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2990 Publications

2013 | Journal Article | IST-REx-ID: 2880 | OA
Auxin reflux between the endodermis and pericycle promotes lateral root initiation
P. Marhavý, M. Vanstraelen, B. De Rybel, D. Zhaojun, M. Bennett, T. Beeckman, E. Benková, EMBO Journal 32 (2013) 149–158.
View | DOI | Download Submitted Version (ext.) | PubMed | Europe PMC
 
2013 | Journal Article | IST-REx-ID: 2882 | OA
Asymmetric gibberellin signaling regulates vacuolar trafficking of PIN auxin transporters during root gravitropism
C. Löfke, M. Zwiewka, I. Heilmann, M. Van Montagu, T. Teichmann, J. Friml, PNAS 110 (2013) 3627–3632.
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2013 | Journal Article | IST-REx-ID: 2883 | OA
Arabidopsis TWISTED DWARF1 functionally interacts with auxin exporter ABCB1 on the root plasma membrane
B. Wang, A. Bailly, M. Zwiewk, S. Henrichs, E. Azzarello, S. Mancuso, M. Maeshima, J. Friml, A. Schulz, M. Geisler, Plant Cell 25 (2013) 202–214.
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2013 | Journal Article | IST-REx-ID: 2884
Cell adhesion mechanics of zebrafish gastrulation
J.-L. Maître, H. Berthoumieux, G. Krens, G. Salbreux, F. Julicher, E. Paluch, C.-P.J. Heisenberg, Medecine Sciences 29 (2013) 147–150.
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2013 | Conference (Editor) | IST-REx-ID: 2885
Mathematical and Engineering Methods in Computer Science
A. Kucera, T.A. Henzinger, J. Nesetril, T. Vojnar, D. Antos, eds., Mathematical and Engineering Methods in Computer Science, Springer, 2013.
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2013 | Conference Paper | IST-REx-ID: 2886 | OA
Controllable-choice message sequence graphs
M. Chmelik, V. Řehák, 7721 (2013) 118–130.
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2013 | Journal Article | IST-REx-ID: 2887 | OA
Genotypic recognition and spatial responses by rice roots
S. Fang, R. Clark, Y. Zheng, A. Iyer Pascuzzi, J. Weitz, L. Kochian, H. Edelsbrunner, H. Liao, P. Benfey, PNAS 110 (2013) 2670–2675.
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2013 | Conference Paper | IST-REx-ID: 2901 | OA
Computing the M most probable modes of a graphical model
C. Chen, V. Kolmogorov, Z. Yan, D. Metaxas, C. Lampert, in:, JMLR, 2013, pp. 161–169.
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2013 | Conference Paper | IST-REx-ID: 2906 | OA
3D kinetic alpha complexes and their implementation
M. Kerber, H. Edelsbrunner, in:, 2013 Proceedings of the 15th Workshop on Algorithm Engineering and Experiments, Society of Industrial and Applied Mathematics, 2013, pp. 70–77.
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2013 | Book Chapter | IST-REx-ID: 2907 | OA
Recombination and sex
N.H. Barton, in:, The Princeton Guide to Evolution, Princeton University Press, 2013, pp. 328–333.
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2013 | Journal Article | IST-REx-ID: 2908 | OA
Does hybridisation influence speciation?
N.H. Barton, Journal of Evolutionary Biology 26 (2013) 267–269.
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2013 | Journal Article | IST-REx-ID: 2909 | OA
Modelling evolution in a spatial continuum
N.H. Barton, A. Etheridge, A. Véber, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
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2013 | Journal Article | IST-REx-ID: 2910 | OA
Coalescent simulation in continuous space
J. Kelleher, N.H. Barton, A. Etheridge, Bioinformatics 29 (2013) 955–956.
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2013 | Journal Article | IST-REx-ID: 2913 | OA
Retinal metric: a stimulus distance measure derived from population neural responses
G. Tkačik, E. Granot Atedgi, R. Segev, E. Schneidman, Physical Review Letters 110 (2013).
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2013 | Journal Article | IST-REx-ID: 2914 | OA
Statistical thermodynamics of natural images
G. Stephens, T. Mora, G. Tkačik, W. Bialek, Physical Review Letters 110 (2013).
View | Files available | DOI | Download Published Version (ext.) | arXiv
 
