[{"publication":"Physical Review Letters","citation":{"ama":"Serbyn M, Skvortsov M, Varlamov A, Galitski V. Serbyn et al. Reply: Physical Review Letters. 2011;106(13). doi:10.1103/PhysRevLett.106.139702","ista":"Serbyn M, Skvortsov M, Varlamov A, Galitski V. 2011. Serbyn et al. Reply: Physical Review Letters. 106(13).","ieee":"M. Serbyn, M. Skvortsov, A. Varlamov, and V. Galitski, “Serbyn et al. Reply:,” Physical Review Letters, vol. 106, no. 13. American Physical Society, 2011.","apa":"Serbyn, M., Skvortsov, M., Varlamov, A., & Galitski, V. (2011). Serbyn et al. Reply: Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.106.139702","mla":"Serbyn, Maksym, et al. “Serbyn et Al. Reply:” Physical Review Letters, vol. 106, no. 13, American Physical Society, 2011, doi:10.1103/PhysRevLett.106.139702.","short":"M. Serbyn, M. Skvortsov, A. Varlamov, V. Galitski, Physical Review Letters 106 (2011).","chicago":"Serbyn, Maksym, Mikhail Skvortsov, Andrei Varlamov, and Victor Galitski. “Serbyn et Al. Reply:” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.106.139702."},"quality_controlled":0,"date_published":"2011-04-01T00:00:00Z","doi":"10.1103/PhysRevLett.106.139702","month":"04","day":"01","_id":"968","year":"2011","publication_status":"published","title":"Serbyn et al. Reply:","status":"public","publisher":"American Physical Society","intvolume":" 106","author":[{"full_name":"Maksym Serbyn","orcid":"0000-0002-2399-5827","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","last_name":"Serbyn","first_name":"Maksym"},{"first_name":"Mikhail","last_name":"Skvortsov","full_name":"Skvortsov, Mikhail A"},{"full_name":"Varlamov, Andrei A","last_name":"Varlamov","first_name":"Andrei"},{"last_name":"Galitski","first_name":"Victor","full_name":"Galitski, Victor M"}],"date_created":"2018-12-11T11:49:27Z","date_updated":"2021-01-12T08:22:19Z","volume":106,"type":"journal_article","abstract":[{"lang":"eng","text":"A Reply to the Comment by Andrei Sergeev, M. Reizer, and V. Mitin."}],"publist_id":"6433","issue":"13","extern":1},{"month":"09","language":[{"iso":"eng"}],"doi":"10.1111/j.1095-8312.2011.01728.x","quality_controlled":"1","publist_id":"3212","volume":104,"date_updated":"2023-02-23T14:07:31Z","date_created":"2018-12-11T12:03:06Z","related_material":{"record":[{"id":"9762","relation":"research_data","status":"public"}]},"author":[{"id":"3F0E2A22-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0343-8329","first_name":"Ferran","last_name":"Palero","full_name":"Palero, Ferran"},{"last_name":"Abello","first_name":"Pere","full_name":"Abello, Pere"},{"full_name":"Macpherson, Enrique","last_name":"Macpherson","first_name":"Enrique"},{"full_name":"Beaumont, Mark","last_name":"Beaumont","first_name":"Mark"},{"first_name":"Marta","last_name":"Pascual","full_name":"Pascual, Marta"}],"publisher":"Wiley-Blackwell","department":[{"_id":"NiBa"}],"publication_status":"published","year":"2011","acknowledgement":"This work was supported by a pre-doctoral fellowship awarded by the Autonomous Government of Catalonia to F.P. (2006FIC-00082). Research was funded by projects FBBVA-BIOCON 08-187/09, CGL2006-13423, and CTM2007-66635. The authors are part of the research group 2009SGR-636, 2009SGR-655, and 2009SGR-1364 of the Generalitat de Catalunya. F.P. acknowledges EU-Synthesys grant (GB-TAF-4474).","article_processing_charge":"No","day":"14","scopus_import":"1","date_published":"2011-09-14T00:00:00Z","page":"407 - 418","citation":{"short":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, Biological Journal of the Linnean Society 104 (2011) 407–418.","mla":"Palero, Ferran, et al. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.” Biological Journal of the Linnean Society, vol. 104, no. 2, Wiley-Blackwell, 2011, pp. 407–18, doi:10.1111/j.1095-8312.2011.01728.x.","chicago":"Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta Pascual. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.” Biological Journal of the Linnean Society. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1095-8312.2011.01728.x.","ama":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. Biological Journal of the Linnean Society. 2011;104(2):407-418. doi:10.1111/j.1095-8312.2011.01728.x","ieee":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas,” Biological Journal of the Linnean Society, vol. 104, no. 2. Wiley-Blackwell, pp. 407–418, 2011.","apa":"Palero, F., Abello, P., Macpherson, E., Beaumont, M., & Pascual, M. (2011). Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. Biological Journal of the Linnean Society. Wiley-Blackwell. https://doi.org/10.1111/j.1095-8312.2011.01728.x","ista":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. Biological Journal of the Linnean Society. 104(2), 407–418."},"publication":"Biological Journal of the Linnean Society","issue":"2","abstract":[{"lang":"eng","text":"Defining population structure and genetic diversity levels is of the utmost importance for developing efficient conservation strategies. Overfishing has caused mean annual catches of the European spiny lobster (Palinurus elephas) to decrease alarmingly along its distribution area. In this context, there is a need for comprehensive studies aiming to evaluate the genetic health of the exploited populations. The present study is based on a set of ten nuclear markers amplified in 331 individuals from ten different localities covering most of P. elephas distribution area. Samples from Atlantic and Mediterranean basins showed small but significant differences, indicating that P. elephas populations do not behave as a single panmictic unit but form two partially-overlapping groups. Despite intense overfishing, our dataset did not recover a recent bottleneck signal, and instead showed a large and stable historical effective size. This result could be accounted for by specific life-history traits (reproduction and longevity) and the limitations of molecular markers in covering recent timescales for nontemporal samples. The findings of the present study emphasize the need to integrate information on effective population sizes and life-history parameters when evaluating population connectivity levels from genetic data."}],"type":"journal_article","oa_version":"None","intvolume":" 104","status":"public","title":"Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas","_id":"3395","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf"},{"abstract":[{"text":"Defining population structure and genetic diversity levels is of the utmost importance for developing efficient conservation strategies. Overfishing has caused mean annual catches of the European spiny lobster (Palinurus elephas) to decrease alarmingly along its distribution area. In this context, there is a need for comprehensive studies to evaluate the genetic health of the exploited populations. The present work is based on a set of 10 nuclear markers amplified in 331 individuals from 10 different localities covering most of P. elephas distribution area. Samples from Atlantic and Mediterranean basins showed small but significant differences, indicating that P. elephas populations do not behave as a single panmictic unit but form two partially-overlapping groups. Despite intense overfishing, our dataset did not recover a recent bottleneck signal, and showed a large and stable historical effective size instead. This result could be accounted for by specific life history traits (reproduction and longevity) and the limitations of molecular markers in covering very recent timescales for non temporal samples. Our study emphasizes the necessity of integrating information on effective population sizes and life history parameters when evaluating population connectivity levels from genetic data.","lang":"eng"}],"type":"research_data_reference","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"3395"}]},"author":[{"orcid":"0000-0002-0343-8329","id":"3F0E2A22-F248-11E8-B48F-1D18A9856A87","last_name":"Palero","first_name":"Ferran","full_name":"Palero, Ferran"},{"last_name":"Abello","first_name":"Pere","full_name":"Abello, Pere"},{"full_name":"Macpherson, Enrique","first_name":"Enrique","last_name":"Macpherson"},{"full_name":"Beaumont, Mark","last_name":"Beaumont","first_name":"Mark"},{"full_name":"Pascual, Marta","first_name":"Marta","last_name":"Pascual"}],"oa_version":"Published Version","date_created":"2021-08-02T07:11:19Z","date_updated":"2023-02-23T11:25:25Z","_id":"9762","year":"2011","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","department":[{"_id":"NiBa"}],"publisher":"IST Austria","status":"public","title":"Data from: Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster (Palinurus elephas)","article_processing_charge":"No","day":"12","month":"05","date_published":"2011-05-12T00:00:00Z","doi":"10.5061/dryad.299h8","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.299h8"}],"citation":{"short":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, (2011).","mla":"Palero, Ferran, et al. Data from: Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster (Palinurus Elephas). IST Austria, 2011, doi:10.5061/dryad.299h8.","chicago":"Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta Pascual. “Data from: Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster (Palinurus Elephas).” IST Austria, 2011. https://doi.org/10.5061/dryad.299h8.","ama":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Data from: Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster (Palinurus elephas). 