[{"main_file_link":[{"url":"https://doi.org/10.1093/mnras/stu1794","open_access":"1"}],"doi":"10.1093/mnras/stu1794","publication_status":"published","day":"08","extern":"1","oa":1,"title":"Direct collapse black hole formation from synchronized pairs of atomic cooling haloes","volume":445,"year":"2014","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"High-redshift quasar observations imply that supermassive black holes (SMBHs) larger than ∼109 M⊙ formed before z=6. That such large SMBHs formed so early in the Universe remains an open theoretical problem. One possibility is that gas in atomic cooling halos exposed to strong Lyman-Werner (LW) radiation forms 104−106 M⊙ supermassive stars which quickly collapse into black holes. We propose a scenario for direct collapse black hole (DCBH) formation based on synchronized pairs of pristine atomic cooling halos. We consider halos at very small separation with one halo being a subhalo of the other. The first halo to surpass the atomic cooling threshold forms stars. Soon after these stars are formed, the other halo reaches the cooling threshold and due to its small distance from the newly formed galaxy, is exposed to the critical LW intensity required to form a DCBH. The main advantage of this scenario is that synchronization can potentially prevent photoevaporation and metal pollution in DCBH-forming halos. Since the halos reach the atomic cooling threshold at nearly the same time, the DCBH-forming halo is only exposed to ionizing radiation for a brief period. Tight synchronization could allow the DCBH to form before stars in the nearby galaxy reach the end of their lives and generate supernovae winds. We use N-body simulations to estimate the abundance of DCBHs formed in this way. The largest source of uncertainty in our estimate is the initial mass function (IMF) of metal free stars formed in atomic cooling halos. We find that even for tight synchronization, the density of DCBHs formed in this scenario could explain the SMBHs implied by z=6 quasar observations. Metal pollution and photoevaporation could potentially reduce the abundance of DCBHs below that required to explain the observations in other models that rely on a high LW flux."}],"article_processing_charge":"No","article_type":"original","date_updated":"2024-09-24T13:02:31Z","publication":"Monthly Notices of the Royal Astronomical Society","type":"journal_article","scopus_import":"1","author":[{"first_name":"Eli","last_name":"Visbal","full_name":"Visbal, Eli"},{"first_name":"Zoltán","last_name":"Haiman","full_name":"Haiman, Zoltán","id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36"},{"full_name":"Bryan, Greg L.","last_name":"Bryan","first_name":"Greg L."}],"oa_version":"Published Version","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_created":"2024-09-06T07:28:59Z","citation":{"chicago":"Visbal, Eli, Zoltán Haiman, and Greg L. Bryan. “Direct Collapse Black Hole Formation from Synchronized Pairs of Atomic Cooling Haloes.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2014. <a href=\"https://doi.org/10.1093/mnras/stu1794\">https://doi.org/10.1093/mnras/stu1794</a>.","short":"E. Visbal, Z. Haiman, G.L. Bryan, Monthly Notices of the Royal Astronomical Society 445 (2014) 1056–1063.","mla":"Visbal, Eli, et al. “Direct Collapse Black Hole Formation from Synchronized Pairs of Atomic Cooling Haloes.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 445, no. 1, Oxford University Press, 2014, pp. 1056–63, doi:<a href=\"https://doi.org/10.1093/mnras/stu1794\">10.1093/mnras/stu1794</a>.","ista":"Visbal E, Haiman Z, Bryan GL. 2014. Direct collapse black hole formation from synchronized pairs of atomic cooling haloes. Monthly Notices of the Royal Astronomical Society. 445(1), 1056–1063.","ieee":"E. Visbal, Z. Haiman, and G. L. Bryan, “Direct collapse black hole formation from synchronized pairs of atomic cooling haloes,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 445, no. 1. Oxford University Press, pp. 1056–1063, 2014.","ama":"Visbal E, Haiman Z, Bryan GL. Direct collapse black hole formation from synchronized pairs of atomic cooling haloes. <i>Monthly Notices of the Royal Astronomical Society</i>. 2014;445(1):1056-1063. doi:<a href=\"https://doi.org/10.1093/mnras/stu1794\">10.1093/mnras/stu1794</a>","apa":"Visbal, E., Haiman, Z., &#38; Bryan, G. L. (2014). Direct collapse black hole formation from synchronized pairs of atomic cooling haloes. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/stu1794\">https://doi.org/10.1093/mnras/stu1794</a>"},"publisher":"Oxford University Press","status":"public","month":"10","page":"1056-1063","quality_controlled":"1","date_published":"2014-10-08T00:00:00Z","issue":"1","publication_identifier":{"issn":["0035-8711","1365-2966"]},"intvolume":"       445","_id":"17650"},{"author":[{"first_name":"Ian D.","last_name":"McGreer","full_name":"McGreer, Ian D."},{"last_name":"Fan","first_name":"Xiaohui","full_name":"Fan, Xiaohui"},{"last_name":"Strauss","first_name":"Michael A.","full_name":"Strauss, Michael A."},{"id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36","full_name":"Haiman, Zoltán","last_name":"Haiman","first_name":"Zoltán"},{"full_name":"Richards, Gordon T.","last_name":"Richards","first_name":"Gordon T."},{"first_name":"Linhua","last_name":"Jiang","full_name":"Jiang, Linhua"},{"full_name":"Bian, Fuyan","first_name":"Fuyan","last_name":"Bian"},{"first_name":"Donald P.","last_name":"Schneider","full_name":"Schneider, Donald P."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","date_published":"2014-09-15T00:00:00Z","quality_controlled":"1","_id":"17689","publication_identifier":{"issn":["1538-3881"]},"intvolume":"       148","issue":"4","publisher":"American Astronomical Society","citation":{"mla":"McGreer, Ian D., et al. “Close Companions to Two High-Redshift Quasars.” <i>The Astronomical Journal</i>, vol. 148, no. 4, 73, American Astronomical Society, 2014, doi:<a href=\"https://doi.org/10.1088/0004-6256/148/4/73\">10.1088/0004-6256/148/4/73</a>.","short":"I.D. McGreer, X. Fan, M.A. Strauss, Z. Haiman, G.T. Richards, L. Jiang, F. Bian, D.P. Schneider, The Astronomical Journal 148 (2014).","ista":"McGreer ID, Fan X, Strauss MA, Haiman Z, Richards GT, Jiang L, Bian F, Schneider DP. 2014. Close companions to two high-redshift quasars. The Astronomical Journal. 148(4), 73.","chicago":"McGreer, Ian D., Xiaohui Fan, Michael A. Strauss, Zoltán Haiman, Gordon T. Richards, Linhua Jiang, Fuyan Bian, and Donald P. Schneider. “Close Companions to Two High-Redshift Quasars.” <i>The Astronomical Journal</i>. American Astronomical Society, 2014. <a href=\"https://doi.org/10.1088/0004-6256/148/4/73\">https://doi.org/10.1088/0004-6256/148/4/73</a>.","apa":"McGreer, I. D., Fan, X., Strauss, M. A., Haiman, Z., Richards, G. T., Jiang, L., … Schneider, D. P. (2014). Close companions to two high-redshift quasars. <i>The Astronomical Journal</i>. American Astronomical Society. <a href=\"https://doi.org/10.1088/0004-6256/148/4/73\">https://doi.org/10.1088/0004-6256/148/4/73</a>","ieee":"I. D. McGreer <i>et al.</i>, “Close companions to two high-redshift quasars,” <i>The Astronomical Journal</i>, vol. 148, no. 4. American Astronomical Society, 2014.","ama":"McGreer ID, Fan X, Strauss MA, et al. Close companions to two high-redshift quasars. <i>The Astronomical Journal</i>. 2014;148(4). doi:<a href=\"https://doi.org/10.1088/0004-6256/148/4/73\">10.1088/0004-6256/148/4/73</a>"},"date_created":"2024-09-06T08:24:25Z","month":"09","status":"public","year":"2014","title":"Close companions to two high-redshift quasars","volume":148,"oa":1,"extern":"1","day":"15","abstract":[{"lang":"eng","text":"We report the serendipitous discoveries of companion galaxies to two high-redshift quasars. SDSS J025617.7+001904 is a z=4.79 quasar included in our recent survey of faint quasars in the SDSS Stripe 82 region. The initial MMT slit spectroscopy shows excess Lyman alpha emission extending well beyond the quasar's light profile. Further imaging and spectroscopy with LBT/MODS1 confirms the presence of a bright galaxy (i_AB = 23.6) located 2arcsec (12 kpc projected) from the quasar with strong Lyman alpha emission (EW_0 ~ 100Ang) at the redshift of the quasar, as well as faint continuum. The second quasar, CFHQS J005006.6+344522 (z=6.25), is included in our recent HST SNAP survey of z~6 quasars searching for evidence of gravitational lensing. Deep imaging with ACS and WFC3 confirms an optical dropout ~4.5 mag fainter than the quasar (Y_AB=25) at a separation of 0.9 arcsec. The red i_775-Y_105 color of the galaxy and its proximity to the quasar (5 kpc projected if at the quasar redshift) strongly favor an association with the quasar. Although it is much fainter than the quasar it is remarkably bright when compared to field galaxies at this redshift, while showing no evidence for lensing. Both systems may represent late-stage mergers of two massive galaxies, with the observed light for one dominated by powerful ongoing star formation and for the other by rapid black hole growth. Observations of close companions are rare; if major mergers are primarily responsible for high-redshift quasar fueling then the phase when progenitor galaxies can be observed as bright companions is relatively short."}],"article_number":"73","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1088/0004-6256/148/4/73"}],"publication_status":"published","doi":"10.1088/0004-6256/148/4/73","type":"journal_article","publication":"The Astronomical Journal","date_updated":"2024-09-25T09:51:31Z","scopus_import":"1","article_type":"original","article_processing_charge":"No"},{"issue":"2","intvolume":"        21","publication_identifier":{"issn":["1600-5775"]},"_id":"7455","quality_controlled":"1","date_updated":"2023-02-23T13:08:22Z","type":"journal_article","publication":"Journal of Synchrotron Radiation","date_published":"2014-01-10T00:00:00Z","status":"public","article_processing_charge":"No","month":"01","page":"395-400","article_type":"original","date_created":"2020-02-05T14:14:48Z","citation":{"ista":"Costanzo T, Benzi F, Ghigna P, Pin S, Spinolo G, d’Acapito F. 2014. Studying the surface reaction between NiO and Al2O3viatotal reflection EXAFS (ReflEXAFS). Journal of Synchrotron Radiation. 