The relation between crosstalk and gene regulation form revisited
R. Grah, T. Friedlander, PLOS Computational Biology 16 (2020).
LibreCat: https://research-explorer.ista.ac.at/record/7569
DOI: 10.1371/journal.pcbi.1007642
WoS: 000526725200019

Maximizing crosstalk
R. Grah, T. Friedlander, (2020).
LibreCat: https://research-explorer.ista.ac.at/record/9777
DOI: 10.1371/journal.pcbi.1007642.s002

Analysis scripts and research data for the paper "Mechanisms of drug interactions between translation-inhibiting antibiotics"
B. Kavcic, (2020).
LibreCat: https://research-explorer.ista.ac.at/record/8097
DOI: 10.15479/AT:ISTA:8097

Analysis scripts and research data for the paper "Minimal biophysical model of combined antibiotic action"
B. Kavcic, (2020).
LibreCat: https://research-explorer.ista.ac.at/record/8930
DOI: 10.15479/AT:ISTA:8930

Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level Gene Expression regulation
R. Grah, (2020).
LibreCat: https://research-explorer.ista.ac.at/record/7383
DOI: 10.15479/AT:ISTA:7383

Perturbations of protein synthesis: from antibiotics to genetics and physiology
B. Kavcic, Perturbations of Protein Synthesis: From Antibiotics to Genetics and Physiology, Institute of Science and Technology Austria, 2020.
LibreCat: https://research-explorer.ista.ac.at/record/8657
DOI: 10.15479/AT:ISTA:8657

Mechanisms of drug interactions between translation-inhibiting antibiotics
B. Kavcic, G. Tkadik, M.T. Bollenbach, Nature Communications 11 (2020).
LibreCat: https://research-explorer.ista.ac.at/record/8250
DOI: 10.1038/s41467-020-17734-z
WoS: 000562769300008

A minimal biophysical model of combined antibiotic action
B. Kavcic, G. Tkadik, M.T. Bollenbach, BioRxiv (2020).
LibreCat: https://research-explorer.ista.ac.at/record/7673
DOI: 10.1101/2020.04.18.047886

Gene amplification as a form of population-level gene expression regulation
I. Tomanek, R. Grah, M. Lagator, A.M.C. Andersson, J.P. Bollback, G. Tkadik, C.C. Guet, Nature Ecology &; Evolution 4 (2020) 612–625.
LibreCat: https://research-explorer.ista.ac.at/record/7652
DOI: 10.1038/s41559-020-1132-7
WoS: 000519008300005

Action at a distance in transcriptional regulation
W. Bialek, T. Gregor, G. Tkadik, ArXiv:1912.08579 (n.d.).
LibreCat: https://research-explorer.ista.ac.at/record/7552
arXiv: 1912.08579

Optimal decoding of cellular identities in a genetic network
M.D. Petkova, G. Tkadik, W. Bialek, E.F. Wieschaus, T. Gregor, Cell 176 (2019) 844–855.e15.
LibreCat: https://research-explorer.ista.ac.at/record/5945
DOI: 10.1016/j.cell.2019.01.007
WoS: 000457969200015
PMID: 30712870

Feedback-induced self-oscillations in large interacting systems subjected to phase transitions
D. De Martino, Journal of Physics A: Mathematical and Theoretical 52 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/6049
DOI: 10.1088/1751-8121/aaf2dd
WoS: 000455379500001

Temporal order and precision of complex stress responses in individual bacteria
K. Mitosch, G. Rieckh, M.T. Bollenbach, Molecular Systems Biology 15 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/6046
DOI: 10.15252/msb.20188470
WoS: 000459628300003
PMID: 30765425

Molecular noise of innate immunity shapes bacteria-phage ecologies
J. Ruess, M. Pleska, C.C. Guet, G. Tkadik, PLoS Computational Biology 15 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/6784
DOI: 10.1371/journal.pcbi.1007168
WoS: 000481577700032

Supporting text and results
J. Ruess, M. Pleska, C.C. Guet, G. Tkadik, (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9786
DOI: 10.1371/journal.pcbi.1007168.s001

eGFRD in all dimensions
T.R. Sokolowski, J. Paijmans, L. Bossen, T. Miedema, M. Wehrens, N.B. Becker, K. Kaizu, K. Takahashi, M. Dogterom, P.R. ten Wolde, The Journal of Chemical Physics 150 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/7422
DOI: 10.1063/1.5064867
WoS: 000458109300009
arXiv: 1708.09364

Estimating information in time-varying signals
S.A. Cepeda Humerez, J. Ruess, G. Tkadik, PLoS Computational Biology 15 (2019) e1007290.
LibreCat: https://research-explorer.ista.ac.at/record/6900
DOI: 10.1371/journal.pcbi.1007290
WoS: 000489741800021
PMID: 31479447

