Publikationen

2.

Zeitschriftenartikel

Siciliano, G.; Costa, G.; Suárez-Cortés, P.; Valleriani, A.; Alano, P.; Levashina, E. A.: Critical steps of Plasmodium falciparum ookinete maturation. Frontiers in Microbiology 11, 269 (2020)

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3.

Zeitschriftenartikel

Thai, E.; Costa, G.; Weyrich, A.; Murugan, R.; Oyen, D.; Prieto, K.; Bosch, A.; Valleriani, A.; Wu, N. C.; Pholcharee, T. et al.; Scally, S. W.; Wilson, I. A.; Wardemann, H.; Julien, J.-P.; Levashina, E. A.: A high-affinity antibody against the CSP N-terminal domain lacks Plasmodium falciparum inhibitory activity. Journal of Experimental Medicine 217 (11), e20200061 (2020)

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4.

Zeitschriftenartikel

Broeker, N. K.; Roske, Y.; Valleriani, A.; Stephan, M. S.; Andres, D.; Koetz, J.; Heinemann, U.; Barbirz, S.: Time-resolved DNA release from an O-antigen–specific Salmonella bacteriophage with a contractile tail. Journal of Biological Chemistry 294 (31), S. 11751 - 11761 (2019)

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5.

Zeitschriftenartikel

Bergues Pupo, A. E.; Göktas, M.; Tunn, I.; López García, P.; Vila Verde, A.; Blank, K.; Valleriani, A.: Goodness of fit testing in dynamic single-molecule force spectroscopy. The Journal of Chemical Physics 149, 244120 (2018)

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6.

Zeitschriftenartikel

Bühning , M.; Valleriani, A.; Leimkühler, S.: The role of SufS is restricted to Fe−S cluster biosynthesis in Escherichia coli. Biochemistry 56 (14), S. 1987 - 2000 (2017)

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7.

Zeitschriftenartikel

Stange, M.; Hintsche, M.; Sachse, K.; Gerhardt, M.; Valleriani, A.; Beta, C.: Analyzing the spatial positioning of nuclei in polynuclear giant cells. Journal of Physics D: Applied Physics 50 (46), 464001 (2017)

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8.

Zeitschriftenartikel

Bartholomäus, A.; Fedyunin, I.; Feist, P.; Sin, C.; Zhang, G.; Valleriani, A.; Ignatova, Z.: Bacteria differently regulate mRNA abundance to specifically respond to various stresses. Philosophical Transactions of the Royal Society of London - Series A: Mathematical Physical and Engineering Sciences 374 (2063), 20150069 (2016)

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9.

Zeitschriftenartikel

McShane, E.; Sin, C.; Zauber, H.; Wells, J.; Donnelly, N.; Wang, X.; Hou, J.; Chen, W.; Storchova, Z.; Marsh, J. et al.; Valleriani, A.; Selbach, M.: Kinetic analysis of protein stability reveals age-dependent degradation. Cell 167 (3), S. 803 - 815.e21 (2016)

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10.

Zeitschriftenartikel

Olarte, C.; Chiarugi, D.; Falaschi, M.; Hermith, D.: A proof theoretic view of spatial and temporal dependencies in biochemical systems. Theoretical Computer Science 641, S. 25 - 42 (2016)

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11.

Zeitschriftenartikel

Rusconi, M.; Valleriani, A.: Predict or classify: the deceptive role of time-locking in brain signal classification. Scientific Reports 6, 28236 (2016)

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12.

Zeitschriftenartikel

Sin, C.; Chiarugi, D.; Valleriani, A.: Quantitative assessment of ribosome drop-off in E. coli. Nucleic Acids Research 44 (6), S. 2528 - 2537 (2016)

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13.

Zeitschriftenartikel

Sin, C.; Chiarugi, D.; Valleriani, A.: Degradation parameters from pulse-chase experiments. PLoS One 11 (5), e0155028 (2016)

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14.

Zeitschriftenartikel

Valleriani, A.: A conditional likelihood is required to estimate the selection coefficient in ancient DNA. Scientific Reports 6, 31561 (2016)

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15.

Zeitschriftenartikel

Bodei, C.; Bortolussi, L.; Chiarugi, D.; Guerriero, M. L.; Policriti, A.; Romanel, A.: On the impact of discreteness and abstractions on modelling noise in gene regulatory networks. Computational Biology and Chemistry 56, S. 98 - 108 (2015)

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16.