21(2), 395–400.","short":"T. Costanzo, F. Benzi, P. Ghigna, S. Pin, G. Spinolo, F. d’Acapito, Journal of Synchrotron Radiation 21 (2014) 395–400.","mla":"Costanzo, Tommaso, et al. “Studying the Surface Reaction between NiO and Al2O3viatotal Reflection EXAFS (ReflEXAFS).” <i>Journal of Synchrotron Radiation</i>, vol. 21, no. 2, International Union of Crystallography, 2014, pp. 395–400, doi:<a href=\"https://doi.org/10.1107/s1600577513031299\">10.1107/s1600577513031299</a>.","chicago":"Costanzo, Tommaso, Federico Benzi, Paolo Ghigna, Sonia Pin, Giorgio Spinolo, and Francesco d’Acapito. “Studying the Surface Reaction between NiO and Al2O3viatotal Reflection EXAFS (ReflEXAFS).” <i>Journal of Synchrotron Radiation</i>. International Union of Crystallography, 2014. <a href=\"https://doi.org/10.1107/s1600577513031299\">https://doi.org/10.1107/s1600577513031299</a>.","ieee":"T. Costanzo, F. Benzi, P. Ghigna, S. Pin, G. Spinolo, and F. d’Acapito, “Studying the surface reaction between NiO and Al2O3viatotal reflection EXAFS (ReflEXAFS),” <i>Journal of Synchrotron Radiation</i>, vol. 21, no. 2. International Union of Crystallography, pp. 395–400, 2014.","apa":"Costanzo, T., Benzi, F., Ghigna, P., Pin, S., Spinolo, G., &#38; d’Acapito, F. (2014). Studying the surface reaction between NiO and Al2O3viatotal reflection EXAFS (ReflEXAFS). <i>Journal of Synchrotron Radiation</i>. International Union of Crystallography. <a href=\"https://doi.org/10.1107/s1600577513031299\">https://doi.org/10.1107/s1600577513031299</a>","ama":"Costanzo T, Benzi F, Ghigna P, Pin S, Spinolo G, d’Acapito F. Studying the surface reaction between NiO and Al2O3viatotal reflection EXAFS (ReflEXAFS). <i>Journal of Synchrotron Radiation</i>. 2014;21(2):395-400. doi:<a href=\"https://doi.org/10.1107/s1600577513031299\">10.1107/s1600577513031299</a>"},"publisher":"International Union of Crystallography","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"The reaction between NiO and (0001)- and ([1\\bar102])-oriented Al2O3 single crystals has been investigated on model experimental systems by using the ReflEXAFS technique. Depth-sensitive information is obtained by collecting data above and below the critical angle for total reflection. A systematic protocol for data analysis, based on the recently developed CARD code, was implemented, and a detailed description of the reactive systems was obtained. In particular, for ([1\\bar102])-oriented Al2O3, the reaction with NiO is almost complete after heating for 6 h at 1273 K, and an almost uniform layer of spinel is found below a mixed (NiO + spinel) layer at the very upmost part of the sample. In the case of the (0001)-oriented Al2O3, for the same temperature and heating time, the reaction shows a lower advancement degree and a residual fraction of at least 30% NiO is detected in the ReflEXAFS spectra. "}],"day":"10","extern":"1","volume":21,"title":"Studying the surface reaction between NiO and Al2O3viatotal reflection EXAFS (ReflEXAFS)","year":"2014","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1107/s1600577513031299","publication_status":"published","author":[{"orcid":"0000-0001-9732-3815","full_name":"Costanzo, Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","last_name":"Costanzo","first_name":"Tommaso"},{"full_name":"Benzi, Federico","last_name":"Benzi","first_name":"Federico"},{"full_name":"Ghigna, Paolo","first_name":"Paolo","last_name":"Ghigna"},{"full_name":"Pin, Sonia","first_name":"Sonia","last_name":"Pin"},{"last_name":"Spinolo","first_name":"Giorgio","full_name":"Spinolo, Giorgio"},{"full_name":"d'Acapito, Francesco","last_name":"d'Acapito","first_name":"Francesco"}]},{"month":"04","article_processing_charge":"No","status":"public","page":"101","date_created":"2018-12-11T11:51:49Z","department":[{"_id":"SyCr"}],"citation":{"chicago":"Stock, Miriam. “Evolution of a Fungal Pathogen towards Individual versus Social Immunity in Ants.” IST Austria, 2014.","short":"M. Stock, Evolution of a Fungal Pathogen towards Individual versus Social Immunity in Ants, IST Austria, 2014.","mla":"Stock, Miriam. <i>Evolution of a Fungal Pathogen towards Individual versus Social Immunity in Ants</i>. IST Austria, 2014.","ista":"Stock M. 2014. Evolution of a fungal pathogen towards individual versus social immunity in ants. IST Austria.","ama":"Stock M. Evolution of a fungal pathogen towards individual versus social immunity in ants. 2014.","apa":"Stock, M. (2014). <i>Evolution of a fungal pathogen towards individual versus social immunity in ants</i>. IST Austria.","ieee":"M. Stock, “Evolution of a fungal pathogen towards individual versus social immunity in ants,” IST Austria, 2014."},"publisher":"IST Austria","_id":"1404","type":"dissertation","date_updated":"2026-04-09T14:33:27Z","date_published":"2014-04-01T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","oa_version":"None","publication_status":"published","OA_place":"publisher","author":[{"id":"42462816-F248-11E8-B48F-1D18A9856A87","full_name":"Stock, Miriam","last_name":"Stock","first_name":"Miriam"}],"publist_id":"5803","language":[{"iso":"eng"}],"supervisor":[{"last_name":"Cremer","first_name":"Sylvia M","full_name":"Cremer, Sylvia M","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"corr_author":"1","abstract":[{"text":"The co-evolution of hosts and pathogens is characterized by continuous adaptations of both parties. Pathogens of social insects need to adapt towards disease defences at two levels: 1) individual immunity of each colony member consisting of behavioural defence strategies as well as humoral and cellular immune responses and 2) social immunity that is collectively performed by all group members comprising behavioural, physiological and organisational defence strategies.\r\n\r\nTo disentangle the selection pressure on pathogens by the collective versus individual level of disease defence in social insects, we performed an evolution experiment using the Argentine Ant, Linepithema humile, as a host and a mixture of the general insect pathogenic fungus Metarhizium spp. (6 strains) as a pathogen. We allowed pathogen evolution over 10 serial host passages to two different evolution host treatments: (1) only individual host immunity in a single host treatment, and (2) simultaneously acting individual and social immunity in a social host treatment, in which an exposed ant was accompanied by two untreated nestmates.\r\n\r\nBefore starting the pathogen evolution experiment, the 6 Metarhizium spp. strains were characterised concerning conidiospore size killing rates in singly and socially reared ants, their competitiveness under coinfecting conditions and their influence on ant behaviour. We analysed how the ancestral atrain mixture changed in conidiospere size, killing rate and strain composition dependent on host treatment (single or social hosts) during 10 passages and found that killing rate and conidiospere size of the pathogen increased under both evolution regimes, but different depending on host treatment.\r\n\r\nTesting the evolved strain mixtures that evolved under either the single or social host treatment under both single and social current rearing conditions in a full factorial design experiment revealed that the additional collective defences in insect societies add new selection pressure for their coevolving pathogens that compromise their ability to adapt to its host at the group level. To our knowledge, this is the first study directly measuring the influence of social immunity on pathogen evolution.","lang":"eng"}],"acknowledgement":"This work was funded by the DFG and the ERC.","day":"01","alternative_title":["IST Austria Thesis"],"year":"2014","title":"Evolution of a fungal pathogen towards individual versus social immunity in ants"},{"publisher":"AIP","citation":{"short":"S.R. Waitukaitis, H. Jaeger, Review of Scientific Instruments 84 (2013).","mla":"Waitukaitis, Scott R., and Heinrich Jaeger. “In Situ Granular Charge Measurement by Free-Fall Videography.” <i>Review of Scientific Instruments</i>, vol. 84, no. 2, 025104, AIP, 2013, doi:<a href=\"https://doi.org/10.1063/1.4789496\">10.1063/1.4789496</a>.","ista":"Waitukaitis SR, Jaeger H. 2013. In situ granular charge measurement by free-fall videography. Review of Scientific Instruments. 84(2), 025104.","chicago":"Waitukaitis, Scott R, and Heinrich Jaeger. “In Situ Granular Charge Measurement by Free-Fall Videography.” <i>Review of Scientific Instruments</i>. AIP, 2013. <a href=\"https://doi.org/10.1063/1.4789496\">https://doi.org/10.1063/1.4789496</a>.","ieee":"S. R. Waitukaitis and H. Jaeger, “In situ granular charge measurement by free-fall videography,” <i>Review of Scientific Instruments</i>, vol. 84, no. 2. AIP, 2013.","apa":"Waitukaitis, S. R., &#38; Jaeger, H. (2013). In situ granular charge measurement by free-fall videography. <i>Review of Scientific Instruments</i>. AIP. <a href=\"https://doi.org/10.1063/1.4789496\">https://doi.org/10.1063/1.4789496</a>","ama":"Waitukaitis SR, Jaeger H. In situ granular charge measurement by free-fall videography. <i>Review of Scientific Instruments</i>. 