2013 | Journal Article | IST-REx-ID: 2853 | OA
Altruism can evolve when relatedness is low: Evidence from bacteria committing suicide upon phage infection
D. Refardt, T. Bergmiller, R. Kümmerli, Proceedings of the Royal Society of London Series B Biological Sciences 280 (2013).
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2013 | Journal Article | IST-REx-ID: 2854 | OA
Strategy improvement for concurrent reachability and turn based stochastic safety games
K. Chatterjee, L. De Alfaro, T.A. Henzinger, Journal of Computer and System Sciences 79 (2013) 640–657.
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2013 | Journal Article | IST-REx-ID: 2855 | OA
Mosaic analysis with double markers reveals cell type specific paternal growth dominance
S. Hippenmeyer, R. Johnson, L. Luo, Cell Reports 3 (2013) 960–967.
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2013 | Journal Article | IST-REx-ID: 2856 | OA
Optical control of metabotropic glutamate receptors
J. Levitz, C. Pantoja, B. Gaub, H.L. Janovjak, A. Reiner, A. Hoagland, D. Schoppik, B. Kane, P. Stawski, A. Schier, D. Trauner, E. Isacoff, Nature Neuroscience 16 (2013) 507–516.
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2013 | Journal Article | IST-REx-ID: 2857 | OA
Optical control of ligand-gated ion channels
S. Szobota, C. Mckenzie, H.L. Janovjak, Methods in Molecular Biology 998 (2013) 417–435.
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2013 | Journal Article | IST-REx-ID: 2850 | OA
The simplest maximum entropy model for collective behavior in a neural network
G. Tkačik, O. Marre, T. Mora, D. Amodei, M. Berry, W. Bialek, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
View | DOI | Download Preprint (ext.) | arXiv
 
2013 | Journal Article | IST-REx-ID: 2851
A simple method for estimating the entropy of neural activity
M. Berry, G. Tkačik, J. Dubuis, O. Marre, R. Da Silveira, Journal of Statistical Mechanics Theory and Experiment 2013 (2013).
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2013 | Journal Article | IST-REx-ID: 2858 | OA
The effect of one additional driver mutation on tumor progression
J. Reiter, I. Božić, B. Allen, K. Chatterjee, M. Nowak, Evolutionary Applications 6 (2013) 34–45.
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2013 | Journal Article | IST-REx-ID: 2859 | OA
Homology and robustness of level and interlevel sets
P. Bendich, H. Edelsbrunner, D. Morozov, A. Patel, Homology, Homotopy and Applications 15 (2013) 51–72.
View | DOI | Download Preprint (ext.) | arXiv
 
2013 | Journal Article | IST-REx-ID: 2920 | OA
Neurulation coordinating cell polarisation and lumen formation
J. Compagnon, C.-P.J. Heisenberg, EMBO Journal 32 (2013) 1–3.
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2013 | Journal Article | IST-REx-ID: 2918
Anthrax toxin receptor 2a controls mitotic spindle positioning
I. Castanon, L. Abrami, L. Holtzer, C.-P.J. Heisenberg, F. Van Der Goot, M. González Gaitán, Nature Cell Biology 15 (2013) 28–39.
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2013 | Journal Article | IST-REx-ID: 2919 | OA
SCF^TIR1 AFB-auxin signalling regulates PIN vacuolar trafficking and auxin fluxes during root gravitropism
P. Baster, S. Robert, J. Kleine Vehn, S. Vanneste, U. Kania, W. Grunewald, B. De Rybel, T. Beeckman, J. Friml, EMBO Journal 32 (2013) 260–274.
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2013 | Conference Paper | IST-REx-ID: 2940 | OA
A counterexample to the chain rule for conditional HILL entropy, and what deniable encryption has to do with it
S. Krenn, K.Z. Pietrzak, A. Wadia, in:, A. Sahai (Ed.), Springer, 2013, pp. 23–39.
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2013 | Journal Article | IST-REx-ID: 2944
Approximate Bayesian computation for modular inference problems with many parameters: the example of migration rates.
S. Aeschbacher, A. Futschik, M. Beaumont, Molecular Ecology 22 (2013) 987–1002.
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2013 | Conference Paper | IST-REx-ID: 2948 | OA
Beyond dataset bias: Multi-task unaligned shared knowledge transfer
T. Tommasi, N. Quadrianto, B. Caputo, C. Lampert, 7724 (2013) 1–15.
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2013 | Journal Article | IST-REx-ID: 3116
Code aware resource management
K. Chatterjee, L. De Alfaro, M. Faella, R. Majumdar, V. Raman, Formal Methods in System Design 42 (2013) 142–174.
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2013 | Journal Article | IST-REx-ID: 2815
Add isotropic Gaussian kernels at own risk: More and more resilient modes in higher dimensions
H. Edelsbrunner, B.T. Fasy, G. Rote, Discrete & Computational Geometry 49 (2013) 797–822.
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2013 | Journal Article | IST-REx-ID: 3261 | OA
Positional information, in bits
J. Dubuis, G. Tkačik, E. Wieschaus, T. Gregor, W. Bialek, PNAS 110 (2013) 16301–16308.
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2013 | Encyclopedia Article | IST-REx-ID: 3321
Kernel based learning
N. Quadrianto, C. Lampert, in:, W. Dubitzky, O. Wolkenhauer, K. Cho, H. Yokota (Eds.), Encyclopedia of Systems Biology, Springer, 2013, pp. 1069–1069.
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2013 | Journal Article | IST-REx-ID: 2831 | OA
Symbolic algorithms for qualitative analysis of Markov decision processes with Büchi objectives
K. Chatterjee, M. Henzinger, M. Joglekar, N. Shah, Formal Methods in System Design 42 (2013) 301–327.
View | Files available | DOI | Download Preprint (ext.) | arXiv
 