2011. doi:10.5061/dryad.299h8","ieee":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Data from: Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster (Palinurus elephas).” IST Austria, 2011.","apa":"Palero, F., Abello, P., Macpherson, E., Beaumont, M., & Pascual, M. (2011). Data from: Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster (Palinurus elephas). IST Austria. https://doi.org/10.5061/dryad.299h8","ista":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Data from: Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster (Palinurus elephas), IST Austria, 10.5061/dryad.299h8."},"oa":1},{"title":"Ilastik: Interactive learning and segmentation toolkit","publication_status":"published","status":"public","department":[{"_id":"Bio"}],"publisher":"Institute of Electrical and Electronics Engineers","year":"2011","_id":"9943","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2023-02-23T14:13:38Z","date_created":"2021-08-19T11:49:58Z","oa_version":"Preprint","author":[{"full_name":"Sommer, Christoph M","orcid":"0000-0003-1216-9105","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer","first_name":"Christoph M"},{"full_name":"Straehle, Christoph","last_name":"Straehle","first_name":"Christoph"},{"full_name":"Köthe, Ullrich","last_name":"Köthe","first_name":"Ullrich"},{"last_name":"Hamprecht","first_name":"Fred A.","full_name":"Hamprecht, Fred A."}],"type":"conference","extern":"1","abstract":[{"text":"Segmentation is the process of partitioning digital images into meaningful regions. The analysis of biological high content images often requires segmentation as a first step. We propose ilastik as an easy-to-use tool which allows the user without expertise in image processing to perform segmentation and classification in a unified way. ilastik learns from labels provided by the user through a convenient mouse interface. Based on these labels, ilastik infers a problem specific segmentation. A random forest classifier is used in the learning step, in which each pixel's neighborhood is characterized by a set of generic (nonlinear) features. ilastik supports up to three spatial plus one spectral dimension and makes use of all dimensions in the feature calculation. ilastik provides realtime feedback that enables the user to interactively refine the segmentation result and hence further fine-tune the classifier. An uncertainty measure guides the user to ambiguous regions in the images. Real time performance is achieved by multi-threading which fully exploits the capabilities of modern multi-core machines. Once a classifier has been trained on a set of representative images, it can be exported and used to automatically process a very large number of images (e.g. using the CellProfiler pipeline). ilastik is an open source project and released under the BSD license at www.ilastik.org.","lang":"eng"}],"quality_controlled":"1","publication":"2011 IEEE International Symposium on Biomedical Imaging: from Nano to Micro","main_file_link":[{"url":"https://www.researchgate.net/publication/224241106_Ilastik_Interactive_learning_and_segmentation_toolkit","open_access":"1"}],"citation":{"mla":"Sommer, Christoph M., et al. “Ilastik: Interactive Learning and Segmentation Toolkit.” 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Micro, Institute of Electrical and Electronics Engineers, 2011, doi:10.1109/isbi.2011.5872394.","short":"C.M. Sommer, C. Straehle, U. Köthe, F.A. Hamprecht, in:, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Micro, Institute of Electrical and Electronics Engineers, 2011.","chicago":"Sommer, Christoph M, Christoph Straehle, Ullrich Köthe, and Fred A. Hamprecht. “Ilastik: Interactive Learning and Segmentation Toolkit.” In 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Micro. Institute of Electrical and Electronics Engineers, 2011. https://doi.org/10.1109/isbi.2011.5872394.","ama":"Sommer CM, Straehle C, Köthe U, Hamprecht FA. Ilastik: Interactive learning and segmentation toolkit. In: 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Micro. Institute of Electrical and Electronics Engineers; 2011. doi:10.1109/isbi.2011.5872394","ista":"Sommer CM, Straehle C, Köthe U, Hamprecht FA. 2011. Ilastik: Interactive learning and segmentation toolkit. 2011 IEEE International Symposium on Biomedical Imaging: from Nano to Micro. ISBI: International Symposium on Biomedical Imaging.","ieee":"C. M. Sommer, C. Straehle, U. Köthe, and F. A. Hamprecht, “Ilastik: Interactive learning and segmentation toolkit,” in 2011 IEEE International Symposium on Biomedical Imaging: from Nano to Micro, Chicago, Illinois, USA, 2011.","apa":"Sommer, C. M., Straehle, C., Köthe, U., & Hamprecht, F. A. (2011). Ilastik: Interactive learning and segmentation toolkit. In 2011 IEEE International Symposium on Biomedical Imaging: from Nano to Micro. Chicago, Illinois, USA: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/isbi.2011.5872394"},"oa":1,"language":[{"iso":"eng"}],"conference":{"location":"Chicago, Illinois, USA","start_date":"2011-03-30","end_date":"2011-04-02","name":"ISBI: International Symposium on Biomedical Imaging"},"doi":"10.1109/isbi.2011.5872394","date_published":"2011-06-09T00:00:00Z","keyword":["image segmentation","biomedical imaging","three dimensional displays","neurons","retina","observers","image color analysis"],"day":"09","month":"06","article_processing_charge":"No","publication_identifier":{"issn":["1945-7928"],"isbn":["978-1-4244-4127-3"],"eissn":["1945-8452"]}},{"volume":6658,"date_created":"2022-03-21T08:08:35Z","date_updated":"2023-09-05T14:10:15Z","author":[{"first_name":"Nicole M.","last_name":"Artner","full_name":"Artner, Nicole M."},{"id":"29F89302-F248-11E8-B48F-1D18A9856A87","first_name":"Adrian","last_name":"Ion","full_name":"Ion, Adrian"},{"full_name":"Kropatsch, Walter G.","last_name":"Kropatsch","first_name":"Walter G."}],"department":[{"_id":"HeEd"}],"publisher":"Springer","editor":[{"last_name":"Jiang","first_name":"Xiaoyi","full_name":"Jiang, Xiaoyi"},{"last_name":"Ferrer","first_name":"Miquel","full_name":"Ferrer, Miquel"},{"full_name":"Torsello, Andrea","first_name":"Andrea","last_name":"Torsello"}],"publication_status":"published","year":"2011","acknowledgement":"This work has been partially supported by the Austrian Science Fund under grants S9103-N13 and P18716-N13.","place":"Berlin, Heidelberg","language":[{"iso":"eng"}],"doi":"10.1007/978-3-642-20844-7_22","conference":{"name":"GbRPR: Graph-based Representations in Pattern Recognition","end_date":"2011-05-20","location":"Münster, Germany","start_date":"2011-05-18"},"quality_controlled":"1","publication_identifier":{"issn":["0302-9743"],"eisbn":["9783642208447"],"eissn":["1611-3349"],"isbn":["9783642208430"]},"month":"06","oa_version":"None","intvolume":" 6658","status":"public","title":"Spatio-temporal extraction of articulated models in a graph pyramid","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"10907","abstract":[{"lang":"eng","text":"This paper presents a method to create a model of an articulated object using the planar motion in an initialization video. The model consists of rigid parts connected by points of articulation. The rigid parts are described by the positions of salient feature-points tracked throughout the video. Following a filtering step that identifies points that belong to different objects, rigid parts are found by a grouping process in a graph pyramid. Valid articulation points are selected by verifying multiple hypotheses for each pair of parts."}],"alternative_title":["LNCS"],"type":"conference","date_published":"2011-06-01T00:00:00Z","page":"215-224","citation":{"ista":"Artner NM, Ion A, Kropatsch WG. 2011. Spatio-temporal extraction of articulated models in a graph pyramid. Graph-Based Representations in Pattern Recognition. GbRPR: Graph-based Representations in Pattern RecognitionLNIP, LNCS, vol. 6658, 215–224.","apa":"Artner, N. M., Ion, A., & Kropatsch, W. G. (2011). Spatio-temporal extraction of articulated models in a graph pyramid. In X. Jiang, M. Ferrer, & A. Torsello (Eds.), Graph-Based Representations in Pattern Recognition (Vol. 6658, pp. 215–224). Berlin, Heidelberg: Springer. https://doi.org/10.1007/978-3-642-20844-7_22","ieee":"N. M. Artner, A. Ion, and W. G. Kropatsch, “Spatio-temporal extraction of articulated models in a graph pyramid,” in Graph-Based Representations in Pattern Recognition, Münster, Germany, 2011, vol. 6658, pp. 215–224.","ama":"Artner NM, Ion A, Kropatsch WG. Spatio-temporal extraction of articulated models in a graph pyramid. In: Jiang X, Ferrer M, Torsello A, eds. Graph-Based Representations in Pattern Recognition. Vol 6658. LNIP. Berlin, Heidelberg: Springer; 2011:215-224. doi:10.1007/978-3-642-20844-7_22","chicago":"Artner, Nicole M., Adrian Ion, and Walter G. Kropatsch. “Spatio-Temporal Extraction of Articulated Models in a Graph Pyramid.” In Graph-Based Representations in Pattern Recognition, edited by Xiaoyi Jiang, Miquel Ferrer, and Andrea Torsello, 6658:215–24. LNIP. Berlin, Heidelberg: Springer, 2011. https://doi.org/10.1007/978-3-642-20844-7_22.","mla":"Artner, Nicole M., et al. “Spatio-Temporal Extraction of Articulated Models in a Graph Pyramid.” Graph-Based Representations in Pattern Recognition, edited by Xiaoyi Jiang et al., vol. 6658, Springer, 2011, pp. 215–24, doi:10.1007/978-3-642-20844-7_22.","short":"N.M. Artner, A. Ion, W.G. Kropatsch, in:, X. Jiang, M. Ferrer, A. Torsello (Eds.), Graph-Based Representations in Pattern Recognition, Springer, Berlin, Heidelberg, 2011, pp. 215–224."