2013;84(2). doi:<a href=\"https://doi.org/10.1063/1.4789496\">10.1063/1.4789496</a>"},"date_created":"2018-12-11T11:44:42Z","month":"02","status":"public","date_published":"2013-02-07T00:00:00Z","publication":"Review of Scientific Instruments","type":"journal_article","date_updated":"2021-01-12T06:48:39Z","quality_controlled":"1","_id":"115","issue":"2","intvolume":"        84","author":[{"last_name":"Waitukaitis","first_name":"Scott R","orcid":"0000-0002-2299-3176","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Jaeger","first_name":"Heinrich","full_name":"Jaeger, Heinrich"}],"publication_status":"published","doi":"10.1063/1.4789496","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa_version":"None","year":"2013","title":"In situ granular charge measurement by free-fall videography","volume":84,"extern":"1","day":"07","abstract":[{"text":"We present the design and performance characterization of a new experimental technique for measuring individual particle charges in large ensembles of macroscopic grains. The measurement principle is qualitatively similar to that used in determining the elementary charge by Millikan in that it follows individual particle trajectories. However, by taking advantage of new technology we are able to work with macroscopic grains and achieve several orders of magnitude better resolution in charge to mass ratios. By observing freely falling grains accelerated in a horizontal electric field with a co-falling, high-speed video camera, we dramatically increase particle tracking time and measurement precision. Keeping the granular medium under vacuum, we eliminate air drag, leaving the electrostatic force as the primary source of particle accelerations in the co-moving frame. Because the technique is based on direct imaging, we can distinguish between different particle types during the experiment, opening up the possibility of studying charge transfer processes between different particle species. For the ∼300 μm diameter grains reported here, we achieve an average acceleration resolution of ∼0.008 m/s2, a force resolution of ∼500 pN, and a median charge resolution ∼6× 104 elementary charges per grain (corresponding to surface charge densities ∼1 elementary charges per μm2). The primary source of error is indeterminacy in the grain mass, but with higher resolution cameras and better optics this can be further improved. The high degree of resolution and the ability to visually identify particles of different species or sizes with direct imaging make this a powerful new tool to characterize charging processes in granular media.","lang":"eng"}],"acknowledgement":"This work was supported financially by the National Science Foundation (NSF) through its Materials Research Science and Engineering Center (MRSEC) program (DMR-0820054) and by the US Army Research Office through Grant No. W911NF-12-1-0182. S.R.W. acknowledges support from a University of Chicago Millikan Fellowship.","publist_id":"7939","language":[{"iso":"eng"}],"article_number":"025104"},{"article_processing_charge":"No","publication":"Formal Aspects of Computing","type":"journal_article","date_updated":"2025-09-29T13:47:26Z","scopus_import":"1","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1004.2697"}],"ec_funded":1,"publication_status":"published","doi":"10.1007/s00165-013-0283-6","year":"2013","title":"Assume-guarantee synthesis for digital contract signing","volume":26,"oa":1,"day":"04","abstract":[{"text":"We study the automatic synthesis of fair non-repudiation protocols, a class of fair exchange protocols, used for digital contract signing. First, we show how to specify the objectives of the participating agents and the trusted third party as path formulas in linear temporal logic and prove that the satisfaction of these objectives imply fairness; a property required of fair exchange protocols. We then show that weak (co-operative) co-synthesis and classical (strictly competitive) co-synthesis fail, whereas assume-guarantee synthesis (AGS) succeeds. We demonstrate the success of AGS as follows: (a) any solution of AGS is attack-free; no subset of participants can violate the objectives of the other participants; (b) the Asokan-Shoup-Waidner certified mail protocol that has known vulnerabilities is not a solution of AGS; (c) the Kremer-Markowitch non-repudiation protocol is a solution of AGS; and (d) AGS presents a new and symmetric fair non-repudiation protocol that is attack-free. To our knowledge this is the first application of synthesis to fair non-repudiation protocols, and our results show how synthesis can both automatically discover vulnerabilities in protocols and generate correct protocols. The solution to AGS can be computed efficiently as the secure equilibrium solution of three-player graph games. ","lang":"eng"}],"publist_id":"3963","language":[{"iso":"eng"}],"citation":{"mla":"Chatterjee, Krishnendu, and Vishwanath Raman. “Assume-Guarantee Synthesis for Digital Contract Signing.” <i>Formal Aspects of Computing</i>, vol. 26, no. 4, Springer, 2013, pp. 825–59, doi:<a href=\"https://doi.org/10.1007/s00165-013-0283-6\">10.1007/s00165-013-0283-6</a>.","short":"K. Chatterjee, V. Raman, Formal Aspects of Computing 26 (2013) 825–859.","ista":"Chatterjee K, Raman V. 2013. Assume-guarantee synthesis for digital contract signing. Formal Aspects of Computing. 26(4), 825–859.","chicago":"Chatterjee, Krishnendu, and Vishwanath Raman. “Assume-Guarantee Synthesis for Digital Contract Signing.” <i>Formal Aspects of Computing</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s00165-013-0283-6\">https://doi.org/10.1007/s00165-013-0283-6</a>.","ama":"Chatterjee K, Raman V. Assume-guarantee synthesis for digital contract signing. <i>Formal Aspects of Computing</i>. 2013;26(4):825-859. doi:<a href=\"https://doi.org/10.1007/s00165-013-0283-6\">10.1007/s00165-013-0283-6</a>","ieee":"K. Chatterjee and V. Raman, “Assume-guarantee synthesis for digital contract signing,” <i>Formal Aspects of Computing</i>, vol. 26, no. 4. Springer, pp. 825–859, 2013.","apa":"Chatterjee, K., &#38; Raman, V. (2013). Assume-guarantee synthesis for digital contract signing. <i>Formal Aspects of Computing</i>. Springer. <a href=\"https://doi.org/10.1007/s00165-013-0283-6\">https://doi.org/10.1007/s00165-013-0283-6</a>"},"publisher":"Springer","department":[{"_id":"KrCh"}],"date_created":"2018-12-11T11:59:51Z","page":"825 - 859","month":"07","status":"public","date_published":"2013-07-04T00:00:00Z","project":[{"grant_number":"P 23499-N23","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification"},{"grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","call_identifier":"FWF"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7","grant_number":"279307"},{"name":"Microsoft Research Faculty Fellowship","_id":"2587B514-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","_id":"2836","intvolume":"        26","issue":"4","arxiv":1,"external_id":{"isi":["000339105100007"],"arxiv":["1004.2697"]},"author":[{"first_name":"Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Raman, Vishwanath","first_name":"Vishwanath","last_name":"Raman"}],"isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Preprint"},{"article_processing_charge":"No","scopus_import":"1","ddc":["530"],"type":"journal_article","publication":"Electronic Journal of Probability","date_updated":"2025-09-29T13:46:52Z","license":"https://creativecommons.org/licenses/by/4.0/","pubrep_id":"406","doi":"10.1214/EJP.v18-2473","publication_status":"published","file_date_updated":"2020-07-14T12:45:50Z","publist_id":"3962","language":[{"iso":"eng"}],"abstract":[{"text":"We consider a general class of N × N random matrices whose entries hij are independent up to a symmetry constraint, but not necessarily identically distributed. Our main result is a local semicircle law which improves previous results [17] both in the bulk and at the edge. The error bounds are given in terms of the basic small parameter of the model, maxi,j E|hij|2. As a consequence, we prove the universality of the local n-point correlation functions in the bulk spectrum for a class of matrices whose entries do not have comparable variances, including random band matrices with band width W ≫N1-εn with some εn &gt; 0 and with a negligible mean-field component. In addition, we provide a coherent and pedagogical proof of the local semicircle law, streamlining and strengthening previous arguments from [17, 19, 6].","lang":"eng"}],"oa":1,"day":"29","year":"2013","title":"The local semicircle law for a general class of random matrices","volume":18,"month":"05","status":"public","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"page":"1-58","date_created":"2018-12-11T11:59:51Z","department":[{"_id":"LaEr"}],"publisher":"Institute of Mathematical Statistics","citation":{"mla":"Erdös, László, et al. “The Local Semicircle Law for a General Class of Random Matrices.” <i>Electronic Journal of Probability</i>, vol. 18, no. 59, Institute of Mathematical Statistics, 2013, pp. 1–58, doi:<a href=\"https://doi.org/10.1214/EJP.v18-2473\">10.1214/EJP.v18-2473</a>.","short":"L. Erdös, A. Knowles, H. Yau, J. Yin, Electronic Journal of Probability 18 (2013) 1–58.","ista":"Erdös L, Knowles A, Yau H, Yin J. 2013. The local semicircle law for a general class of random matrices. Electronic Journal of Probability. 18(59), 1–58.","chicago":"Erdös, László, Antti Knowles, Horng Yau, and Jun Yin. “The Local Semicircle Law for a General Class of Random Matrices.” <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics, 2013. <a href=\"https://doi.org/10.1214/EJP.v18-2473\">https://doi.org/10.1214/EJP.v18-2473</a>.","ama":"Erdös L, Knowles A, Yau H, Yin J. The local semicircle law for a general class of random matrices. <i>Electronic Journal of Probability</i>. 2013;18(59):1-58. doi:<a href=\"https://doi.org/10.1214/EJP.v18-2473\">10.1214/EJP.v18-2473</a>","ieee":"L. Erdös, A. Knowles, H. Yau, and J. Yin, “The local semicircle law for a general class of random matrices,” <i>Electronic Journal of Probability</i>, vol. 18, no. 59. Institute of Mathematical Statistics, pp. 1–58, 2013.","apa":"Erdös, L., Knowles, A., Yau, H., &#38; Yin, J. (2013). The local semicircle law for a general class of random matrices. <i>Electronic Journal of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/EJP.v18-2473\">https://doi.org/10.1214/EJP.v18-2473</a>"},"_id":"2837","intvolume":"        18","issue":"59","quality_controlled":"1","date_published":"2013-05-29T00:00:00Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","isi":1,"external_id":{"isi":["000319561600001"]},"author":[{"last_name":"Erdös","first_name":"László","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","full_name":"Erdös, László"},{"full_name":"Knowles, Antti","first_name":"Antti","last_name":"Knowles"},{"full_name":"Yau, Horng","last_name":"Yau","first_name":"Horng"},{"full_name":"Yin, Jun","last_name":"Yin","first_name":"Jun"}],"file":[{"checksum":"aac9e52a00cb2f5149dc9e362b5ccf44","file_size":651497,"file_name":"IST-2016-406-v1+1_2473-13759-1-PB.pdf","date_created":"2018-12-12T10:15:46Z","relation":"main_file","access_level":"open_access","creator":"system","content_type":"application/pdf","date_updated":"2020-07-14T12:45:50Z","file_id":"5169"}],"has_accepted_license":"1"},{"series_title":"Lecture Notes in Computer Science","page":"1 - 228","month":"01","editor":[{"first_name":"Antonin","last_name":"Kucera","full_name":"Kucera, Antonin"},{"full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724","last_name":"Henzinger","first_name":"Thomas A"},{"full_name":"Nesetril, Jaroslav","last_name":"Nesetril","first_name":"Jaroslav"},{"full_name":"Vojnar, Tomas","last_name":"Vojnar","first_name":"Tomas"},{"full_name":"Antos, David","first_name":"David","last_name":"Antos"}],"status":"public","citation":{"ista":"Kucera A, Henzinger TA, Nesetril J, Vojnar T, Antos D eds. 2013. Mathematical and Engineering Methods in Computer Science, Springer,p.","short":"A. Kucera, T.A. Henzinger, J. Nesetril, T. Vojnar, D. Antos, eds., Mathematical and Engineering Methods in Computer Science, Springer, 2013.","mla":"Kucera, Antonin, et al., editors. <i>Mathematical and Engineering Methods in Computer Science</i>. Vol. 7721, Springer, 2013, pp. 1–228, doi:<a href=\"https://doi.org/10.1007/978-3-642-36046-6\">10.1007/978-3-642-36046-6</a>.","chicago":"Kucera, Antonin, Thomas A Henzinger, Jaroslav Nesetril, Tomas Vojnar, and David Antos, eds. <i>Mathematical and Engineering Methods in Computer Science</i>. Vol. 7721. Lecture Notes in Computer Science. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-36046-6\">https://doi.org/10.1007/978-3-642-36046-6</a>.","apa":"Kucera, A., Henzinger, T. A., Nesetril, J., Vojnar, T., &#38; Antos, D. (Eds.). (2013). <i>Mathematical and Engineering Methods in Computer Science</i> (Vol. 7721, pp. 1–228). Presented at the MEMICS: Mathematical and Engineering methods in computer science, Znojmo, Czech Republic: Springer. <a href=\"https://doi.org/10.1007/978-3-642-36046-6\">https://doi.org/10.1007/978-3-642-36046-6</a>","ieee":"A. Kucera, T. A. Henzinger, J. Nesetril, T. Vojnar, and D. Antos, Eds., <i>Mathematical and Engineering Methods in Computer Science</i>, vol. 7721. Springer, 2013, pp. 1–228.","ama":"Kucera A, Henzinger TA, Nesetril J, Vojnar T, Antos D, eds. <i>Mathematical and Engineering Methods in Computer Science</i>. Vol 7721. Springer; 2013:1-228. doi:<a href=\"https://doi.org/10.1007/978-3-642-36046-6\">10.1007/978-3-642-36046-6</a>"},"publisher":"Springer","date_created":"2018-12-11T12:00:08Z","department":[{"_id":"ToHe"}],"_id":"2885","intvolume":"      7721","date_published":"2013-01-09T00:00:00Z","type":"conference_editor","date_updated":"2019-08-02T12:37:55Z","quality_controlled":"1","publication_status":"published","doi":"10.1007/978-3-642-36046-6","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","abstract":[{"text":"This volume contains the post-proceedings of the 8th Doctoral Workshop on Mathematical and Engineering Methods in Computer Science, MEMICS 2012, held in Znojmo, Czech Republic, in October, 2012. The 13 thoroughly revised papers were carefully selected out of 31 submissions and are presented together with 6 invited papers. The topics covered by the papers include: computer-aided analysis and verification, applications of game theory in computer science, networks and security, modern trends of graph theory in computer science, electronic systems design and testing, and quantum information processing.","lang":"eng"}],"acknowledgement":"Red Hat Czech Republic, Y Soft","publist_id":"3874","language":[{"iso":"eng"}],"alternative_title":["LNCS"],"year":"2013","volume":7721,"title":"Mathematical and Engineering Methods in Computer Science","conference":{"location":"Znojmo, Czech Republic","name":"MEMICS: Mathematical and Engineering methods in computer science","end_date":"2012-10-28","start_date":"2012-10-25"},"day":"09"},{"month":"04","status":"public","page":"142 - 174","date_created":"2018-12-11T12:01:29Z","department":[{"_id":"KrCh"}],"citation":{"chicago":"Chatterjee, Krishnendu, Luca De Alfaro, Marco Faella, Ritankar Majumdar, and Vishwanath Raman. “Code Aware Resource Management.” <i>Formal Methods in System Design</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s10703-012-0170-4\">https://doi.org/10.1007/s10703-012-0170-4</a>.","ista":"Chatterjee K, De Alfaro L, Faella M, Majumdar R, Raman V. 2013. Code aware resource management. Formal Methods in System Design. 42(2), 142–174.","mla":"Chatterjee, Krishnendu, et al. “Code Aware Resource Management.” <i>Formal Methods in System Design</i>, vol. 42, no. 2, Springer, 2013, pp. 142–74, doi:<a href=\"https://doi.org/10.1007/s10703-012-0170-4\">10.1007/s10703-012-0170-4</a>.","short":"K. Chatterjee, L. De Alfaro, M. Faella, R. Majumdar, V. Raman, Formal Methods in System Design 42 (2013) 142–174.","ieee":"K. Chatterjee, L. De Alfaro, M. Faella, R. Majumdar, and V. Raman, “Code aware resource management,” <i>Formal Methods in System Design</i>, vol. 42, no. 2. Springer, pp. 142–174, 2013.","apa":"Chatterjee, K., De Alfaro, L., Faella, M., Majumdar, R., &#38; Raman, V. (2013). Code aware resource management. <i>Formal Methods in System Design</i>. Springer. <a href=\"https://doi.org/10.1007/s10703-012-0170-4\">https://doi.org/10.1007/s10703-012-0170-4</a>","ama":"Chatterjee K, De Alfaro L, Faella M, Majumdar R, Raman V. Code aware resource management. <i>Formal Methods in System Design</i>. 2013;42(2):142-174. doi:<a href=\"https://doi.org/10.1007/s10703-012-0170-4\">10.1007/s10703-012-0170-4</a>"},"publisher":"Springer","_id":"3116","issue":"2","intvolume":"        42","quality_controlled":"1","date_published":"2013-04-01T00:00:00Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"None","isi":1,"external_id":{"isi":["000316677500002"]},"author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","first_name":"Krishnendu"},{"full_name":"De Alfaro, Luca","last_name":"De Alfaro","first_name":"Luca"},{"last_name":"Faella","first_name":"Marco","full_name":"Faella, Marco"},{"last_name":"Majumdar","first_name":"Ritankar","full_name":"Majumdar, Ritankar"},{"last_name":"Raman","first_name":"Vishwanath","full_name":"Raman, Vishwanath"}],"acknowledgement":"This research was supported in part by the National Science Foundation CAREER award CCR-0132780, by the ONR grant N00014-02-1-0671, by the National Science Foundation grants CCR-0427202 and CCR-0234690, and by the ARP award TO.030.MM.D.","article_processing_charge":"No","scopus_import":"1","type":"journal_article","publication":"Formal Methods in System Design","date_updated":"2025-09-29T13:24:54Z","doi":"10.1007/s10703-012-0170-4","publication_status":"published","publist_id":"3583","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Multithreaded programs coordinate their interaction through synchronization primitives like mutexes and semaphores, which are managed by an OS-provided resource manager. We propose algorithms for the automatic construction of code-aware resource managers for multithreaded embedded applications. Such managers use knowledge about the structure and resource usage (mutex and semaphore usage) of the threads to guarantee deadlock freedom and progress while managing resources in an efficient way. Our algorithms compute managers as winning strategies in certain infinite games, and produce a compact code description of these strategies. We have implemented the algorithms in the tool Cynthesis. Given a multithreaded program in C, the tool produces C code implementing a code-aware resource manager. We show in experiments that Cynthesis produces compact resource managers within a few minutes on a set of embedded benchmarks with up to 6 threads. © 2012 Springer Science+Business Media, LLC."}],"day":"01","year":"2013","volume":42,"title":"Code aware resource management"},{"doi":"10.1021/ja4055367","publication_status":"published","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"We have measured the single-molecule conductance of a family of bithiophene derivatives terminated with methyl sulfide gold-binding linkers using a scanning tunneling microscope based break-junction technique. We find a broad distribution in the single-molecule conductance of bithiophene compared with that of a methyl sulfide terminated biphenyl. Using a combination of experiments and calculations, we show that this increased breadth in the conductance distribution is explained by the difference in 5-fold symmetry of thiophene rings as compared to the 6-fold symmetry of benzene rings. The reduced symmetry of thiophene rings results in a restriction on the torsion angle space available to these molecules when bound between two metal electrodes in a junction, causing each molecular junction to sample a different set of conformers in the conductance measurements. In contrast, the rotations of biphenyl are essentially unimpeded by junction binding, allowing each molecular junction to sample similar conformers. This work demonstrates that the conductance of bithiophene displays a strong dependence on the conformational fluctuations accessible within a given junction configuration, and that the symmetry of such small molecules can significantly influence their conductance behaviors."}],"extern":"1","OA_type":"closed access","day":"01","year":"2013","title":"Impact of molecular symmetry on single-molecule conductance","volume":135,"article_processing_charge":"No","article_type":"letter_note","scopus_import":"1","type":"journal_article","publication":"Journal of the American Chemical Society","date_updated":"2025-01-03T08:00:57Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","external_id":{"arxiv":["23905714"]},"arxiv":1,"author":[{"first_name":"Emma J.","last_name":"Dell","full_name":"Dell, Emma J."},{"full_name":"Capozzi, Brian","last_name":"Capozzi","first_name":"Brian"},{"last_name":"DuBay","first_name":"Kateri H.","full_name":"DuBay, Kateri H."},{"full_name":"Berkelbach, Timothy C.","last_name":"Berkelbach","first_name":"Timothy C."},{"first_name":"Jose Ricardo","last_name":"Moreno","full_name":"Moreno, Jose Ricardo"},{"full_name":"Reichman, David R.","first_name":"David R.","last_name":"Reichman"},{"id":"9ebb78a5-cc0d-11ee-8322-fae086a32caf","full_name":"Venkataraman, Latha","orcid":"0000-0002-6957-6089","last_name":"Venkataraman","first_name":"Latha"},{"last_name":"Campos","first_name":"Luis M.","full_name":"Campos, Luis M."}],"month":"08","status":"public","page":"11724-11727","date_created":"2024-09-09T11:32:00Z","citation":{"chicago":"Dell, Emma J., Brian Capozzi, Kateri H. DuBay, Timothy C. Berkelbach, Jose Ricardo Moreno, David R. Reichman, Latha Venkataraman, and Luis M. Campos. “Impact of Molecular Symmetry on Single-Molecule Conductance.