Zeitschriftenartikel

Chiarugi, D.; Falaschi, M.; Hermith, D.; Olarte, C.: Verification of spatial and temporal modalities in biochemical systems. Electronic Notes in Theoretical Computer Science 316, S. 29 - 44 (2015)

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17.

Zeitschriftenartikel

Chiarugi, D.; Falaschi, M.; Hermith, D.; Olarte, C.; Torella, L.: Modelling non-Markovian dynamics in biochemical reactions. BMC Systems Biology 9 (Suppl 3), S8 (2015)

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18.

Zeitschriftenartikel

Keller, P.; Rœlly, S.; Valleriani, A.: A quasi random walk to model a biological transport process. Methodology and Computing in Applied Probability 17 (1), S. 125 - 137 (2015)

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19.

Zeitschriftenartikel

Keller, P.; Rœlly, S.; Valleriani, A.: On time duality for Markov chains. Stochastic Models 31 (1), S. 98 - 118 (2015)

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20.

Zeitschriftenartikel

Paradisi, P.; Allegrini, P.; Chiarugi, D.: A renewal model for the emergence of anomalous solute crowding in liposomes. BMC Systems Biology 9 (Suppl 3), S7 (2015)

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21.

Zeitschriftenartikel

Rading, M. M.; Sandmann, M.; Steup, M.; Chiarugi, D.; Valleriani, A.: Weak correlation of starch and volume in synchronized photosynthetic cells. Physical Review E 91 (1), 012711 (2015)

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22.

Zeitschriftenartikel

Sin, C.; Chiarugi, D.; Valleriani, A.: Single-molecule modeling of mRNA degradation by miRNA: lessons from data. BMC Systems Biology 9 (Suppl 3), S2 (2015)

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23.

Zeitschriftenartikel

Valleriani, A.: Circular analysis in complex stochastic systems. Scientific Reports 5, 17986 (2015)

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24.

Zeitschriftenartikel

Li, X.; Kolomeisky, A. B.; Valleriani, A.: Pathway structure determination in complex stochastic networks with non-exponential dwell times. The Journal of Chemical Physics 140 (18), 84102 (2014)

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25.

Zeitschriftenartikel

Li, X.; Kolomeisky, A. B.; Valleriani, A.: Stochastic kinetics on networks: when slow is fast. Journal of Physical Chemistry B 118 (35), S. 10419 - 10425 (2014)

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26.

Zeitschriftenartikel

Valleriani, A.; Li, X.; Kolomeisky, A. B.: Unveiling the hidden structure of complex stochastic biochemical networks. The Journal of Chemical Physics 140 (6), 064101 (2014)

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27.

Zeitschriftenartikel

Deneke, C.; Lipowsky, R.; Valleriani, A.: Effect of ribosome shielding on mRNA stability. Physical Biology 10 (4), 046008 (2013)

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28.

Zeitschriftenartikel

Deneke, C.; Lipowsky, R.; Valleriani, A.: Complex degradation processes lead to non-exponential decay patterns and age-dependent decay rates of messenger RNA. PLoS One 8 (2), e55442 (2013)

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29.

Zeitschriftenartikel

Deneke, C.; Rudorf, S.; Valleriani, A.: Transient Phenomena in Gene Expression after Induction of Transcription. PLoS One 7 (4), e35044 (2012)

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30.

Zeitschriftenartikel

Keller, P.; Valleriani, A.: Single-molecule stochastic times in a reversible bimolecular reaction. The Journal of Chemical Physics 137 (8), 084106 (2012)

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31.

Zeitschriftenartikel

Rusconi, M.; Valleriani, A.; Dunlop, J. W. C.; Kurths, J.; Weinkamer, R.: Quantitative approach to the stochastics of bone remodeling. EPL 97 (2), 28009 (2012)

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32.

Zeitschriftenartikel

Zhang, G.; Fedyunin, I.; Kirchner, S.; Xiao, C. L.; Valleriani, A.; Ignatova, Z.: FANSe: an accurate algorithm for quantitative mapping of large scale sequencing reads. Nucleic Acids Research (London) 40 (11), e83 (2012)

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33.