},"publication":"Graph-Based Representations in Pattern Recognition","article_processing_charge":"No","day":"01","series_title":"LNIP","scopus_import":"1"},{"author":[{"full_name":"Schumann, Kathrin","id":"F44D762E-4F9D-11E9-B64C-9EB26CEFFB5F","first_name":"Kathrin","last_name":"Schumann"}],"date_created":"2018-12-11T12:02:24Z","date_updated":"2023-09-07T11:31:48Z","year":"2011","acknowledgement":"I would like to express my sincere gratitude to the following people who made with their continuous support and encouragement this thesis possible: First, I want to thank Prof. Dr. Michael Sixt for his excellent supervision and mentoring, especially for the nice, relaxed working atmosphere, a lot of brilliant ideas and the freedom to work in my own way.\r\n\r\nProf. Dr. Reinhard Fässler for his constant support of the Sixt lab and for providing excellent working conditions. \r\n\r\nProf. Dr. Sanjiv Luther and Prof. Dr. Tobias Bollenbach for agreeing to be member of my thesis committee and to evaluate my work.\r\n\r\nDr. Walther Göhring, Carmen Schmitz, the Recombinant Protein Production core facility and the animal care takers for providing the “infrastructure” for this thesis. \r\n\r\nProf. Dr. Daniel Legler, Markus Bruckner and Dr. Julien Polleux for very fruitful collaborations and discussions.\r\n\r\nMy labmates for their help, a lot of discussions and to make the Sixt lab to a convenient place to work : Karin Hirsch, Tim Lämmeramnn, Holger Pflicke, Jörg Renkawitz, Michele Weber and Alexander Eichner All members of the Department of Molecular Medicine for their help. Especially I want to thank Sarah Schmidt, Karin Hirsch and Raphael Ruppert for their friendship, nice chats and their uncensored point of view. ","department":[{"_id":"MiSi"}],"publisher":"Institute of Science and Technology Austria","publication_status":"published","publist_id":"3371","file_date_updated":"2021-02-22T11:24:30Z","language":[{"iso":"eng"}],"supervisor":[{"full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","first_name":"Michael K","last_name":"Sixt"}],"degree_awarded":"PhD","oa":1,"publication_identifier":{"issn":["2663-337X"]},"month":"03","pubrep_id":"11","file":[{"content_type":"application/pdf","file_size":4487708,"creator":"dernst","access_level":"closed","file_name":"2011_Thesis_Kathrin_Schumann.pdf","checksum":"e69eee6252660f0b694a2ea8923ddc72","date_created":"2019-03-26T08:12:21Z","date_updated":"2020-07-14T12:46:06Z","relation":"main_file","file_id":"6177"},{"access_level":"open_access","file_name":"2011_Thesis_Schumann_noS.pdf","creator":"dernst","content_type":"application/pdf","file_size":4313127,"file_id":"9175","relation":"main_file","success":1,"checksum":"71727d63f424b5b446f68f4b87ecadc0","date_updated":"2021-02-22T11:24:30Z","date_created":"2021-02-22T11:24:30Z"}],"oa_version":"Published Version","_id":"3275","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["570","579"],"status":"public","title":"The role of chemotactic gradients in dendritic cell migration","abstract":[{"text":"Chemokines organize immune cell trafficking by inducing either directed (tactic) or random (kinetic) migration and by activating integrins in order to support surface adhesion (haptic). Beyond that the same chemokines can establish clearly defined functional areas in secondary lymphoid organs. Until now it is unclear how chemokines can fulfill such diverse functions. One decisive prerequisite to explain these capacities is to know how chemokines are presented in tissue. In theory chemokines could occur either soluble or immobilized, and could be distributed either homogenously or as a concentration gradient. To dissect if and how the presenting mode of chemokines influences immune cells, I tested the response of dendritic cells (DCs) to differentially displayed chemokines. DCs are antigen presenting cells that reside in the periphery and migrate into draining lymph nodes (LNs) once exposed to inflammatory stimuli to activate naïve T cells. DCs are guided to and within the LN by the chemokine receptor CCR7, which has two ligands, the chemokines CCL19 and CCL21. Both CCR7 ligands are expressed by fibroblastic reticular cells in the LN, but differ in their ability to bind to heparan sulfate residues. CCL21 has a highly charged C-terminal extension, which mediates binding to anionic surfaces, whereas CCL19 is lacking such residues and likely distributes as a soluble molecule. This study shows that surface-bound CCL21 causes random, haptokinetic DC motility, which is confined to the chemokine coated area by insideout activation of β2 integrins that mediate cell binding to the surface. CCL19 on the other hand forms concentration gradients which trigger directional, chemotactic movement, but no surface adhesion. In addition DCs can actively manipulate this system by recruiting and activating serine proteases on their surfaces, which create - by proteolytically removing the adhesive C-terminus - a solubilized variant of CCL21 that functionally resembles CCL19. By generating a CCL21 concentration gradient DCs establish a positive feedback loop to recruit further DCs from the periphery to the CCL21 coated region. In addition DCs can sense chemotactic gradients as well as immobilized haptokinetic fields at the same time and integrate these signals. The result is chemotactically biased haptokinesis - directional migration confined to a chemokine coated track or area - which could explain the dynamic but spatially tightly controlled swarming leukocyte locomotion patterns that have been observed in lymphatic organs by intravital microscopists. The finding that DCs can approach soluble cues in a non-adhesive manner while they attach to surfaces coated with immobilized cues raises the question how these cells transmit intracellular forces to the environment, especially in the non-adherent migration mode. In order to migrate, cells have to generate and transmit force to the extracellular substrate. Force transmission is the prerequisite to procure an expansion of the leading edge and a forward motion of the whole cell body. In the current conceptions actin polymerization at the leading edge is coupled to extracellular ligands via the integrin family of transmembrane receptors, which allows the transmission of intracellular force. Against the paradigm of force transmission during migration, leukocytes, like DCs, are able to migrate in threedimensional environments without using integrin transmembrane receptors (Lämmermann et al., 2008). This reflects the biological function of leukocytes, as they can invade almost all tissues, whereby their migration has to be independent from the extracellular environment. How the cells can achieve this is unclear. For this study I examined DC migration in a defined threedimensional environment and highlighted actin-dynamics with the probe Lifeact-GFP. The result was that chemotactic DCs can switch between integrin-dependent and integrin- independent locomotion and can thereby adapt to the adhesive properties of their environment. If the cells are able to couple their actin cytoskeleton to the substrate, actin polymerization is entirely converted into protrusion. Without coupling the actin cortex undergoes slippage and retrograde actin flow can be observed. But retrograde actin flow can be completely compensated by higher actin polymerization rate keeping the migration velocity and the shape of the cells unaltered. Mesenchymal cells like fibroblast cannot balance the loss of adhesive interaction, cannot protrude into open space and, therefore, strictly depend on integrinmediated force coupling. This leukocyte specific phenomenon of “adaptive force transmission” endows these cells with the unique ability to transit and invade almost every type of tissue. ","lang":"eng"}],"type":"dissertation","alternative_title":["ISTA Thesis"],"date_published":"2011-03-01T00:00:00Z","citation":{"short":"K. Schumann, The Role of Chemotactic Gradients in Dendritic Cell Migration, Institute of Science and Technology Austria, 2011.","mla":"Schumann, Kathrin. The Role of Chemotactic Gradients in Dendritic Cell Migration. Institute of Science and Technology Austria, 2011.","chicago":"Schumann, Kathrin. “The Role of Chemotactic Gradients in Dendritic Cell Migration.” Institute of Science and Technology Austria, 2011.","ama":"Schumann K. The role of chemotactic gradients in dendritic cell migration. 2011.","apa":"Schumann, K. (2011). The role of chemotactic gradients in dendritic cell migration. Institute of Science and Technology Austria.","ieee":"K. Schumann, “The role of chemotactic gradients in dendritic cell migration,” Institute of Science and Technology Austria, 2011.","ista":"Schumann K. 2011. The role of chemotactic gradients in dendritic cell migration. Institute of Science and Technology Austria."