECRYPT.","alternative_title":["LNCS"],"date_published":"2006-07-28T00:00:00Z","_id":"3216","quality_controlled":0,"citation":{"ista":"Pietrzak KZ. 2006. A tight bound for EMAC. ICALP: Automata, Languages and Programming, LNCS, vol. 4052, 168–179.","short":"K.Z. Pietrzak, in:, Springer, 2006, pp. 168–179.","chicago":"Pietrzak, Krzysztof Z. “A Tight Bound for EMAC,” 4052:168–79. Springer, 2006. <a href=\"https://doi.org/10.1007/11787006_15\">https://doi.org/10.1007/11787006_15</a>.","ama":"Pietrzak KZ. A tight bound for EMAC. In: Vol 4052. Springer; 2006:168-179. doi:<a href=\"https://doi.org/10.1007/11787006_15\">10.1007/11787006_15</a>","ieee":"K. Z. Pietrzak, “A tight bound for EMAC,” presented at the ICALP: Automata, Languages and Programming, 2006, vol. 4052, pp. 168–179.","apa":"Pietrzak, K. Z. (2006). A tight bound for EMAC (Vol. 4052, pp. 168–179). Presented at the ICALP: Automata, Languages and Programming, Springer. <a href=\"https://doi.org/10.1007/11787006_15\">https://doi.org/10.1007/11787006_15</a>","mla":"Pietrzak, Krzysztof Z. <i>A Tight Bound for EMAC</i>. Vol. 4052, Springer, 2006, pp. 168–79, doi:<a href=\"https://doi.org/10.1007/11787006_15\">10.1007/11787006_15</a>."},"author":[{"orcid":"0000-0002-9139-1654","full_name":"Krzysztof Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","first_name":"Krzysztof Z"}],"volume":4052,"type":"conference","publication_status":"published","status":"public","date_updated":"2021-01-12T07:41:52Z","publist_id":"3463","day":"28","title":"A tight bound for EMAC","doi":"10.1007/11787006_15","intvolume":"      4052","month":"07","date_created":"2018-12-11T12:02:04Z"},{"date_published":"2006-07-11T00:00:00Z","_id":"3217","quality_controlled":0,"alternative_title":["LNCS"],"citation":{"ama":"Pietrzak KZ. Composition implies adaptive security in minicrypt. In: Vol 4004. Springer; 2006:328-338. doi:<a href=\"https://doi.org/10.1007/11761679_20\">10.1007/11761679_20</a>","ieee":"K. Z. Pietrzak, “Composition implies adaptive security in minicrypt,” presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, 2006, vol. 4004, pp. 328–338.","apa":"Pietrzak, K. Z. (2006). Composition implies adaptive security in minicrypt (Vol. 4004, pp. 328–338). Presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Springer. <a href=\"https://doi.org/10.1007/11761679_20\">https://doi.org/10.1007/11761679_20</a>","mla":"Pietrzak, Krzysztof Z. <i>Composition Implies Adaptive Security in Minicrypt</i>. Vol. 4004, Springer, 2006, pp. 328–38, doi:<a href=\"https://doi.org/10.1007/11761679_20\">10.1007/11761679_20</a>.","short":"K.Z. Pietrzak, in:, Springer, 2006, pp. 328–338.","ista":"Pietrzak KZ. 2006. Composition implies adaptive security in minicrypt. EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 4004, 328–338.","chicago":"Pietrzak, Krzysztof Z. “Composition Implies Adaptive Security in Minicrypt,” 4004:328–38. Springer, 2006. <a href=\"https://doi.org/10.1007/11761679_20\">https://doi.org/10.1007/11761679_20</a>."},"page":"328 - 338","extern":1,"abstract":[{"lang":"eng","text":"To prove that a secure key-agreement protocol exists one must at least show P ≠NP. Moreover any proof that the sequential composition of two non-adaptively secure pseudorandom functions is secure against at least two adaptive queries must falsify the decisional Diffie-Hellman assumption, a standard assumption from public-key cryptography. Hence proving any of this two seemingly unrelated statements would require a significant breakthrough. We show that at least one of the two statements is true.\nTo our knowledge this gives the first positive cryptographic result (namely that composition implies some weak adaptive security) which holds in Minicrypt, but not in Cryptomania, i.e. under the assumption that one-way functions exist, but public-key cryptography does not."