2013 | Journal Article | IST-REx-ID: 2939
An output sensitive algorithm for persistent homology
C. Chen, M. Kerber, Computational Geometry: Theory and Applications 46 (2013) 435–447.
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2013 | Thesis | IST-REx-ID: 1405
Analysis of dynamic message passing programs
D. Zufferey, Analysis of Dynamic Message Passing Programs, IST Austria, 2013.
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2013 | Journal Article | IST-REx-ID: 450 | OA
Source population characteristics affect heterosis following genetic rescue of fragmented plant populations
M. Pickup, D. Field, D. Rowell, A. Young, Proceedings of the Royal Society of London Series B Biological Sciences 280 (2013).
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2013 | Journal Article | IST-REx-ID: 476 | OA View | Files available | DOI
 
2013 | Journal Article | IST-REx-ID: 500 | OA
Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza
M. Ward, S. Lycett, D. Avila, J.P. Bollback, A. Leigh Brown, BMC Evolutionary Biology 13 (2013).
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2013 | Journal Article | IST-REx-ID: 501 | OA
A new species of tapir from the Amazon
M. Cozzuol, C. Clozato, E. Holanda, F. Rodrigues, S. Nienow, B. De Thoisy, R.A. Fernandes Redondo, F. Santos, Journal of Mammalogy 94 (2013) 1331–1345.
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2013 | Journal Article | IST-REx-ID: 502
Short blind signatures
O. Blazy, G. Fuchsbauer, D. Pointcheval, D. Vergnaud, Journal of Computer Security 21 (2013) 627–661.
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2013 | Journal Article | IST-REx-ID: 505
Banning toxic heavy-metal catalysts from paints: Enzymatic cross-linking of alkyd resins
K. Greimel, V. Perz, K. Koren, R. Feola, A. Temel, C. Sohar, E. Herrero Acero, I. Klimant, G. Guebitz, Green Chemistry 15 (2013) 381–388.
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2013 | Journal Article | IST-REx-ID: 507 | OA
Adaptor protein complex 2-mediated endocytosis is crucial for male reproductive organ development in arabidopsis
S. Kim, Z. Xu, K. Song, D. Kim, H. Kang, I. Reichardt, E. Sohn, J. Friml, G. Juergens, I. Hwang, Plant Cell 25 (2013) 2970–2985.
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2013 | Journal Article | IST-REx-ID: 508 | OA
Evolutionary dynamics of the human NADPH oxidase genes CYBB, CYBA, NCF2, and NCF4: Functional implications
E. Tarazona Santos, M. Machado, W. Magalhães, R. Chen, F. Lyon, L. Burdett, A. Crenshaw, C. Fabbri, L. Pereira, L. Pinto, R.A. Fernandes Redondo, B. Sestanovich, M. Yeager, S. Chanock, Molecular Biology and Evolution 30 (2013) 2157–2167.
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2013 | Journal Article | IST-REx-ID: 509 | OA
The clathrin adaptor complex AP-2 mediates endocytosis of brassinosteroid INSENSITIVE1 in arabidopsis
S. Di Rubbo, N. Irani, S. Kim, Z. Xu, A. Gadeyne, W. Dejonghe, I. Vanhoutte, G. Persiau, D. Eeckhout, S. Simon, K. Song, J. Kleine Vehn, J. Friml, G. De Jaeger, D. Van Damme, I. Hwang, E. Russinova, Plant Cell 25 (2013) 2986–2997.
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2013 | Journal Article | IST-REx-ID: 516 | OA
A map of cell type‐specific auxin responses
B. Bargmann, S. Vanneste, G. Krouk, T. Nawy, I. Efroni, E. Shani, G. Choe, J. Friml, D. Bergmann, M. Estelle, K. Birnbaum, Molecular Systems Biology 9 (2013).
View | Files available | DOI
 
2013 | Journal Article | IST-REx-ID: 499
Dynamic persistence of antibiotic-stressed mycobacteria
Y. Wakamoto, N. Dhar, R.P. Chait, K. Schneider, F. Signorino Gelo, S. Leibler, J. Mckinney, Science 339 (2013) 91–95.
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2013 | Journal Article | IST-REx-ID: 511 | OA
Regulation of auxin homeostasis and gradients in Arabidopsis roots through the formation of the indole-3-acetic acid catabolite 2-oxindole-3-acetic acid
A. Pěnčík, B. Simonovik, S. Petersson, E. Henyková, S. Simon, K. Greenham, Y. Zhang, M. Kowalczyk, M. Estelle, E. Zažímalová, O. Novák, G. Sandberg, K. Ljung, Plant Cell 25 (2013) 3858–3870.
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2013 | Journal Article | IST-REx-ID: 527
Modeling framework for the establishment of the apical-basal embryonic axis in plants
K.T. Wabnik, H. Robert, R. Smith, J. Friml, Current Biology 23 (2013) 2513–2518.
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