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2013. <a href=\"https://doi.org/10.1021/ja4055367\">https://doi.org/10.1021/ja4055367</a>.","mla":"Dell, Emma J., et al. “Impact of Molecular Symmetry on Single-Molecule Conductance.” <i>Journal of the American Chemical Society</i>, vol. 135, no. 32, American Chemical Society, 2013, pp. 11724–27, doi:<a href=\"https://doi.org/10.1021/ja4055367\">10.1021/ja4055367</a>.","short":"E.J. Dell, B. Capozzi, K.H. DuBay, T.C. Berkelbach, J.R. Moreno, D.R. Reichman, L. Venkataraman, L.M. Campos, Journal of the American Chemical Society 135 (2013) 11724–11727.","ista":"Dell EJ, Capozzi B, DuBay KH, Berkelbach TC, Moreno JR, Reichman DR, Venkataraman L, Campos LM. 2013. Impact of molecular symmetry on single-molecule conductance. Journal of the American Chemical Society. 135(32), 11724–11727.","apa":"Dell, E. J., Capozzi, B., DuBay, K. H., Berkelbach, T. C., Moreno, J. R., Reichman, D. R., … Campos, L. M. (2013). Impact of molecular symmetry on single-molecule conductance. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/ja4055367\">https://doi.org/10.1021/ja4055367</a>","ama":"Dell EJ, Capozzi B, DuBay KH, et al. Impact of molecular symmetry on single-molecule conductance. <i>Journal of the American Chemical Society</i>. 2013;135(32):11724-11727. doi:<a href=\"https://doi.org/10.1021/ja4055367\">10.1021/ja4055367</a>","ieee":"E. J. Dell <i>et al.</i>, “Impact of molecular symmetry on single-molecule conductance,” <i>Journal of the American Chemical Society</i>, vol. 135, no. 32. American Chemical Society, pp. 11724–11727, 2013."},"publisher":"American Chemical Society","_id":"17995","issue":"32","publication_identifier":{"eissn":["1520-5126"],"issn":["0002-7863"]},"intvolume":"       135","quality_controlled":"1","date_published":"2013-08-01T00:00:00Z"},{"department":[{"_id":"ToHe"}],"date_created":"2018-12-11T11:56:47Z","citation":{"apa":"Gupta, A., &#38; Henzinger, T. A. (Eds.). (2013). <i>Computational Methods in Systems Biology</i> (Vol. 8130). Presented at the CMSB: Computational Methods in Systems Biology, Klosterneuburg, Austria: Springer. <a href=\"https://doi.org/10.1007/978-3-642-40708-6\">https://doi.org/10.1007/978-3-642-40708-6</a>","ama":"Gupta A, Henzinger TA, eds. <i>Computational Methods in Systems Biology</i>. Vol 8130. Springer; 2013. doi:<a href=\"https://doi.org/10.1007/978-3-642-40708-6\">10.1007/978-3-642-40708-6</a>","ieee":"A. Gupta and T. A. Henzinger, Eds., <i>Computational Methods in Systems Biology</i>, vol. 8130. Springer, 2013.","mla":"Gupta, Ashutosh, and Thomas A. Henzinger, editors. <i>Computational Methods in Systems Biology</i>. Vol. 8130, Springer, 2013, doi:<a href=\"https://doi.org/10.1007/978-3-642-40708-6\">10.1007/978-3-642-40708-6</a>.","short":"A. Gupta, T.A. Henzinger, eds., Computational Methods in Systems Biology, Springer, 2013.","ista":"Gupta A, Henzinger TA eds. 2013. Computational Methods in Systems Biology, Springer,p.","chicago":"Gupta, Ashutosh, and Thomas A Henzinger, eds. <i>Computational Methods in Systems Biology</i>. Vol. 8130. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-40708-6\">https://doi.org/10.1007/978-3-642-40708-6</a>."},"publisher":"Springer","month":"07","editor":[{"last_name":"Gupta","first_name":"Ashutosh","full_name":"Gupta, Ashutosh","id":"335E5684-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000−0002−2985−7724","full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","first_name":"Thomas A"}],"status":"public","type":"conference_editor","quality_controlled":"1","date_updated":"2024-10-09T20:55:17Z","date_published":"2013-07-01T00:00:00Z","_id":"2288","intvolume":"      8130","publication_identifier":{"isbn":["978-3-642-40707-9"]},"doi":"10.1007/978-3-642-40708-6","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","publication_status":"published","conference":{"start_date":"2013-09-22","end_date":"2013-09-24","location":"Klosterneuburg, Austria","name":"CMSB: Computational Methods in Systems Biology"},"day":"01","alternative_title":["LNCS"],"year":"2013","title":"Computational Methods in Systems Biology","volume":8130,"publist_id":"4643","language":[{"iso":"eng"}],"corr_author":"1","abstract":[{"lang":"eng","text":"This book constitutes the proceedings of the 11th International Conference on Computational Methods in Systems Biology, CMSB 2013, held in Klosterneuburg, Austria, in September 2013. The 15 regular papers included in this volume were carefully reviewed and selected from 27 submissions. They deal with computational models for all levels, from molecular and cellular, to organs and entire organisms."}]},{"doi":"10.1007/s11515-013-1279-6","publication_status":"published","day":"03","year":"2013","volume":8,"title":"Dissection of gene function at clonal level using mosaic analysis with double markers","publist_id":"4624","language":[{"iso":"eng"}],"abstract":[{"text":"MADM (Mosaic Analysis with Double Markers) technology offers a genetic approach in mice to visualize and concomitantly manipulate genetically defined cells at clonal level and single cell resolution. MADM employs Cre recombinase/loxP-dependent interchromosomal mitotic recombination to reconstitute two split marker genes—green GFP and red tdTomato—and can label sparse clones of homozygous mutant cells in one color and wild-type cells in the other color in an otherwise unlabeled background. At present, major MADM applications include lineage tracing, single cell labeling, conditional knockouts in small populations of cells and induction of uniparental chromosome disomy to assess effects of genomic imprinting. MADM can be applied universally in the mouse with the sole limitation being the specificity of the promoter controlling Cre recombinase expression. Here I review recent developments and extensions of the MADM technique and give an overview of the major discoveries and progresses enabled by the implementation of the novel genetic MADM tools.","lang":"eng"}],"corr_author":"1","article_type":"review","type":"journal_article","publication":"Frontiers in Biology","date_updated":"2024-10-09T20:55:16Z","scopus_import":1,"author":[{"first_name":"Simon","last_name":"Hippenmeyer","orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa_version":"None","acknowledgement":"This work was supported by IST Austria institutional funds.","date_created":"2018-12-11T11:56:52Z","department":[{"_id":"SiHi"}],"citation":{"chicago":"Hippenmeyer, Simon. “Dissection of Gene Function at Clonal Level Using Mosaic Analysis with Double Markers.” <i>Frontiers in Biology</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s11515-013-1279-6\">https://doi.org/10.1007/s11515-013-1279-6</a>.","short":"S. Hippenmeyer, Frontiers in Biology 8 (2013) 557–568.","mla":"Hippenmeyer, Simon. “Dissection of Gene Function at Clonal Level Using Mosaic Analysis with Double Markers.” <i>Frontiers in Biology</i>, vol. 8, no. 6, Springer, 2013, pp. 557–68, doi:<a href=\"https://doi.org/10.1007/s11515-013-1279-6\">10.1007/s11515-013-1279-6</a>.","ista":"Hippenmeyer S. 2013. Dissection of gene function at clonal level using mosaic analysis with double markers. Frontiers in Biology. 8(6), 557–568.","ama":"Hippenmeyer S. Dissection of gene function at clonal level using mosaic analysis with double markers. <i>Frontiers in Biology</i>. 2013;8(6):557-568. doi:<a href=\"https://doi.org/10.1007/s11515-013-1279-6\">10.1007/s11515-013-1279-6</a>","apa":"Hippenmeyer, S. (2013). Dissection of gene function at clonal level using mosaic analysis with double markers. <i>Frontiers in Biology</i>. Springer. <a href=\"https://doi.org/10.1007/s11515-013-1279-6\">https://doi.org/10.1007/s11515-013-1279-6</a>","ieee":"S. Hippenmeyer, “Dissection of gene function at clonal level using mosaic analysis with double markers,” <i>Frontiers in Biology</i>, vol. 8, no. 6. Springer, pp. 557–568, 2013."},"publisher":"Springer","month":"09","status":"public","page":"557 - 568","quality_controlled":"1","date_published":"2013-09-03T00:00:00Z","_id":"2303","intvolume":"         8","issue":"6"},{"type":"book","date_updated":"2021-12-21T12:17:19Z","pubrep_id":"725","ddc":["020"],"article_processing_charge":"No","oa":1,"day":"13","year":"2013","alternative_title":["Bibliotheks- und Informationspraxis"],"title":"(Open) Linked Data in Bibliotheken","volume":50,"publist_id":"4621","language":[{"iso":"ger"}],"abstract":[{"text":"Das Buch ist sowohl eine Einführung in die Themen Linked Data, Open Data und Open Linked Data als es auch den konkreten Bezug auf Bibliotheken behandelt. Hierzu werden konkrete Anwendungsprojekte beschrieben. Der Band wendet sich dabei sowohl an Personen aus der Bibliothekspraxis als auch an Personen aus dem Bibliotheksmanagement, die noch nicht mit dem Thema vertraut sind.","lang":"ger"}],"file_date_updated":"2020-07-14T12:45:38Z","doi":"10.1515/9783110278736","publication_status":"published","quality_controlled":"1","date_published":"2013-09-13T00:00:00Z","_id":"2306","publication_identifier":{"issn":["2191-3587"],"eisbn":["9-783-1102-7873-6"],"isbn":[" 978-3-11-027634-3"]},"intvolume":"        50","date_created":"2018-12-11T11:56:53Z","department":[{"_id":"E-Lib"}],"citation":{"ieee":"P. Danowski and A. Pohl, <i>(Open) Linked Data in Bibliotheken</i>, vol. 50. De Gruyter, 2013.","ama":"Danowski P, Pohl A. <i>(Open) Linked Data in Bibliotheken</i>. Vol 50. De Gruyter; 2013. doi:<a href=\"https://doi.org/10.1515/9783110278736\">10.1515/9783110278736</a>","apa":"Danowski, P., &#38; Pohl, A. (2013). <i>(Open) Linked Data in Bibliotheken</i> (Vol. 50). De Gruyter. <a href=\"https://doi.org/10.1515/9783110278736\">https://doi.org/10.1515/9783110278736</a>","chicago":"Danowski, Patrick, and Adrian Pohl. <i>(Open) Linked Data in Bibliotheken</i>. Vol. 50. De Gruyter, 2013. <a href=\"https://doi.org/10.1515/9783110278736\">https://doi.org/10.1515/9783110278736</a>.","ista":"Danowski P, Pohl A. 2013. (Open) Linked Data in Bibliotheken, De Gruyter,p.","short":"P. Danowski, A. Pohl, (Open) Linked Data in Bibliotheken, De Gruyter, 2013.","mla":"Danowski, Patrick, and Adrian Pohl. <i>(Open) Linked Data in Bibliotheken</i>. 