},"page":"141","article_processing_charge":"No","has_accepted_license":"1","day":"01"},{"author":[{"full_name":"Maître, Jean-Léon","last_name":"Maître","first_name":"Jean-Léon","orcid":"0000-0002-3688-1474","id":"48F1E0D8-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"None","date_created":"2018-12-11T12:02:23Z","date_updated":"2023-09-07T11:30:16Z","year":"2011","_id":"3273","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"CaHe"}],"publisher":"Institute of Science and Technology Austria","status":"public","publication_status":"published","title":"Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors","publist_id":"3373","type":"dissertation","alternative_title":["ISTA Thesis"],"date_published":"2011-12-12T00:00:00Z","language":[{"iso":"eng"}],"supervisor":[{"full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"degree_awarded":"PhD","citation":{"chicago":"Maître, Jean-Léon. “Mechanics of Adhesion and De‐adhesion in Zebrafish Germ Layer Progenitors.” Institute of Science and Technology Austria, 2011.","mla":"Maître, Jean-Léon. Mechanics of Adhesion and De‐adhesion in Zebrafish Germ Layer Progenitors. Institute of Science and Technology Austria, 2011.","short":"J.-L. Maître, Mechanics of Adhesion and De‐adhesion in Zebrafish Germ Layer Progenitors, Institute of Science and Technology Austria, 2011.","ista":"Maître J-L. 2011. Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors. Institute of Science and Technology Austria.","apa":"Maître, J.-L. (2011). Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors. Institute of Science and Technology Austria.","ieee":"J.-L. Maître, “Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors,” Institute of Science and Technology Austria, 2011.","ama":"Maître J-L. Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors. 2011."},"article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"month":"12","day":"12"},{"date_published":"2011-05-01T00:00:00Z","doi":"10.1007/978-3-642-20465-4_3","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques","location":"Tallinn, Estonia","start_date":"2011-05-15","end_date":"2011-05-19"},"language":[{"iso":"eng"}],"citation":{"chicago":"Kiltz, Eike, Krzysztof Z Pietrzak, David Cash, Abhishek Jain, and Daniele Venturi. “Efficient Authentication from Hard Learning Problems,” 6632:7–26. Springer, 2011. https://doi.org/10.1007/978-3-642-20465-4_3.","short":"E. Kiltz, K.Z. Pietrzak, D. Cash, A. Jain, D. Venturi, in:, Springer, 2011, pp. 7–26.","mla":"Kiltz, Eike, et al. Efficient Authentication from Hard Learning Problems. Vol. 6632, Springer, 2011, pp. 7–26, doi:10.1007/978-3-642-20465-4_3.","ieee":"E. Kiltz, K. Z. Pietrzak, D. Cash, A. Jain, and D. Venturi, “Efficient authentication from hard learning problems,” presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Tallinn, Estonia, 2011, vol. 6632, pp. 7–26.","apa":"Kiltz, E., Pietrzak, K. Z., Cash, D., Jain, A., & Venturi, D. (2011). Efficient authentication from hard learning problems (Vol. 6632, pp. 7–26). Presented at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Tallinn, Estonia: Springer. https://doi.org/10.1007/978-3-642-20465-4_3","ista":"Kiltz E, Pietrzak KZ, Cash D, Jain A, Venturi D. 2011. Efficient authentication from hard learning problems. EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 6632, 7–26.","ama":"Kiltz E, Pietrzak KZ, Cash D, Jain A, Venturi D. Efficient authentication from hard learning problems. In: Vol 6632. Springer; 2011:7-26. doi:10.1007/978-3-642-20465-4_3"},"page":"7 - 26","quality_controlled":"1","month":"05","day":"01","related_material":{"record":[{"id":"1187","relation":"later_version","status":"public"}]},"author":[{"full_name":"Kiltz, Eike","last_name":"Kiltz","first_name":"Eike"},{"full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","first_name":"Krzysztof Z"},{"first_name":"David","last_name":"Cash","full_name":"Cash, David"},{"full_name":"Jain, Abhishek","first_name":"Abhishek","last_name":"Jain"},{"first_name":"Daniele","last_name":"Venturi","full_name":"Venturi, Daniele"}],"oa_version":"None","volume":6632,"date_created":"2018-12-11T12:02:11Z","date_updated":"2023-09-20T11:20:57Z","_id":"3238","year":"2011","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","acknowledgement":"The European Regional Development Fund (ERDF),Guardtime,Qualcomm,Swedbank","intvolume":" 6632","publisher":"Springer","publication_status":"published","title":"Efficient authentication from hard learning problems","status":"public","publist_id":"3442","abstract":[{"lang":"eng","text":"We construct efficient authentication protocols and message-authentication codes (MACs) whose security can be reduced to the learning parity with noise (LPN) problem. Despite a large body of work - starting with the HB protocol of Hopper and Blum in 2001 - until now it was not even known how to construct an efficient authentication protocol from LPN which is secure against man-in-the-middle (MIM) attacks. A MAC implies such a (two-round) protocol. © 2011 International Association for Cryptologic Research"}],"extern":"1","type":"conference","alternative_title":["LNCS"]},{"date_updated":"2023-10-10T13:14:59Z","date_created":"2018-12-11T12:03:04Z","volume":187,"author":[{"last_name":"Soriano","first_name":"Silvia","full_name":"Soriano, Silvia"},{"orcid":"0000-0002-6625-3348","first_name":"Miroslav","last_name":"Hons","full_name":"Hons, Miroslav"},{"full_name":"Schumann, Kathrin","last_name":"Schumann","first_name":"Kathrin"},{"full_name":"Kumar, Varsha","last_name":"Kumar","first_name":"Varsha"},{"last_name":"Dennier","first_name":"Timo","full_name":"Dennier, Timo"},{"full_name":"Lyck, Ruth","first_name":"Ruth","last_name":"Lyck"},{"last_name":"Sixt","first_name":"Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K"},{"first_name":"Jens","last_name":"Stein","full_name":"Stein, Jens"}],"publication_status":"published","publisher":"American Association of Immunologists","department":[{"_id":"MiSi"}],"year":"2011","publist_id":"3215","language":[{"iso":"eng"}],"doi":"10.4049/jimmunol.1100935","quality_controlled":"1","month":"09","publication_identifier":{"issn":["0022-1767"],"eissn":["1550-6606"]},"oa_version":"None","status":"public","title":"In vivo analysis of uropod function during physiological T cell trafficking","intvolume":" 187","_id":"3392","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Migrating lymphocytes acquire a polarized phenotype with a leading and a trailing edge, or uropod. Although in vitro experiments in cell lines or activated primary cell cultures have established that Rho-p160 coiled-coil kinase (ROCK)-myosin II-mediated uropod contractility is required for integrin de-adhesion on two-dimensional surfaces and nuclear propulsion through narrow pores in three-dimensional matrices, less is known about the role of these two events during the recirculation of primary, nonactivated lymphocytes. Using pharmacological antagonists of ROCK and myosin II, we report that inhibition of uropod contractility blocked integrin-independent mouse T cell migration through narrow, but not large, pores in vitro. T cell crawling on chemokine-coated endothelial cells under shear was severely impaired by ROCK inhibition, whereas transendothelial migration was only reduced through endothelial cells with high, but not low, barrier properties. Using three-dimensional thick-tissue imaging and dynamic two-photon microscopy of T cell motility in lymphoid tissue, we demonstrated a significant role for uropod contractility in intraluminal crawling and transendothelial migration through lymph node, but not bone marrow, endothelial cells. Finally, we demonstrated that ICAM-1, but not anatomical constraints or integrin-independent interactions, reduced parenchymal motility of inhibitor-treated T cells within the dense lymphoid microenvironment, thus assigning context-dependent roles for uropod contraction during lymphocyte recirculation."}],"issue":"5","type":"journal_article","date_published":"2011-09-01T00:00:00Z","article_type":"original","page":"2356 - 2364","publication":"Journal of Immunology","citation":{"ista":"Soriano S, Hons M, Schumann K, Kumar V, Dennier T, Lyck R, Sixt MK, Stein J. 2011. In vivo analysis of uropod function during physiological T cell trafficking. Journal of Immunology. 187(5), 2356–2364.","ieee":"S. Soriano et al., “In vivo analysis of uropod function during physiological T cell trafficking,” Journal of Immunology, vol. 187, no. 5. American Association of Immunologists, pp. 2356–2364, 2011.","apa":"Soriano, S., Hons, M., Schumann, K., Kumar, V., Dennier, T., Lyck, R., … Stein, J. (2011). In vivo analysis of uropod function during physiological T cell trafficking. Journal of Immunology. American Association of Immunologists. https://doi.org/10.4049/jimmunol.1100935","ama":"Soriano S, Hons M, Schumann K, et al. In vivo analysis of uropod function during physiological T cell trafficking. Journal of Immunology. 2011;187(5):2356-2364. doi:10.4049/jimmunol.1100935","chicago":"Soriano, Silvia, Miroslav Hons, Kathrin Schumann, Varsha Kumar, Timo Dennier, Ruth Lyck, Michael K Sixt, and Jens Stein. “In Vivo Analysis of Uropod Function during Physiological T Cell Trafficking.” Journal of Immunology. American Association of Immunologists, 2011. https://doi.org/10.4049/jimmunol.1100935.","mla":"Soriano, Silvia, et al. “In Vivo Analysis of Uropod Function during Physiological T Cell Trafficking.” Journal of Immunology, vol. 187, no. 5, American Association of Immunologists, 2011, pp. 2356–64, doi:10.4049/jimmunol.1100935.","short":"S. Soriano, M. Hons, K. Schumann, V. Kumar, T. Dennier, R. Lyck, M.K. Sixt, J. Stein, Journal of Immunology 187 (2011) 2356–2364."