Zeitschriftenartikel

Menche, J.; Valleriani, A.; Lipowsky, R.: Sequences of phase transitions in Ising models on correlated networks. Physical Review E 83 (6), 061129 (2011)

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34.

Zeitschriftenartikel

Nagar, A.; Valleriani, A.; Lipowsky, R.: Translation by ribosomes with mRNA degradation: exclusion processes on aging tracks. Journal of Statistical Physics 145 (5), S. 1385 - 1404 (2011)

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35.

Zeitschriftenartikel

Rading, M. M.; Engel, T. A.; Lipowsky, R.; Valleriani, A.: Stationary size distributions of growing cells with binary and multiple cell division. Journal of Statistical Physics 145 (1), S. 1 - 22 (2011)

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36.

Zeitschriftenartikel

Valleriani, A.; Zhang, G.; Nagar, A.; Ignatova, Z.; Lipowsky, R.: Length-dependent translation of messenger RNA by ribosomes. Physical Review E 83 (4), 042903 (2011)

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37.

Zeitschriftenartikel

Menche, J.; Valleriani, A.; Lipowsky, R.: Asymptotic properties of degree-correlated scale-free networks. Physical Review E 81 (4), 046103 (2010)

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38.

Zeitschriftenartikel

Menche, J.; Valleriani, A.; Lipowsky, R.: Dynamical processes on dissortative scale-free networks. EPL 89 (1), 18002 (2010)

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39.

Zeitschriftenartikel

Valleriani, A.; Ignatova, Z.; Nagar, A.; Lipowsky, R.: Turnover of messenger RNA: polysome statistics beyond the steady state. EPL 89 (5), 58003 (2010)

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40.

Zeitschriftenartikel

Zhang, G.; Fedyunin, I.; Miekley, O.; Valleriani, A.; Moura, A.; Ignatova, Z.: Global and local depletion of ternary complex limits translational elongation. Nucleic Acids Research 38 (14), S. 4778 - 4787 (2010)

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41.

Zeitschriftenartikel

Lipowsky, R.; Beeg, J.; Dimova, R.; Klumpp, S.; Liepelt, S.; Müller, M. J. I.; Valleriani, A.: Active bio-systems: from single motor molecules to cooperative cargo transport. Biophysical Reviews and Letters 4 (1 & 2), S. 77 - 137 (2009)

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42.

Zeitschriftenartikel

Lipowsky, R.; Liepelt, S.; Valleriani, A.: Energy Conversion by Molecular Motors Coupled to Nucleotide Hydrolysis. Journal of Statistical Physics 135 (5-6 Sp. Iss.), S. 951 - 975 (2009)

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43.

Zeitschriftenartikel

Valleriani, A.; Liepelt, S.; Lipowsky, R.: Dwell time distributions for kinesin's mechanical steps. EPL 82 (2), 28011 (2008)

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44.

Zeitschriftenartikel

Valleriani, A.; Meene, T.: Multilevel selection in a gradient. Ecological Modelling 208 (2-4), S. 159 - 164 (2007)

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45.

Zeitschriftenartikel

Valleriani, A.: Evolutionarily stable germination strategies with time-correlated yield. Theoretical Population Biology 70 (3), S. 255 - 261 (2006)

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46.

Zeitschriftenartikel

Valleriani, A.; Tielborger, K.: Effect of age on germination of dormant seeds. Theoretical Population Biology 70 (1), S. 1 - 9 (2006)

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47.

Zeitschriftenartikel

Bastolla, U.; Lässig, M.; Manrubia, S. C.; Valleriani, A.: Biodiversity in model ecosystems, I: coexistence conditions for competing species. Journal of Theoretical Biology 235 (4), S. 521 - 530 (2005)

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48.

Zeitschriftenartikel

Bastolla, U.; Lässig, M.; Manrubia, S. C.; Valleriani, A.: Biodiversity in model ecosystems, II: species assembly and food web structure. Journal of Theoretical Biology 235 (4), S. 531 - 539 (2005)

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49.

Zeitschriftenartikel

Tielborger, K.; Valleriani, A.: Can seeds predict their future? Germination strategies of density-regulated desert annuals. Oikos 111 (2), S. 235 - 244 (2005)

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50.

Zeitschriftenartikel

Valleriani, A.: Algebraic determination of the evolutionary stable germination fraction. Theoretical Population Biology 68 (3), S. 197 - 203 (2005)

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