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Patrick","first_name":"Patrick","last_name":"Danowski"},{"last_name":"Pohl","first_name":"Adrian","full_name":"Pohl, Adrian"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version"},{"_id":"17653","issue":"4","publication_identifier":{"issn":["1365-2966","0035-8711"]},"intvolume":"       435","date_published":"2013-09-10T00:00:00Z","quality_controlled":"1","page":"3559-3567","month":"09","status":"public","publisher":"Oxford University Press","citation":{"mla":"Tanaka, Takamitsu L., et al. “The Effect of Baryonic Streaming Motions on the Formation of the First Supermassive Black Holes.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 435, no. 4, Oxford University Press, 2013, pp. 3559–67, doi:<a href=\"https://doi.org/10.1093/mnras/stt1553\">10.1093/mnras/stt1553</a>.","short":"T.L. Tanaka, M. Li, Z. Haiman, Monthly Notices of the Royal Astronomical Society 435 (2013) 3559–3567.","ista":"Tanaka TL, Li M, Haiman Z. 2013. The effect of baryonic streaming motions on the formation of the first supermassive black holes. Monthly Notices of the Royal Astronomical Society. 435(4), 3559–3567.","chicago":"Tanaka, Takamitsu L., Miao Li, and Zoltán Haiman. “The Effect of Baryonic Streaming Motions on the Formation of the First Supermassive Black Holes.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2013. <a href=\"https://doi.org/10.1093/mnras/stt1553\">https://doi.org/10.1093/mnras/stt1553</a>.","apa":"Tanaka, T. L., Li, M., &#38; Haiman, Z. (2013). The effect of baryonic streaming motions on the formation of the first supermassive black holes. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/stt1553\">https://doi.org/10.1093/mnras/stt1553</a>","ieee":"T. L. Tanaka, M. Li, and Z. Haiman, “The effect of baryonic streaming motions on the formation of the first supermassive black holes,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 435, no. 4. Oxford University Press, pp. 3559–3567, 2013.","ama":"Tanaka TL, Li M, Haiman Z. The effect of baryonic streaming motions on the formation of the first supermassive black holes. <i>Monthly Notices of the Royal Astronomical Society</i>. 2013;435(4):3559-3567. doi:<a href=\"https://doi.org/10.1093/mnras/stt1553\">10.1093/mnras/stt1553</a>"},"date_created":"2024-09-06T07:31:32Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa_version":"Published Version","author":[{"full_name":"Tanaka, Takamitsu L.","first_name":"Takamitsu L.","last_name":"Tanaka"},{"last_name":"Li","first_name":"Miao","full_name":"Li, Miao"},{"id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36","full_name":"Haiman, Zoltán","last_name":"Haiman","first_name":"Zoltán"}],"scopus_import":"1","publication":"Monthly Notices of the Royal Astronomical Society","type":"journal_article","date_updated":"2024-09-24T13:26:36Z","article_type":"original","article_processing_charge":"No","abstract":[{"text":"Observations of quasars at redshifts z > 6 reveal that 10^9 Msol supermassive black holes (SMBHs) had already formed when the Universe was < 0.9 Gyr old. One hypothesis for the origins of these SMBHs is that they grew from the remnants of the first generation of massive stars, which formed in low-mass (~ 10^5 to 10^6 Msol) dark matter minihaloes at z > 20. This is the regime where baryonic streaming motions--the relative velocities of baryons with respect to dark matter in the early Universe--most strongly inhibit star formation by suppressing gas infall and cooling. We investigate the impact of this effect on the growth of the first SMBHs using a suite of high-fidelity, ellipsoidal-collapse Monte Carlo merger-tree simulations. We find that the suppression of seed BH formation by the streaming motions significantly reduces the number density of the most massive BHs at z > 15, but the residual effect at lower redshifts is essentially negligible. The streaming motions can reduce by a factor of few the number density of the most luminous quasars at z ~ 10-11, where such objects could be detected by the James Webb Space Telescope. We conclude, with minor theoretical caveats, that baryonic streaming motions are unlikely to pose a significant additional obstacle to the formation of the observed high-redshift quasar SMBHs. Nor do they appreciably affect the heating and reionization histories of the Universe or the merger rates of nuclear BHs in the mass and redshift ranges of interest for proposed gravitational-wave detectors.","lang":"eng"}],"language":[{"iso":"eng"}],"year":"2013","title":"The effect of baryonic streaming motions on the formation of the first supermassive black holes","volume":435,"extern":"1","oa":1,"day":"10","publication_status":"published","doi":"10.1093/mnras/stt1553","main_file_link":[{"url":"https://doi.org/10.1093/mnras/stt1553","open_access":"1"}]},{"author":[{"full_name":"Haller, Jens D.","first_name":"Jens D.","last_name":"Haller"},{"full_name":"Schanda, Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606","last_name":"Schanda","first_name":"Paul"}],"oa_version":"None","doi":"10.1007/s10858-013-9787-x","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","day":"09","extern":"1","title":"Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin","volume":57,"year":"2013","language":[{"iso":"eng"}],"keyword":["Spectroscopy","Biochemistry"],"abstract":[{"lang":"eng","text":"Solid-state NMR provides insight into protein motion over time scales ranging from picoseconds to seconds. While in solution state the methodology to measure protein dynamics is well established, there is currently no such consensus protocol for measuring dynamics in solids. In this article, we perform a detailed investigation of measurement protocols for fast motions, i.e. motions ranging from picoseconds to a few microseconds, which is the range covered by dipolar coupling and relaxation experiments. We perform a detailed theoretical investigation how dipolar couplings and relaxation data can provide information about amplitudes and time scales of local motion. We show that the measurement of dipolar couplings is crucial for obtaining accurate motional parameters, while systematic errors are found when only relaxation data are used. Based on this realization, we investigate how the REDOR experiment can provide such data in a very accurate manner. We identify that with accurate rf calibration, and explicit consideration of rf field inhomogeneities, one can obtain highly accurate absolute order parameters. We then perform joint model-free analyses of 6 relaxation data sets and dipolar couplings, based on previously existing, as well as new data sets on microcrystalline ubiquitin. We show that nanosecond motion can be detected primarily in loop regions, and compare solid-state data to solution-state relaxation and RDC analyses. The protocols investigated here will serve as a useful basis towards the establishment of a routine protocol for the characterization of ps–μs motions in proteins by solid-state NMR."}],"date_created":"2020-09-18T10:09:05Z","citation":{"ista":"Haller JD, Schanda P. 2013. Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin. Journal of Biomolecular NMR. 57(3), 263–280.","mla":"Haller, Jens D., and Paul Schanda. “Amplitudes and Time Scales of Picosecond-to-Microsecond Motion in Proteins Studied by Solid-State NMR: A Critical Evaluation of Experimental Approaches and Application to Crystalline Ubiquitin.” <i>Journal of Biomolecular NMR</i>, vol. 57, no. 3, Springer Nature, 2013, pp. 263–80, doi:<a href=\"https://doi.org/10.1007/s10858-013-9787-x\">10.1007/s10858-013-9787-x</a>.","short":"J.D. Haller, P. Schanda, Journal of Biomolecular NMR 57 (2013) 263–280.","chicago":"Haller, Jens D., and Paul Schanda. “Amplitudes and Time Scales of Picosecond-to-Microsecond Motion in Proteins Studied by Solid-State NMR: A Critical Evaluation of Experimental Approaches and Application to Crystalline Ubiquitin.” <i>Journal of Biomolecular NMR</i>. Springer Nature, 2013. <a href=\"https://doi.org/10.1007/s10858-013-9787-x\">https://doi.org/10.1007/s10858-013-9787-x</a>.","apa":"Haller, J. D., &#38; Schanda, P. (2013). Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin. <i>Journal of Biomolecular NMR</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10858-013-9787-x\">https://doi.org/10.1007/s10858-013-9787-x</a>","ieee":"J. D. Haller and P. Schanda, “Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin,” <i>Journal of Biomolecular NMR</i>, vol. 57, no. 3. Springer Nature, pp. 263–280, 2013.","ama":"Haller JD, Schanda P. Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin. <i>Journal of Biomolecular NMR</i>. 2013;57(3):263-280. doi:<a href=\"https://doi.org/10.1007/s10858-013-9787-x\">10.1007/s10858-013-9787-x</a>"},"publisher":"Springer Nature","status":"public","article_processing_charge":"No","month":"10","page":"263-280","article_type":"original","date_updated":"2021-01-12T08:19:26Z","quality_controlled":"1","publication":"Journal of Biomolecular NMR","type":"journal_article","date_published":"2013-10-09T00:00:00Z","issue":"3","intvolume":"        57","publication_identifier":{"issn":["0925-2738","1573-5001"]},"_id":"8461"},{"date_updated":"2021-01-12T08:21:25Z","publication":"BMC Research Notes","type":"journal_article","date_published":"2013-01-01T00:00:00Z","issue":"1","intvolume":"         6","_id":"894","date_created":"2018-12-11T11:49:04Z","citation":{"apa":"Derelle, R., Kondrashov, F., Arkhipov, V., Corbel, H., Frantz, A., Gasparini, J., … Baudry, E. (2013). Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MC1R. <i>BMC Research Notes</i>. BioMed Central. <a href=\"https://doi.org/10.1186/1756-0500-6-310\">https://doi.org/10.1186/1756-0500-6-310</a>","ieee":"R. Derelle <i>et al.</i>, “Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MC1R,” <i>BMC Research Notes</i>, vol. 6, no. 1. BioMed Central, 2013.","ama":"Derelle R, Kondrashov F, Arkhipov V, et al. Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MC1R. <i>BMC Research Notes</i>. 