},"day":"01","article_processing_charge":"No","scopus_import":"1"},{"month":"12","day":"01","scopus_import":1,"date_published":"2011-12-01T00:00:00Z","conference":{"location":"Granada, Spain","start_date":"2011-12-12","end_date":"2011-12-14","name":"NIPS: Neural Information Processing Systems"},"language":[{"iso":"eng"}],"citation":{"chicago":"Lampert, Christoph. “Maximum Margin Multi-Label Structured Prediction.” Neural Information Processing Systems, 2011.","mla":"Lampert, Christoph. Maximum Margin Multi-Label Structured Prediction. Neural Information Processing Systems, 2011.","short":"C. Lampert, in:, Neural Information Processing Systems, 2011.","ista":"Lampert C. 2011. Maximum margin multi-label structured prediction. NIPS: Neural Information Processing Systems.","apa":"Lampert, C. (2011). Maximum margin multi-label structured prediction. Presented at the NIPS: Neural Information Processing Systems, Granada, Spain: Neural Information Processing Systems.","ieee":"C. Lampert, “Maximum margin multi-label structured prediction,” presented at the NIPS: Neural Information Processing Systems, Granada, Spain, 2011.","ama":"Lampert C. Maximum margin multi-label structured prediction. In: Neural Information Processing Systems; 2011."},"quality_controlled":"1","publist_id":"3522","abstract":[{"text":"We study multi-label prediction for structured output sets, a problem that occurs, for example, in object detection in images, secondary structure prediction in computational biology, and graph matching with symmetries. Conventional multilabel classification techniques are typically not applicable in this situation, because they require explicit enumeration of the label set, which is infeasible in case of structured outputs. Relying on techniques originally designed for single-label structured prediction, in particular structured support vector machines, results in reduced prediction accuracy, or leads to infeasible optimization problems. In this work we derive a maximum-margin training formulation for multi-label structured prediction that remains computationally tractable while achieving high prediction accuracy. It also shares most beneficial properties with single-label maximum-margin approaches, in particular formulation as a convex optimization problem, efficient working set training, and PAC-Bayesian generalization bounds.","lang":"eng"}],"type":"conference","related_material":{"record":[{"relation":"later_version","status":"public","id":"3322"}]},"author":[{"last_name":"Lampert","first_name":"Christoph","orcid":"0000-0001-8622-7887","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Lampert, Christoph"}],"oa_version":"None","date_updated":"2023-10-17T11:47:35Z","date_created":"2018-12-11T12:01:45Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"3163","year":"2011","publisher":"Neural Information Processing Systems","department":[{"_id":"ChLa"}],"status":"public","title":"Maximum margin multi-label structured prediction","publication_status":"published"},{"publication":"NIPS: Neural Information Processing Systems","citation":{"chicago":"Lampert, Christoph. Maximum Margin Multi Label Structured Prediction. NIPS: Neural Information Processing Systems. Neural Information Processing Systems Foundation, 2011.","short":"C. Lampert, Maximum Margin Multi Label Structured Prediction, Neural Information Processing Systems Foundation, 2011.","mla":"Lampert, Christoph. “Maximum Margin Multi Label Structured Prediction.” NIPS: Neural Information Processing Systems, Neural Information Processing Systems Foundation, 2011.","apa":"Lampert, C. (2011). Maximum margin multi label structured prediction. NIPS: Neural Information Processing Systems. Neural Information Processing Systems Foundation.","ieee":"C. Lampert, Maximum margin multi label structured prediction. Neural Information Processing Systems Foundation, 2011.","ista":"Lampert C. 2011. Maximum margin multi label structured prediction, Neural Information Processing Systems Foundation,p.","ama":"Lampert C. Maximum Margin Multi Label Structured Prediction. Neural Information Processing Systems Foundation; 2011."},"language":[{"iso":"eng"}],"date_published":"2011-12-13T00:00:00Z","day":"13","month":"12","article_processing_charge":"No","status":"public","publication_status":"published","title":"Maximum margin multi label structured prediction","publisher":"Neural Information Processing Systems Foundation","department":[{"_id":"ChLa"}],"year":"2011","_id":"3322","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T12:02:40Z","date_updated":"2023-10-17T11:47:36Z","oa_version":"None","author":[{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","first_name":"Christoph","last_name":"Lampert","full_name":"Lampert, Christoph"}],"related_material":{"record":[{"status":"public","relation":"earlier_version","id":"3163"}]},"type":"conference_poster","abstract":[{"text":"We study multi-label prediction for structured output spaces, a problem that occurs, for example, in object detection in images, secondary structure prediction in computational biology, and graph matching with symmetries. Conventional multi-label classification techniques are typically not applicable in this situation, because they require explicit enumeration of the label space, which is infeasible in case of structured outputs. Relying on techniques originally designed for single- label structured prediction, in particular structured support vector machines, results in reduced prediction accuracy, or leads to infeasible optimization problems. In this work we derive a maximum-margin training formulation for multi-label structured prediction that remains computationally tractable while achieving high prediction accuracy. It also shares most beneficial properties with single-label maximum-margin approaches, in particular a formulation as a convex optimization problem, efficient working set training, and PAC-Bayesian generalization bounds.","lang":"eng"}],"publist_id":"3313"},{"file":[{"access_level":"open_access","file_name":"2011_CompGraphicsVision_Nowozin.pdf","file_size":3745064,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"7837","checksum":"f1043ef389f1558e2a226bb51568511f","date_created":"2020-05-14T14:34:47Z","date_updated":"2020-07-14T12:46:07Z"}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"3320","title":"Structured learning and prediction in computer vision","status":"public","ddc":["000"],"intvolume":" 6","abstract":[{"text":"Powerful statistical models that can be learned efficiently from large amounts of data are currently revolutionizing computer vision. These models possess a rich internal structure reflecting task-specific relations and constraints. This monograph introduces the reader to the most popular classes of structured models in computer vision. Our focus is discrete undirected graphical models which we cover in detail together with a description of algorithms for both probabilistic inference and maximum a posteriori inference. We discuss separately recently successful techniques for prediction in general structured models. In the second part of this monograph we describe methods for parameter learning where we distinguish the classic maximum likelihood based methods from the more recent prediction-based parameter learning methods. We highlight developments to enhance current models and discuss kernelized models and latent variable models. To make the monograph more practical and to provide links to further study we provide examples of successful application of many methods in the computer vision literature.","lang":"eng"}],"issue":"3-4","type":"journal_article","date_published":"2011-05-23T00:00:00Z","publication":"Foundations and Trends in Computer Graphics and Vision","citation":{"chicago":"Nowozin, Sebastian, and Christoph Lampert. “Structured Learning and Prediction in Computer Vision.” Foundations and Trends in Computer Graphics and Vision. Now Publishers, 2011. https://doi.org/10.1561/0600000033.","short":"S. Nowozin, C. Lampert, Foundations and Trends in Computer Graphics and Vision 6 (2011) 185–365.","mla":"Nowozin, Sebastian, and Christoph Lampert. “Structured Learning and Prediction in Computer Vision.” Foundations and Trends in Computer Graphics and Vision, vol. 6, no. 3–4, Now Publishers, 2011, pp. 185–365, doi:10.1561/0600000033.","ieee":"S. Nowozin and C. Lampert, “Structured learning and prediction in computer vision,” Foundations and Trends in Computer Graphics and Vision, vol. 6, no. 3–4. Now Publishers, pp. 185–365, 2011.","apa":"Nowozin, S., & Lampert, C. (2011). Structured learning and prediction in computer vision. Foundations and Trends in Computer Graphics and Vision. Now Publishers. https://doi.org/10.1561/0600000033","ista":"Nowozin S, Lampert C. 2011. Structured learning and prediction in computer vision. Foundations and Trends in Computer Graphics and Vision. 6(3–4), 185–365.","ama":"Nowozin S, Lampert C. Structured learning and prediction in computer vision. Foundations and Trends in Computer Graphics and Vision. 