}],"year":"2006","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques"},"publisher":"Springer","acknowledgement":"Author was supported during the writing of this work by the Swiss National Science Foundation, project No. 200020-103847/1. Part of this work is supported by the Commission of the European Communities through the IST program under contract IST-2002-507932","title":"Composition implies adaptive security in minicrypt","day":"11","date_created":"2018-12-11T12:02:04Z","month":"07","intvolume":"      4004","doi":"10.1007/11761679_20","publication_status":"published","type":"conference","volume":4004,"author":[{"full_name":"Krzysztof Pietrzak","orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","first_name":"Krzysztof Z"}],"publist_id":"3464","date_updated":"2021-01-12T07:41:52Z","status":"public"},{"citation":{"chicago":"D’Angelo, M. A., and Martin Hetzer. “The Role of the Nuclear Envelope in Cellular Organization.” <i>Cellular and Molecular Life Sciences</i>. Springer Nature, 2006. <a href=\"https://doi.org/10.1007/s00018-005-5361-3\">https://doi.org/10.1007/s00018-005-5361-3</a>.","ista":"D’Angelo MA, Hetzer M. 2006. The role of the nuclear envelope in cellular organization. Cellular and Molecular Life Sciences. 63(3), 316–332.","short":"M.A. D’Angelo, M. Hetzer, Cellular and Molecular Life Sciences 63 (2006) 316–332.","apa":"D’Angelo, M. A., &#38; Hetzer, M. (2006). The role of the nuclear envelope in cellular organization. <i>Cellular and Molecular Life Sciences</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00018-005-5361-3\">https://doi.org/10.1007/s00018-005-5361-3</a>","mla":"D’Angelo, M. A., and Martin Hetzer. “The Role of the Nuclear Envelope in Cellular Organization.” <i>Cellular and Molecular Life Sciences</i>, vol. 63, no. 3, Springer Nature, 2006, pp. 316–32, doi:<a href=\"https://doi.org/10.1007/s00018-005-5361-3\">10.1007/s00018-005-5361-3</a>.","ieee":"M. A. D’Angelo and M. Hetzer, “The role of the nuclear envelope in cellular organization,” <i>Cellular and Molecular Life Sciences</i>, vol. 63, no. 3. Springer Nature, pp. 316–332, 2006.","ama":"D’Angelo MA, Hetzer M. The role of the nuclear envelope in cellular organization. <i>Cellular and Molecular Life Sciences</i>. 2006;63(3):316-332. doi:<a href=\"https://doi.org/10.1007/s00018-005-5361-3\">10.1007/s00018-005-5361-3</a>"},"quality_controlled":"1","_id":"11117","publication":"Cellular and Molecular Life Sciences","publisher":"Springer Nature","language":[{"iso":"eng"}],"article_processing_charge":"No","year":"2006","extern":"1","keyword":["Cell Biology","Cellular and Molecular Neuroscience","Pharmacology","Molecular Biology","Molecular Medicine"],"month":"01","intvolume":"        63","title":"The role of the nuclear envelope in cellular organization","issue":"3","day":"02","pmid":1,"date_updated":"2022-07-18T08:56:58Z","type":"journal_article","oa_version":"None","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","date_published":"2006-01-02T00:00:00Z","abstract":[{"text":"Over the last years it has become evident that the nuclear envelope (NE) is more than a passive membrane barrier that separates the nucleus from the cytoplasm. The NE not only controls the trafficking of macromolecules between the nucleoplasm and the cytosol, but also provides anchoring sites for chromosomes and cytoskeleton to the nuclear periphery. Targeting of chromatin to the NE might actually be part of gene expression regulation in eukaryotes. Mutations in certain NE proteins are associated with a diversity of human diseases, including muscular dystrophy, neuropathy, lipodistrophy, torsion dystonia and the premature aging condition progeria. Despite the importance of the NE for cell division and differentiation, relatively little is known about its biogenesis and its role in human diseases. It is our goal to provide a comprehensive view of the NE and to discuss possible implications of NE-associated changes for gene expression, chromatin organization and signal transduction.","lang":"eng"}],"page":"316-332","date_created":"2022-04-07T07:56:22Z","publication_identifier":{"eissn":["1420-9071"],"issn":["1420-682X"]},"doi":"10.1007/s00018-005-5361-3","article_type":"review","external_id":{"pmid":["16389459"]},"status":"public","volume":63,"publication_status":"published","scopus_import":"1","author":[{"last_name":"D’Angelo","first_name":"M. A.","full_name":"D’Angelo, M. A."