2013;6(1). doi:<a href=\"https://doi.org/10.1186/1756-0500-6-310\">10.1186/1756-0500-6-310</a>","short":"R. Derelle, F. Kondrashov, V. Arkhipov, H. Corbel, A. Frantz, J. Gasparini, L. Jacquin, G. Jacob, S. Thibault, E. Baudry, BMC Research Notes 6 (2013).","mla":"Derelle, Romain, et al. “Color Differences among Feral Pigeons (Columba Livia) Are Not Attributable to Sequence Variation in the Coding Region of the Melanocortin-1 Receptor Gene MC1R.” <i>BMC Research Notes</i>, vol. 6, no. 1, BioMed Central, 2013, doi:<a href=\"https://doi.org/10.1186/1756-0500-6-310\">10.1186/1756-0500-6-310</a>.","ista":"Derelle R, Kondrashov F, Arkhipov V, Corbel H, Frantz A, Gasparini J, Jacquin L, Jacob G, Thibault S, Baudry E. 2013. Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MC1R. BMC Research Notes. 6(1).","chicago":"Derelle, Romain, Fyodor Kondrashov, Vladimir Arkhipov, Hélène Corbel, Adrien Frantz, Julien Gasparini, Lisa Jacquin, Gwenaël Jacob, Sophie Thibault, and Emmanuelle Baudry. “Color Differences among Feral Pigeons (Columba Livia) Are Not Attributable to Sequence Variation in the Coding Region of the Melanocortin-1 Receptor Gene MC1R.” <i>BMC Research Notes</i>. BioMed Central, 2013. <a href=\"https://doi.org/10.1186/1756-0500-6-310\">https://doi.org/10.1186/1756-0500-6-310</a>."},"publisher":"BioMed Central","status":"public","month":"01","day":"01","extern":"1","volume":6,"title":"Color differences among feral pigeons (Columba livia) are not attributable to sequence variation in the coding region of the melanocortin-1 receptor gene MC1R","year":"2013","language":[{"iso":"eng"}],"publist_id":"6752","acknowledgement":"Romain Derelle was supported by grant from Plan Nacional 004302 BFU2012-31329. Fyodor A Kondrashov was supported by grants HHMI (Howard Hughes Medical Institute) 003803 and EMBO 003691 EUI-EURYIP-2011-4320.","abstract":[{"text":"Background: Genetic variation at the melanocortin-1 receptor (MC1R) gene is correlated with melanin color variation in many birds. Feral pigeons (Columba livia) show two major melanin-based colorations: a red coloration due to pheomelanic pigment and a black coloration due to eumelanic pigment. Furthermore, within each color type, feral pigeons display continuous variation in the amount of melanin pigment present in the feathers, with individuals varying from pure white to a full dark melanic color. Coloration is highly heritable and it has been suggested that it is under natural or sexual selection, or both. Our objective was to investigate whether MC1R allelic variants are associated with plumage color in feral pigeons. Findings. We sequenced 888 bp of the coding sequence of MC1R among pigeons varying both in the type, eumelanin or pheomelanin, and the amount of melanin in their feathers. We detected 10 non-synonymous substitutions and 2 synonymous substitution but none of them were associated with a plumage type. It remains possible that non-synonymous substitutions that influence coloration are present in the short MC1R fragment that we did not sequence but this seems unlikely because we analyzed the entire functionally important region of the gene. Conclusions: Our results show that color differences among feral pigeons are probably not attributable to amino acid variation at the MC1R locus. Therefore, variation in regulatory regions of MC1R or variation in other genes may be responsible for the color polymorphism of feral pigeons.","lang":"eng"}],"author":[{"last_name":"Derelle","first_name":"Romain","full_name":"Derelle, Romain"},{"last_name":"Kondrashov","first_name":"Fyodor","orcid":"0000-0001-8243-4694","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","full_name":"Kondrashov, Fyodor"},{"last_name":"Arkhipov","first_name":"Vladimir","full_name":"Arkhipov, Vladimir"},{"last_name":"Corbel","first_name":"Hélène","full_name":"Corbel, Hélène"},{"first_name":"Adrien","last_name":"Frantz","full_name":"Frantz, Adrien"},{"full_name":"Gasparini, Julien","first_name":"Julien","last_name":"Gasparini"},{"full_name":"Jacquin, Lisa","first_name":"Lisa","last_name":"Jacquin"},{"last_name":"Jacob","first_name":"Gwenaël","full_name":"Jacob, Gwenaël"},{"full_name":"Thibault, Sophie","last_name":"Thibault","first_name":"Sophie"},{"full_name":"Baudry, Emmanuelle","last_name":"Baudry","first_name":"Emmanuelle"}],"oa_version":"None","doi":"10.1186/1756-0500-6-310","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published"},{"date_updated":"2025-09-30T07:10:06Z","type":"journal_article","publication":"Current Biology","scopus_import":"1","article_processing_charge":"No","volume":23,"title":"Local auxin sources orient the apical basal axis in arabidopsis embryos","year":"2013","day":"16","abstract":[{"text":"Establishment of the embryonic axis foreshadows the main body axis of adults both in plants and in animals, but underlying mechanisms are considered distinct. Plants utilize directional, cell-to-cell transport of the growth hormone auxin [1, 2] to generate an asymmetric auxin response that specifies the embryonic apical-basal axis [3-6]. The auxin flow directionality depends on the polarized subcellular localization of PIN-FORMED (PIN) auxin transporters [7, 8]. It remains unknown which mechanisms and spatial cues guide cell polarization and axis orientation in early embryos. Herein, we provide conceptually novel insights into the formation of embryonic axis in Arabidopsis by identifying a crucial role of localized tryptophan-dependent auxin biosynthesis [9-12]. Local auxin production at the base of young embryos and the accompanying PIN7-mediated auxin flow toward the proembryo are required for the apical auxin response maximum and the specification of apical embryonic structures. Later in embryogenesis, the precisely timed onset of localized apical auxin biosynthesis mediates PIN1 polarization, basal auxin response maximum, and specification of the root pole. Thus, the tight spatiotemporal control of distinct local auxin sources provides a necessary, non-cell-autonomous trigger for the coordinated cell polarization and subsequent apical-basal axis orientation during embryogenesis and, presumably, also for other polarization events during postembryonic plant life [13, 14].","lang":"eng"}],"corr_author":"1","language":[{"iso":"eng"}],"publist_id":"7291","ec_funded":1,"publication_status":"published","doi":"10.1016/j.cub.2013.09.039","date_published":"2013-12-16T00:00:00Z","quality_controlled":"1","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","grant_number":"282300"}],"intvolume":"        23","issue":"24","_id":"528","publisher":"Cell Press","citation":{"chicago":"Robert, Hélène, Peter Grones, Anna Stepanova, Linda Robles, Annemarie Lokerse, Jose Alonso, Dolf Weijers, and Jiří Friml. “Local Auxin Sources Orient the Apical Basal Axis in Arabidopsis Embryos.” <i>Current Biology</i>. Cell Press, 2013. <a href=\"https://doi.org/10.1016/j.cub.2013.09.039\">https://doi.org/10.1016/j.cub.2013.09.039</a>.","ista":"Robert H, Grones P, Stepanova A, Robles L, Lokerse A, Alonso J, Weijers D, Friml J. 2013. Local auxin sources orient the apical basal axis in arabidopsis embryos. Current Biology. 23(24), 2506–2512.","short":"H. Robert, P. Grones, A. Stepanova, L. Robles, A. Lokerse, J. Alonso, D. Weijers, J. Friml, Current Biology 23 (2013) 2506–2512.","mla":"Robert, Hélène, et al. “Local Auxin Sources Orient the Apical Basal Axis in Arabidopsis Embryos.” <i>Current Biology</i>, vol. 23, no. 24, Cell Press, 2013, pp. 2506–12, doi:<a href=\"https://doi.org/10.1016/j.cub.2013.09.039\">10.1016/j.cub.2013.09.039</a>.","apa":"Robert, H., Grones, P., Stepanova, A., Robles, L., Lokerse, A., Alonso, J., … Friml, J. (2013). Local auxin sources orient the apical basal axis in arabidopsis embryos. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2013.09.039\">https://doi.org/10.1016/j.cub.2013.09.039</a>","ieee":"H. Robert <i>et al.</i>, “Local auxin sources orient the apical basal axis in arabidopsis embryos,” <i>Current Biology</i>, vol. 23, no. 24. Cell Press, pp. 2506–2512, 2013.","ama":"Robert H, Grones P, Stepanova A, et al. Local auxin sources orient the apical basal axis in arabidopsis embryos. <i>Current Biology</i>. 2013;23(24):2506-2512. doi:<a href=\"https://doi.org/10.1016/j.cub.2013.09.039\">10.1016/j.cub.2013.09.039</a>"},"department":[{"_id":"JiFr"}],"date_created":"2018-12-11T11:46:59Z","page":"2506 - 2512","status":"public","month":"12","author":[{"first_name":"Hélène","last_name":"Robert","full_name":"Robert, Hélène"},{"last_name":"Grones","first_name":"Peter","id":"399876EC-F248-11E8-B48F-1D18A9856A87","full_name":"Grones, Peter"},{"last_name":"Stepanova","first_name":"Anna","full_name":"Stepanova, Anna"},{"full_name":"Robles, Linda","last_name":"Robles","first_name":"Linda"},{"first_name":"Annemarie","last_name":"Lokerse","full_name":"Lokerse, Annemarie"},{"full_name":"Alonso, Jose","last_name":"Alonso","first_name":"Jose"},{"last_name":"Weijers","first_name":"Dolf","full_name":"Weijers, Dolf"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","first_name":"Jirí","last_name":"Friml"}],"external_id":{"isi":["000328918900031"]},"isi":1,"oa_version":"None","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345"},{"doi":"10.1093/abbs/gmt039","publication_status":"published","day":"01","extern":"1","title":"Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development","volume":45,"year":"2013","language":[{"iso":"eng"}],"abstract":[{"text":"Inositol 1,3,4-trisphosphate 5/6 kinase (ITPK) phosphorylates inositol 1,3,4-trisphosphate to form inositol 1,3,4,5-tetrakisphosphate and inositol 1,3,4,6-tetrakisphosphate which can be finally transferred to inositol hexaphosphate (IP6) and play important roles during plant growth and development. There are 4 putative ITPK members in Arabidopsis. Expression pattern analysis showed that ITPK2 is constitutively expressed in various tissues. A T-DNA knockout mutant of ITPK2 was identified and scanning electron microscopy (SEM) analysis showed that the epidermis structure of seed coat was irregularly formed in seeds of itpk2-1 mutant, resulting in the increased permeability of seed coat to tetrazolium salts. Further analysis by gas chromatography coupled with mass spectrometry of lipid polyester monomers in cell wall confirmed a dramatic decrease in composition of suberin and cutin, which relate to the permeability of seed coat and the formation of which is accompanied with seed coat development. These results indicate that ITPK2 plays an essential role in seed coat development and lipid polyester barrier formation.","lang":"eng"}],"article_processing_charge":"No","article_type":"original","date_updated":"2021-01-12T08:14:23Z","type":"journal_article","publication":"Acta Biochimica et Biophysica Sinica","author":[{"full_name":"Tang, Yong","last_name":"Tang","first_name":"Yong"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"last_name":"Xue","first_name":"Hongwei","full_name":"Xue, Hongwei"}],"pmid":1,"external_id":{"pmid":["23595027"]},"oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2020-03-21T16:06:36Z","citation":{"chicago":"Tang, Yong, Shutang Tan, and Hongwei Xue. “Arabidopsis Inositol 1,3,4-Trisphosphate 5/6 Kinase 2 Is Required for Seed Coat Development.” <i>Acta Biochimica et Biophysica Sinica</i>. Oxford University Press, 2013. <a href=\"https://doi.org/10.1093/abbs/gmt039\">https://doi.org/10.1093/abbs/gmt039</a>.","ista":"Tang Y, Tan S, Xue H. 2013. Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. Acta Biochimica et Biophysica Sinica. 45(7), 549–560.","mla":"Tang, Yong, et al. “Arabidopsis Inositol 1,3,4-Trisphosphate 5/6 Kinase 2 Is Required for Seed Coat Development.” <i>Acta Biochimica et Biophysica Sinica</i>, vol. 45, no. 7, Oxford University Press, 2013, pp. 549–60, doi:<a href=\"https://doi.org/10.1093/abbs/gmt039\">10.1093/abbs/gmt039</a>.","short":"Y. Tang, S. Tan, H. Xue, Acta Biochimica et Biophysica Sinica 45 (2013) 549–560.","ama":"Tang Y, Tan S, Xue H. Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. <i>Acta Biochimica et Biophysica Sinica</i>. 2013;45(7):549-560. doi:<a href=\"https://doi.org/10.1093/abbs/gmt039\">10.1093/abbs/gmt039</a>","ieee":"Y. Tang, S. Tan, and H. Xue, “Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development,” <i>Acta Biochimica et Biophysica Sinica</i>, vol. 45, no. 7. Oxford University Press, pp. 549–560, 2013.","apa":"Tang, Y., Tan, S., &#38; Xue, H. (2013). Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. <i>Acta Biochimica et Biophysica Sinica</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/abbs/gmt039\">https://doi.org/10.1093/abbs/gmt039</a>"},"publisher":"Oxford University Press","status":"public","month":"07","page":"549-560","quality_controlled":"1","date_published":"2013-07-01T00:00:00Z","issue":"7","publication_identifier":{"issn":["1745-7270","1672-9145"]},"intvolume":"        45","_id":"7595"},{"date_published":"2013-02-13T00:00:00Z","publication":"Journal of Materials Chemistry A","type":"journal_article","date_updated":"2021-01-12T07:44:02Z","quality_controlled":"1","_id":"352","issue":"15","intvolume":"         1","citation":{"chicago":"Cadavid, Doris, Maria Ibáñez, Alexey Shavel, Oscar Durá, Marco López De La Torre, and Andreu Cabot. “Organic Ligand Displacement by Metal Salts to Enhance Nanoparticle Functionality: Thermoelectric Properties of Ag Inf 2 Inf Te.” <i>Journal of Materials Chemistry A</i>. Royal Society of Chemistry, 2013. <a href=\"https://doi.org/10.1039/C3TA01455J\">https://doi.org/10.1039/C3TA01455J</a>.","ista":"Cadavid D, Ibáñez M, Shavel A, Durá O, López De La Torre M, Cabot A. 2013. Organic ligand displacement by metal salts to enhance nanoparticle functionality: Thermoelectric properties of Ag inf 2 inf Te. Journal of Materials Chemistry A. 1(15), 4864–4870.","mla":"Cadavid, Doris, et al. “Organic Ligand Displacement by Metal Salts to Enhance Nanoparticle Functionality: Thermoelectric Properties of Ag Inf 2 Inf Te.” <i>Journal of Materials Chemistry A</i>, vol. 1, no. 15, Royal Society of Chemistry, 2013, pp. 4864–70, doi:<a href=\"https://doi.org/10.1039/C3TA01455J\">10.1039/C3TA01455J</a>.","short":"D. Cadavid, M. Ibáñez, A. Shavel, O. Durá, M. López De La Torre, A. Cabot, Journal of Materials Chemistry A 1 (2013) 4864–4870.","apa":"Cadavid, D., Ibáñez, M., Shavel, A., Durá, O., López De La Torre, M., &#38; Cabot, A. (2013). Organic ligand displacement by metal salts to enhance nanoparticle functionality: Thermoelectric properties of Ag inf 2 inf Te. <i>Journal of Materials Chemistry A</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/C3TA01455J\">https://doi.org/10.1039/C3TA01455J</a>","ieee":"D. Cadavid, M. Ibáñez, A. Shavel, O. Durá, M. López De La Torre, and A. Cabot, “Organic ligand displacement by metal salts to enhance nanoparticle functionality: Thermoelectric properties of Ag inf 2 inf Te,” <i>Journal of Materials Chemistry A</i>, vol. 1, no. 15. Royal Society of Chemistry, pp. 4864–4870, 2013.","ama":"Cadavid D, Ibáñez M, Shavel A, Durá O, López De La Torre M, Cabot A. Organic ligand displacement by metal salts to enhance nanoparticle functionality: Thermoelectric properties of Ag inf 2 inf Te. <i>Journal of Materials Chemistry A</i>. 2013;1(15):4864-4870. doi:<a href=\"https://doi.org/10.1039/C3TA01455J\">10.1039/C3TA01455J</a>"},"publisher":"Royal Society of Chemistry","date_created":"2018-12-11T11:45:58Z","article_type":"original","page":"4864 - 4870","month":"02","article_processing_charge":"No","status":"public","year":"2013","title":"Organic ligand displacement by metal salts to enhance nanoparticle functionality: Thermoelectric properties of Ag inf 2 inf Te","volume":1,"extern":"1","day":"13","abstract":[{"text":"The presence of organic ligands on the surface of colloidal nanoparticles strongly limits their performance in technological applications where charge carrier transfer/transport plays an important role. We use metal salts, matched with the nanoparticle composition, to eliminate the surface organic ligands without introducing extrinsic impurities in the final nanomaterial. The potential of the simple, general and scalable processes presented here is demonstrated by characterizing the thermoelectric properties of nanostructured Ag2Te produced by the bottom up assembly of Ag2Te nanocrystals. A 6-fold increase of the thermoelectric figure of merit of Ag2Te was obtained when organic ligands were displaced by AgNO3. The same procedure can enhance the performance of nanocrystals and nanocrystal-based devices in a broad range of applications, from photovoltaics and thermoelectrics to catalysis.","lang":"eng"}],"publist_id":"7481","language":[{"iso":"eng"}],"author":[{"full_name":"Cadavid, Doris","first_name":"Doris","last_name":"Cadavid"},{"full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843","first_name":"Maria","last_name":"Ibáñez"},{"full_name":"Shavel, Alexey","first_name":"Alexey","last_name":"Shavel"},{"full_name":"Durá, Oscar","last_name":"Durá","first_name":"Oscar"},{"first_name":"Marco","last_name":"López De La Torre","full_name":"López De La Torre, Marco"},{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"}],"publication_status":"published","doi":"10.1039/C3TA01455J","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None"},{"date_published":"2012-08-01T00:00:00Z","quality_controlled":"1","_id":"11751","issue":"15","publication_identifier":{"eissn":["1573-4803"],"issn":["0022-2461"]},"intvolume":"        47","publisher":"Springer Nature","citation":{"ieee":"K. C. Lukas, G. Joshi, K. A. Modic, Z. F. Ren, and C. P. Opeil, “Thermoelectric properties of Ho-doped Bi0.88Sb0.12,” <i>Journal of Materials Science</i>, vol. 47, no. 15. Springer Nature, pp. 5729–5734, 2012.","apa":"Lukas, K. C., Joshi, G., Modic, K. A., Ren, Z. F., &#38; Opeil, C. P. (2012). Thermoelectric properties of Ho-doped Bi0.88Sb0.12. <i>Journal of Materials Science</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10853-012-6463-6\">https://doi.org/10.1007/s10853-012-6463-6</a>","ama":"Lukas KC, Joshi G, Modic KA, Ren ZF, Opeil CP. Thermoelectric properties of Ho-doped Bi0.88Sb0.12. <i>Journal of Materials Science</i>. 2012;47(15):5729-5734. doi:<a href=\"https://doi.org/10.1007/s10853-012-6463-6\">10.1007/s10853-012-6463-6</a>","ista":"Lukas KC, Joshi G, Modic KA, Ren ZF, Opeil CP. 2012. Thermoelectric properties of Ho-doped Bi0.88Sb0.12. Journal of Materials Science. 47(15), 5729–5734.","short":"K.C. Lukas, G. Joshi, K.A. Modic, Z.F. Ren, C.P. Opeil, Journal of Materials Science 47 (2012) 5729–5734.","mla":"Lukas, K. C., et al. “Thermoelectric Properties of Ho-Doped Bi0.88Sb0.12.” <i>Journal of Materials Science</i>, vol. 47, no. 15, Springer Nature, 2012, pp. 5729–34, doi:<a href=\"https://doi.org/10.1007/s10853-012-6463-6\">10.1007/s10853-012-6463-6</a>.","chicago":"Lukas, K. C., G. Joshi, Kimberly A Modic, Z. F. Ren, and C. P. Opeil. “Thermoelectric Properties of Ho-Doped Bi0.88Sb0.12.” <i>Journal of Materials Science</i>. Springer Nature, 2012. <a href=\"https://doi.org/10.1007/s10853-012-6463-6\">https://doi.org/10.1007/s10853-012-6463-6</a>."},"date_created":"2022-08-08T08:28:20Z","page":"5729-5734","month":"08","status":"public","external_id":{"arxiv":["1201.6304"]},"arxiv":1,"author":[{"full_name":"Lukas, K. C.","first_name":"K. C.","last_name":"Lukas"},{"last_name":"Joshi","first_name":"G.","full_name":"Joshi, G."},{"first_name":"Kimberly A","last_name":"Modic","full_name":"Modic, Kimberly A","id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425","orcid":"0000-0001-9760-3147"},{"last_name":"Ren","first_name":"Z. F.","full_name":"Ren, Z. F."},{"full_name":"Opeil, C. P.","last_name":"Opeil","first_name":"C. P."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","publication":"Journal of Materials Science","type":"journal_article","date_updated":"2022-08-11T09:34:39Z","scopus_import":"1","article_type":"original","article_processing_charge":"No","year":"2012","title":"Thermoelectric properties of Ho-doped Bi0.88Sb0.12","volume":47,"extern":"1","day":"01","abstract":[{"lang":"eng","text":"The Seebeck coefficients, electrical resistivities, total thermal conductivities, and magnetization are reported for temperatures between 5 and 350 K for n-type Bi0.88Sb0.12 nano-composite alloys made by Ho-doping at the 0, 1, and 3 % atomic levels. The alloys were prepared using a dc hot-pressing method, and are shown to be single phase for both Ho contents with grain sizes on the average of 900 nm. We find the parent compound has a maximum of ZT = 0.28 at 231 K, while doping 1 % Ho increases the maximum ZT to 0.31 at 221 K and the 3 % doped sample suppresses the maximum ZT = 0.24 at a temperature of 260 K."}],"language":[{"iso":"eng"}],"publication_status":"published","doi":"10.1007/s10853-012-6463-6"}]