2011;6(3-4):185-365. doi:10.1561/0600000033"},"article_type":"original","page":"185 - 365","day":"23","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","author":[{"full_name":"Nowozin, Sebastian","last_name":"Nowozin","first_name":"Sebastian"},{"first_name":"Christoph","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph"}],"date_updated":"2023-10-17T11:52:46Z","date_created":"2018-12-11T12:02:39Z","volume":6,"year":"2011","publication_status":"published","department":[{"_id":"ChLa"}],"publisher":"Now Publishers","file_date_updated":"2020-07-14T12:46:07Z","publist_id":"3315","doi":"10.1561/0600000033","language":[{"iso":"eng"}],"oa":1,"quality_controlled":"1","month":"05"},{"scopus_import":"1","article_processing_charge":"No","month":"01","day":"01","citation":{"chicago":"Quadrianto, Novi, and Christoph Lampert. “Learning Multi-View Neighborhood Preserving Projections,” 425–32. ML Research Press, 2011.","mla":"Quadrianto, Novi, and Christoph Lampert. Learning Multi-View Neighborhood Preserving Projections. ML Research Press, 2011, pp. 425–32.","short":"N. Quadrianto, C. Lampert, in:, ML Research Press, 2011, pp. 425–432.","ista":"Quadrianto N, Lampert C. 2011. Learning multi-view neighborhood preserving projections. ICML: International Conference on Machine Learning, 425–432.","apa":"Quadrianto, N., & Lampert, C. (2011). Learning multi-view neighborhood preserving projections (pp. 425–432). Presented at the ICML: International Conference on Machine Learning, Bellevue, United States: ML Research Press.","ieee":"N. Quadrianto and C. Lampert, “Learning multi-view neighborhood preserving projections,” presented at the ICML: International Conference on Machine Learning, Bellevue, United States, 2011, pp. 425–432.","ama":"Quadrianto N, Lampert C. Learning multi-view neighborhood preserving projections. In: ML Research Press; 2011:425-432."},"page":"425 - 432","date_published":"2011-01-01T00:00:00Z","conference":{"end_date":"2011-07-02","location":"Bellevue, United States","start_date":"2011-06-28","name":"ICML: International Conference on Machine Learning"},"language":[{"iso":"eng"}],"type":"conference","publist_id":"3316","abstract":[{"text":"We address the problem of metric learning for multi-view data, namely the construction of embedding projections from data in different representations into a shared feature space, such that the Euclidean distance in this space provides a meaningful within-view as well as between-view similarity. Our motivation stems from the problem of cross-media retrieval tasks, where the availability of a joint Euclidean distance function is a pre-requisite to allow fast, in particular hashing-based, nearest neighbor queries. We formulate an objective function that expresses the intuitive concept that matching samples are mapped closely together in the output space, whereas non-matching samples are pushed apart, no matter in which view they are available. The resulting optimization problem is not convex, but it can be decomposed explicitly into a convex and a concave part, thereby allowing efficient optimization using the convex-concave procedure. Experiments on an image retrieval task show that nearest-neighbor based cross-view retrieval is indeed possible, and the proposed technique improves the retrieval accuracy over baseline techniques.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"3319","year":"2011","publisher":"ML Research Press","department":[{"_id":"ChLa"}],"publication_status":"published","status":"public","title":"Learning multi-view neighborhood preserving projections","author":[{"last_name":"Quadrianto","first_name":"Novi","full_name":"Quadrianto, Novi"},{"first_name":"Christoph","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph"}],"oa_version":"None","date_created":"2018-12-11T12:02:39Z","date_updated":"2023-10-17T11:59:50Z"},{"issue":"7","abstract":[{"text":"The use of optical traps to measure or apply forces on the molecular level requires a precise knowledge of the trapping force field. Close to the trap center, this field is typically approximated as linear in the displacement of the trapped microsphere. However, applications demanding high forces at low laser intensities can probe the light-microsphere interaction beyond the linear regime. Here, we measured the full nonlinear force and displacement response of an optical trap in two dimensions using a dual-beam optical trap setup with back-focal-plane photodetection. We observed a substantial stiffening of the trap beyond the linear regime that depends on microsphere size, in agreement with Mie theory calculations. Surprisingly, we found that the linear detection range for forces exceeds the one for displacement by far. Our approach allows for a complete calibration of an optical trap.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","intvolume":" 36","status":"public","title":"Measuring the complete force field of an optical trap","_id":"3373","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","day":"30","scopus_import":"1","date_published":"2011-03-30T00:00:00Z","page":"1260 - 1262","citation":{"ama":"Jahnel M, Behrndt M, Jannasch A, Schaeffer E, Grill S. Measuring the complete force field of an optical trap. Optics Letters. 2011;36(7):1260-1262. doi:10.1364/OL.36.001260","ista":"Jahnel M, Behrndt M, Jannasch A, Schaeffer E, Grill S. 2011. Measuring the complete force field of an optical trap. Optics Letters. 36(7), 1260–1262.","ieee":"M. Jahnel, M. Behrndt, A. Jannasch, E. Schaeffer, and S. Grill, “Measuring the complete force field of an optical trap,” Optics Letters, vol. 36, no. 7. Optica Publishing Group, pp. 1260–1262, 2011.","apa":"Jahnel, M., Behrndt, M., Jannasch, A., Schaeffer, E., & Grill, S. (2011). Measuring the complete force field of an optical trap. Optics Letters. Optica Publishing Group. https://doi.org/10.1364/OL.36.001260","mla":"Jahnel, Marcus, et al. “Measuring the Complete Force Field of an Optical Trap.” Optics Letters, vol. 36, no. 7, Optica Publishing Group, 2011, pp. 1260–62, doi:10.1364/OL.36.001260.","short":"M. Jahnel, M. Behrndt, A. Jannasch, E. Schaeffer, S. Grill, Optics Letters 36 (2011) 1260–1262.","chicago":"Jahnel, Marcus, Martin Behrndt, Anita Jannasch, Erik Schaeffer, and Stephan Grill. “Measuring the Complete Force Field of an Optical Trap.” Optics Letters. Optica Publishing Group, 2011. https://doi.org/10.1364/OL.36.001260."},"publication":"Optics Letters","publist_id":"3234","volume":36,"date_created":"2018-12-11T12:02:58Z","date_updated":"2023-10-17T12:16:58Z","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"1403"}]},"author":[{"full_name":"Jahnel, Marcus","last_name":"Jahnel","first_name":"Marcus"},{"full_name":"Behrndt, Martin","first_name":"Martin","last_name":"Behrndt","id":"3ECECA3A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Anita","last_name":"Jannasch","full_name":"Jannasch, Anita"},{"first_name":"Erik","last_name":"Schaeffer","full_name":"Schaeffer, Erik"},{"first_name":"Stephan","last_name":"Grill","full_name":"Grill, Stephan"}],"publisher":"Optica Publishing Group","department":[{"_id":"CaHe"}],"publication_status":"published","year":"2011","month":"03","language":[{"iso":"eng"}],"doi":"10.1364/OL.36.001260","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://www.osapublishing.org/ol/abstract.cfm?uri=ol-36-7-1260"}],"oa":1},{"type":"journal_article","issue":"58","abstract":[{"text":"By exploiting an analogy between population genetics and statistical mechanics, we study the evolution of a polygenic trait under stabilizing selection, mutation and genetic drift. This requires us to track only four macroscopic variables, instead of the distribution of all the allele frequencies that influence the trait. These macroscopic variables are the expectations of: the trait mean and its square, the genetic variance, and of a measure of heterozygosity, and are derived from a generating function that is in turn derived by maximizing an entropy measure. These four macroscopics are enough to accurately describe the dynamics of the trait mean and of its genetic variance (and in principle of any other quantity). Unlike previous approaches that were based on an infinite series of moments or cumulants, which had to be truncated arbitrarily, our calculations provide a well-defined approximation procedure. We apply the framework to abrupt and gradual changes in the optimum, as well as to changes in the strength of stabilizing selection. Our approximations are surprisingly accurate, even for systems with as few as five loci. We find that when the effects of drift are included, the expected genetic variance is hardly altered by directional selection, even though it fluctuates in any particular instance. We also find hysteresis, showing that even after averaging over the microscopic variables, the macroscopic trajectories retain a memory of the underlying genetic states.","lang":"eng"}],"intvolume":" 8","status":"public","title":"The statistical mechanics of a polygenic character under stabilizing selection mutation and drift","_id":"3375","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","scopus_import":"1","article_processing_charge":"No","day":"01","page":"720 - 739","article_type":"original","citation":{"ieee":"H. de Vladar and N. H. Barton, “The statistical mechanics of a polygenic character under stabilizing selection mutation and drift,” Journal of the Royal Society Interface, vol. 8, no. 58. The Royal Society, pp. 720–739, 2011.","apa":"de Vladar, H., & Barton, N. H. (2011). The statistical mechanics of a polygenic character under stabilizing selection mutation and drift. Journal of the Royal Society Interface. The Royal Society. https://doi.org/10.1098/rsif.2010.0438","ista":"de Vladar H, Barton NH. 2011. The statistical mechanics of a polygenic character under stabilizing selection mutation and drift. Journal of the Royal Society Interface. 