},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","orcid":"0000-0002-2111-992X","first_name":"Martin W","last_name":"HETZER"}]},{"type":"journal_article","date_updated":"2022-07-18T08:57:04Z","issue":"5772","title":"Nuclear pores form de novo from both sides of the nuclear envelope","day":"21","pmid":1,"intvolume":"       312","keyword":["Multidisciplinary"],"month":"04","extern":"1","year":"2006","publisher":"American Association for the Advancement of Science","language":[{"iso":"eng"}],"article_processing_charge":"No","quality_controlled":"1","_id":"11118","publication":"Science","citation":{"chicago":"D’Angelo, Maximiliano A., Daniel J. Anderson, Erin Richard, and Martin Hetzer. “Nuclear Pores Form de Novo from Both Sides of the Nuclear Envelope.” <i>Science</i>. American Association for the Advancement of Science, 2006. <a href=\"https://doi.org/10.1126/science.1124196\">https://doi.org/10.1126/science.1124196</a>.","short":"M.A. D’Angelo, D.J. Anderson, E. Richard, M. Hetzer, Science 312 (2006) 440–443.","ista":"D’Angelo MA, Anderson DJ, Richard E, Hetzer M. 2006. Nuclear pores form de novo from both sides of the nuclear envelope. Science. 312(5772), 440–443.","apa":"D’Angelo, M. A., Anderson, D. J., Richard, E., &#38; Hetzer, M. (2006). Nuclear pores form de novo from both sides of the nuclear envelope. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1124196\">https://doi.org/10.1126/science.1124196</a>","mla":"D’Angelo, Maximiliano A., et al. “Nuclear Pores Form de Novo from Both Sides of the Nuclear Envelope.” <i>Science</i>, vol. 312, no. 5772, American Association for the Advancement of Science, 2006, pp. 440–43, doi:<a href=\"https://doi.org/10.1126/science.1124196\">10.1126/science.1124196</a>.","ieee":"M. A. D’Angelo, D. J. Anderson, E. Richard, and M. Hetzer, “Nuclear pores form de novo from both sides of the nuclear envelope,” <i>Science</i>, vol. 312, no. 5772. American Association for the Advancement of Science, pp. 440–443, 2006.","ama":"D’Angelo MA, Anderson DJ, Richard E, Hetzer M. Nuclear pores form de novo from both sides of the nuclear envelope. <i>Science</i>. 2006;312(5772):440-443. doi:<a href=\"https://doi.org/10.1126/science.1124196\">10.1126/science.1124196</a>"},"scopus_import":"1","publication_status":"published","volume":312,"author":[{"full_name":"D'Angelo, Maximiliano A.","first_name":"Maximiliano A.","last_name":"D'Angelo"},{"full_name":"Anderson, Daniel J.","last_name":"Anderson","first_name":"Daniel J."},{"last_name":"Richard","first_name":"Erin","full_name":"Richard, Erin"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W","first_name":"Martin W","last_name":"HETZER"}],"external_id":{"pmid":["16627745"]},"status":"public","article_type":"original","date_created":"2022-04-07T07:56:32Z","doi":"10.1126/science.1124196","publication_identifier":{"issn":["0036-8075","1095-9203"]},"page":"440-443","abstract":[{"text":"Nuclear pore complexes are multiprotein channels that span the double lipid bilayer of the nuclear envelope. How new pores are inserted into the intact nuclear envelope of proliferating and differentiating eukaryotic cells is unknown. We found that the Nup107-160 complex was incorporated into assembly sites in the nuclear envelope from both the nucleoplasmic and the cytoplasmic sides. Nuclear pore insertion required the generation of Ran guanosine triphosphate in the nuclear and cytoplasmic compartments. Newly formed nuclear pore complexes did not contain structural components of preexisting pores, suggesting that they can form de novo.","lang":"eng"}],"user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","date_published":"2006-04-21T00:00:00Z","oa_version":"None"}]