8(58), 720–739.","ama":"de Vladar H, Barton NH. The statistical mechanics of a polygenic character under stabilizing selection mutation and drift. Journal of the Royal Society Interface. 2011;8(58):720-739. doi:10.1098/rsif.2010.0438","chicago":"Vladar, Harold de, and Nicholas H Barton. “The Statistical Mechanics of a Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal of the Royal Society Interface. The Royal Society, 2011. https://doi.org/10.1098/rsif.2010.0438.","short":"H. de Vladar, N.H. Barton, Journal of the Royal Society Interface 8 (2011) 720–739.","mla":"de Vladar, Harold, and Nicholas H. Barton. “The Statistical Mechanics of a Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal of the Royal Society Interface, vol. 8, no. 58, The Royal Society, 2011, pp. 720–39, doi:10.1098/rsif.2010.0438."},"publication":"Journal of the Royal Society Interface","date_published":"2011-05-01T00:00:00Z","ec_funded":1,"publist_id":"3232","publisher":"The Royal Society","department":[{"_id":"NiBa"}],"publication_status":"published","pmid":1,"year":"2011","volume":8,"date_updated":"2023-10-18T06:39:05Z","date_created":"2018-12-11T12:02:58Z","author":[{"full_name":"de Vladar, Harold","id":"2A181218-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5985-7653","first_name":"Harold","last_name":"de Vladar"},{"full_name":"Barton, Nicholas H","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"month":"05","project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","_id":"25B07788-B435-11E9-9278-68D0E5697425","grant_number":"250152"}],"quality_controlled":"1","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3061091/","open_access":"1"}],"external_id":{"pmid":["21084341"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1098/rsif.2010.0438"},{"day":"01","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2011-09-01T00:00:00Z","publication":"American Naturalist","citation":{"apa":"Barton, N. H., & Turelli, M. (2011). Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues of Allee effects. American Naturalist. The University of Chicago Press. https://doi.org/10.1086/661246","ieee":"N. H. Barton and M. Turelli, “Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues of Allee effects,” American Naturalist, vol. 178, no. 3. The University of Chicago Press, pp. E48–E75, 2011.","ista":"Barton NH, Turelli M. 2011. Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues of Allee effects. American Naturalist. 178(3), E48–E75.","ama":"Barton NH, Turelli M. Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues of Allee effects. American Naturalist. 2011;178(3):E48-E75. doi:10.1086/661246","chicago":"Barton, Nicholas H, and Michael Turelli. “Spatial Waves of Advance with Bistable Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American Naturalist. The University of Chicago Press, 2011. https://doi.org/10.1086/661246.","short":"N.H. Barton, M. Turelli, American Naturalist 178 (2011) E48–E75.","mla":"Barton, Nicholas H., and Michael Turelli. “Spatial Waves of Advance with Bistable Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American Naturalist, vol. 178, no. 3, The University of Chicago Press, 2011, pp. E48–75, doi:10.1086/661246."},"article_type":"original","page":"E48 - E75","abstract":[{"lang":"eng","text":"Unlike unconditionally advantageous “Fisherian” variants that tend to spread throughout a species range once introduced anywhere, “bistable” variants, such as chromosome translocations, have two alternative stable frequencies, absence and (near) fixation. Analogous to populations with Allee effects, bistable variants tend to increase locally only once they become sufficiently common, and their spread depends on their rate of increase averaged over all frequencies. Several proposed manipulations of insect populations, such as using Wolbachia or “engineered underdominance” to suppress vector-borne diseases, produce bistable rather than Fisherian dynamics. We synthesize and extend theoretical analyses concerning three features of their spatial behavior: rate of spread, conditions to initiate spread from a localized introduction, and wave stopping caused by variation in population densities or dispersal rates. Unlike Fisherian variants, bistable variants tend to spread spatially only for particular parameter combinations and initial conditions. Wave initiation requires introduction over an extended region, while subsequent spatial spread is slower than for Fisherian waves and can easily be halted by local spatial inhomogeneities. We present several new results, including robust sufficient conditions to initiate (and stop) spread, using a one-parameter cubic approximation applicable to several models. The results have both basic and applied implications."}],"issue":"3","type":"journal_article","pubrep_id":"554","oa_version":"Submitted Version","file":[{"file_name":"IST-2016-554-v1+1_BartonTurelli2011_copy.pdf","access_level":"open_access","creator":"system","content_type":"application/pdf","file_size":629130,"file_id":"4692","relation":"main_file","date_updated":"2020-07-14T12:46:11Z","date_created":"2018-12-12T10:08:31Z","checksum":"7fd22a2ef3321a6fca6a439b3be5d8f4"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"3393","status":"public","title":"Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues of Allee effects","ddc":["570"],"intvolume":" 178","month":"09","publication_identifier":{"eissn":["1537-5323"],"issn":["0003-0147"]},"doi":"10.1086/661246","language":[{"iso":"eng"}],"oa":1,"quality_controlled":"1","file_date_updated":"2020-07-14T12:46:11Z","publist_id":"3214","author":[{"last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H"},{"last_name":"Turelli","first_name":"Michael","full_name":"Turelli, Michael"}],"date_created":"2018-12-11T12:03:05Z","date_updated":"2023-10-18T08:01:43Z","volume":178,"year":"2011","publication_status":"published","publisher":"The University of Chicago Press","department":[{"_id":"NiBa"}]},{"language":[{"iso":"eng"}],"doi":"10.1073/pnas.1012668108","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1012668108"}],"external_id":{"pmid":["21325613"]},"oa":1,"month":"01","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"date_created":"2023-09-06T12:54:36Z","date_updated":"2023-11-07T11:50:29Z","volume":108,"author":[{"full_name":"Bachmann, Annett","first_name":"Annett","last_name":"Bachmann"},{"full_name":"Wildemann, Dirk","last_name":"Wildemann","first_name":"Dirk"},{"full_name":"Praetorius, Florian M","id":"dfec9381-4341-11ee-8fd8-faa02bba7d62","first_name":"Florian M","last_name":"Praetorius"},{"last_name":"Fischer","first_name":"Gunter","full_name":"Fischer, Gunter"},{"full_name":"Kiefhaber, Thomas","last_name":"Kiefhaber","first_name":"Thomas"}],"publication_status":"published","publisher":"Proceedings of the National Academy of Sciences","year":"2011","pmid":1,"extern":"1","date_published":"2011-01-12T00:00:00Z","article_type":"original","page":"3952-3957","publication":"PNAS","citation":{"mla":"Bachmann, Annett, et al. “Mapping Backbone and Side-Chain Interactions in the Transition State of a Coupled Protein Folding and Binding Reaction.” PNAS, vol. 108, no. 10, Proceedings of the National Academy of Sciences, 2011, pp. 3952–57, doi:10.1073/pnas.1012668108.","short":"A. Bachmann, D. Wildemann, F.M. Praetorius, G. Fischer, T. Kiefhaber, PNAS 108 (2011) 3952–3957.","chicago":"Bachmann, Annett, Dirk Wildemann, Florian M Praetorius, Gunter Fischer, and Thomas Kiefhaber. “Mapping Backbone and Side-Chain Interactions in the Transition State of a Coupled Protein Folding and Binding Reaction.” PNAS. Proceedings of the National Academy of Sciences, 2011. https://doi.org/10.1073/pnas.1012668108.","ama":"Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. PNAS. 2011;108(10):3952-3957. doi:10.1073/pnas.1012668108","ista":"Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. 2011. Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. PNAS. 108(10), 3952–3957.","ieee":"A. Bachmann, D. Wildemann, F. M. Praetorius, G. Fischer, and T. Kiefhaber, “Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction,” PNAS, vol. 108, no. 10. Proceedings of the National Academy of Sciences, pp. 3952–3957, 2011.","apa":"Bachmann, A., Wildemann, D., Praetorius, F. M., Fischer, G., & Kiefhaber, T. (2011). Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. PNAS. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1012668108"},"day":"12","article_processing_charge":"No","keyword":["Multidisciplinary"],"scopus_import":"1","oa_version":"Published Version","title":"Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction","status":"public","intvolume":" 108","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14305","abstract":[{"lang":"eng","text":"Understanding the mechanism of protein folding requires a detailed knowledge of the structural properties of the barriers separating unfolded from native conformations. The S-peptide from ribonuclease S forms its α-helical structure only upon binding to the folded S-protein. We characterized the transition state for this binding-induced folding reaction at high resolution by determining the effect of site-specific backbone thioxylation and side-chain modifications on the kinetics and thermodynamics of the reaction, which allows us to monitor formation of backbone hydrogen bonds and side-chain interactions in the transition state. The experiments reveal that α-helical structure in the S-peptide is absent in the transition state of binding. Recognition between the unfolded S-peptide and the S-protein is mediated by loosely packed hydrophobic side-chain interactions in two well defined regions on the S-peptide. Close packing and helix formation occurs rapidly after binding. Introducing hydrophobic residues at positions outside the recognition region can drastically slow down association."}],"issue":"10","type":"journal_article"},{"quality_controlled":"1","article_type":"original","page":"734-747","publication":"Neuron","citation":{"ama":"Sweeney LB, Chou Y-H, Wu Z, et al. Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting. Neuron. 2011;72(5):734-747. doi:10.1016/j.neuron.2011.09.026","ieee":"L. B. Sweeney et al., “Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting,” Neuron, vol. 72, no. 5. Elsevier, pp. 734–747, 2011.","apa":"Sweeney, L. B., Chou, Y.-H., Wu, Z., Joo, W., Komiyama, T., Potter, C. J., … Luo, L. (2011). Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2011.09.026","ista":"Sweeney LB, Chou Y-H, Wu Z, Joo W, Komiyama T, Potter CJ, Kolodkin AL, Garcia KC, Luo L. 2011. Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting. Neuron. 72(5), 734–747.","short":"L.B. Sweeney, Y.-H. Chou, Z. Wu, W. Joo, T. Komiyama, C.J. Potter, A.L. Kolodkin, K.C. Garcia, L. Luo, Neuron 72 (2011) 734–747.","mla":"Sweeney, Lora B., et al. “Secreted Semaphorins from Degenerating Larval ORN Axons Direct Adult Projection Neuron Dendrite Targeting.” Neuron, vol. 72, no. 5, Elsevier, 2011, pp. 734–47, doi:10.1016/j.neuron.2011.09.026.","chicago":"Sweeney, Lora B., Ya-Hui Chou, Zhuhao Wu, William Joo, Takaki Komiyama, Christopher J. Potter, Alex L. Kolodkin, K. Christopher Garcia, and Liqun Luo. “Secreted Semaphorins from Degenerating Larval ORN Axons Direct Adult Projection Neuron Dendrite Targeting.” Neuron. Elsevier, 2011. https://doi.org/10.1016/j.neuron.2011.09.026."},"language":[{"iso":"eng"}],"date_published":"2011-12-08T00:00:00Z","doi":"10.1016/j.neuron.2011.09.026","month":"12","day":"08","article_processing_charge":"No","publication_identifier":{"issn":["0896-6273"]},"publication_status":"published","status":"public","title":"Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting","publisher":"Elsevier","intvolume":" 72","_id":"7701","year":"2011","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2020-04-30T10:36:12Z","date_updated":"2024-01-31T10:13:39Z","volume":72,"oa_version":"None","author":[{"last_name":"Sweeney","first_name":"Lora Beatrice Jaeger","orcid":"0000-0001-9242-5601","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","full_name":"Sweeney, Lora Beatrice Jaeger"},{"full_name":"Chou, Ya-Hui","last_name":"Chou","first_name":"Ya-Hui"},{"last_name":"Wu","first_name":"Zhuhao","full_name":"Wu, Zhuhao"},{"full_name":"Joo, William","first_name":"William","last_name":"Joo"},{"first_name":"Takaki","last_name":"Komiyama","full_name":"Komiyama, Takaki"},{"first_name":"Christopher J.","last_name":"Potter","full_name":"Potter, Christopher J."},{"full_name":"Kolodkin, Alex L.","last_name":"Kolodkin","first_name":"Alex L."},{"full_name":"Garcia, K. Christopher","last_name":"Garcia","first_name":"K. Christopher"},{"full_name":"Luo, Liqun","first_name":"Liqun","last_name":"Luo"}],"type":"journal_article","extern":"1","abstract":[{"text":"During assembly of the Drosophila olfactory circuit, projection neuron (PN) dendrites prepattern the developing antennal lobe before the arrival of axons from their presynaptic partners, the adult olfactory receptor neurons (ORNs). We previously found that levels of transmembrane Semaphorin-1a, which acts as a receptor, instruct PN dendrite targeting along the dorsolateral-ventromedial axis. Here we show that two secreted semaphorins, Sema-2a and Sema-2b, provide spatial cues for PN dendrite targeting. Sema-2a and Sema-2b proteins are distributed in gradients opposing the Sema-1a protein gradient, and Sema-1a binds to Sema-2a-expressing cells. In Sema-2a and Sema-2b double mutants, PN dendrites that normally target dorsolaterally in the antennal lobe mistarget ventromedially, phenocopying cell-autonomous Sema-1a removal from these PNs. Cell ablation, cell-specific knockdown, and rescue experiments indicate that secreted semaphorins from degenerating larval ORN axons direct dendrite targeting. Thus, a degenerating brain structure instructs the wiring of a developing circuit through the repulsive action of secreted semaphorins.","lang":"eng"}],"issue":"5"},{"extern":"1","issue":"2","abstract":[{"text":"Longitudinal axon fascicles within the Drosophila embryonic CNS provide connections between body segments and are required for coordinated neural signaling along the anterior-posterior axis. We show here that establishment of select CNS longitudinal tracts and formation of precise mechanosensory afferent innervation to the same CNS region are coordinately regulated by the secreted semaphorins Sema-2a and Sema-2b. Both Sema-2a and Sema-2b utilize the same neuronal receptor, plexin B (PlexB), but serve distinct guidance functions. Localized Sema-2b attraction promotes the initial assembly of a subset of CNS longitudinal projections and subsequent targeting of chordotonal sensory afferent axons to these same longitudinal connectives, whereas broader Sema-2a repulsion serves to prevent aberrant innervation. In the absence of Sema-2b or PlexB, chordotonal afferent connectivity within the CNS is severely disrupted, resulting in specific larval behavioral deficits. These results reveal that distinct semaphorin-mediated guidance functions converge at PlexB and are critical for functional neural circuit assembly.","lang":"eng"}],"type":"journal_article","oa_version":"None","volume":70,"date_created":"2020-04-30T10:36:30Z","date_updated":"2024-01-31T10:14:29Z","author":[{"first_name":"Zhuhao","last_name":"Wu","full_name":"Wu, Zhuhao"},{"first_name":"Lora Beatrice Jaeger","last_name":"Sweeney","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","orcid":"0000-0001-9242-5601","full_name":"Sweeney, Lora Beatrice Jaeger"},{"last_name":"Ayoob","first_name":"Joseph C.","full_name":"Ayoob, Joseph C."},{"full_name":"Chak, Kayam","first_name":"Kayam","last_name":"Chak"},{"full_name":"Andreone, Benjamin J.","last_name":"Andreone","first_name":"Benjamin J."},{"full_name":"Ohyama, Tomoko","last_name":"Ohyama","first_name":"Tomoko"},{"first_name":"Rex","last_name":"Kerr","full_name":"Kerr, Rex"},{"full_name":"Luo, Liqun","first_name":"Liqun","last_name":"Luo"},{"last_name":"Zlatic","first_name":"Marta","full_name":"Zlatic, Marta"},{"full_name":"Kolodkin, Alex L.","last_name":"Kolodkin","first_name":"Alex L."}],"intvolume":" 70","publisher":"Elsevier","title":"A combinatorial semaphorin code instructs the initial steps of sensory circuit assembly in the Drosophila CNS","status":"public","publication_status":"published","_id":"7702","year":"2011","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","publication_identifier":{"issn":["0896-6273"]},"month":"04","day":"28","language":[{"iso":"eng"}],"date_published":"2011-04-28T00:00:00Z","doi":"10.1016/j.neuron.2011.02.050","page":"281-298","quality_controlled":"1","article_type":"original","citation":{"apa":"Wu, Z., Sweeney, L. B., Ayoob, J. C., Chak, K., Andreone, B. J., Ohyama, T., … Kolodkin, A. L. (2011). A combinatorial semaphorin code instructs the initial steps of sensory circuit assembly in the Drosophila CNS. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2011.02.050","ieee":"Z. Wu et al., “A combinatorial semaphorin code instructs the initial steps of sensory circuit assembly in the Drosophila CNS,” Neuron, vol. 70, no. 2. Elsevier, pp. 281–298, 2011.","ista":"Wu Z, Sweeney LB, Ayoob JC, Chak K, Andreone BJ, Ohyama T, Kerr R, Luo L, Zlatic M, Kolodkin AL. 2011. A combinatorial semaphorin code instructs the initial steps of sensory circuit assembly in the Drosophila CNS. Neuron. 70(2), 281–298.","ama":"Wu Z, Sweeney LB, Ayoob JC, et al. A combinatorial semaphorin code instructs the initial steps of sensory circuit assembly in the Drosophila CNS. Neuron. 2011;70(2):281-298. doi:10.1016/j.neuron.2011.02.050","chicago":"Wu, Zhuhao, Lora B. Sweeney, Joseph C. Ayoob, Kayam Chak, Benjamin J. Andreone, Tomoko Ohyama, Rex Kerr, Liqun Luo, Marta Zlatic, and Alex L. Kolodkin. “A Combinatorial Semaphorin Code Instructs the Initial Steps of Sensory Circuit Assembly in the Drosophila CNS.” Neuron. Elsevier, 2011. https://doi.org/10.1016/j.neuron.2011.02.050.","short":"Z. Wu, L.B. Sweeney, J.C. Ayoob, K. Chak, B.J. Andreone, T. Ohyama, R. Kerr, L. Luo, M. Zlatic, A.L. Kolodkin, Neuron 70 (2011) 281–298.","mla":"Wu, Zhuhao, et al. “A Combinatorial Semaphorin Code Instructs the Initial Steps of Sensory Circuit Assembly in the Drosophila CNS.” Neuron, vol. 70, no. 2, Elsevier, 2011, pp. 281–98, doi:10.1016/j.neuron.2011.02.050."},"publication":"Neuron"}]