Harmonic dynamics of the Abelian sandpile
M. Lang, M. Shkolnikov, Proceedings of the National Academy of Sciences 116 (2019) 2821–2830.
LibreCat: https://research-explorer.ista.ac.at/record/196
DOI: 10.1073/pnas.1812015116
WoS: 000459074400013
PMID:  30728300
arXiv: 1806.10823

Limiting shapes of confined lipid vesicles
B. Kavcic, A. Sakashita, H. Noguchi, P. Ziherl, Soft Matter 15 (2019) 602–614.
LibreCat: https://research-explorer.ista.ac.at/record/5817
DOI: 10.1039/c8sm01956h
WoS: 000457329700003
PMID: 30629082

Estimating information flow in single cells
S.A. Cepeda Humerez, Estimating Information Flow in Single Cells, Institute of Science and Technology Austria, 2019.
LibreCat: https://research-explorer.ista.ac.at/record/6473
DOI: 10.15479/AT:ISTA:6473

Coevolution of transcription factors and their binding sites in sequence space
R. Prizak, Coevolution of Transcription Factors and Their Binding Sites in Sequence Space, Institute of Science and Technology Austria, 2019.
LibreCat: https://research-explorer.ista.ac.at/record/6071
DOI: 10.15479/at:ista:th6071

Non-equilibrium critical dynamics of bursts in ;8 and ;4 rhythms as fundamental characteristic of sleep and wake micro-architecture
J.W.J.L. Wang, F. Lombardi, X. Zhang, C. Anaclet, P.C. Ivanov, PLoS Computational Biology 15 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/7103
DOI: 10.1371/journal.pcbi.1007268
WoS: 000500976100014
PMID: 31725712

Receptor crosstalk improves concentration sensing of multiple ligands
M. Carballo-Pacheco, J. Desponds, T. Gavrilchenko, A. Mayer, R. Prizak, G. Reddy, I. Nemenman, T. Mora, Physical Review E 99 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/6090
DOI: 10.1103/PhysRevE.99.022423
WoS: 000459916500007

A tight upper bound on mutual information
M. Hledik, T.R. Sokolowski, G. Tkadik, in:, IEEE Information Theory Workshop, ITW 2019, IEEE, 2019.
LibreCat: https://research-explorer.ista.ac.at/record/7606
DOI: 10.1109/ITW44776.2019.8989292
WoS: 000540384500015
arXiv: 1812.01475

An introduction to the maximum entropy approach and its application to inference problems in biology
A. De Martino, D. De Martino, Heliyon 4 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/306
DOI: 10.1016/j.heliyon.2018.e00596

Fabrication and operation of microfluidic hanging drop networks
P. Misun, A. Birchler, M. Lang, A. Hierlemann, O. Frey, Methods in Molecular Biology 1771 (2018) 183–202.
LibreCat: https://research-explorer.ista.ac.at/record/305
DOI: 10.1007/978-1-4939-7792-5_15

Distributed and dynamic intracellular organization of extracellular information
A. Granados, J. Pietsch, S.A. Cepeda Humerez, I. Farquhar, G. Tkadik, P. Swain, PNAS 115 (2018) 6088–6093.
LibreCat: https://research-explorer.ista.ac.at/record/281
DOI: 10.1073/pnas.1716659115
WoS: 000434114900071
PMID: 29784812

Evolutionary pathways for the generation of new self-incompatibility haplotypes in a non-self recognition system
K. Bodova, T. Priklopil, D. Field, N.H. Barton, M. Pickup, Genetics 209 (2018) 861–883.
LibreCat: https://research-explorer.ista.ac.at/record/316
DOI: 10.1534/genetics.118.300748
WoS: 000437171700017

Supplemental material for Bodova et al., 2018
K. Bodova, T. Priklopil, D. Field, N.H. Barton, M. Pickup, (2018).
LibreCat: https://research-explorer.ista.ac.at/record/9813
DOI: 10.25386/genetics.6148304.v1

Probabilistic models of individual and collective animal behavior
K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, G. Tkadik, PLoS One 13 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/406
DOI: 10.1371/journal.pone.0193049
WoS: 000426896800032

Phage-host population dynamics promotes prophage acquisition in bacteria with innate immunity
M. Pleska, M. Lang, D. Refardt, B. Levin, C.C. Guet, Nature Ecology and Evolution 2 (2018) 359–366.
LibreCat: https://research-explorer.ista.ac.at/record/457
DOI: 10.1038/s41559-017-0424-z
WoS: 000426516400027

Implementation of the inference method in Matlab
K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, G. Tkadik, (2018).
LibreCat: https://research-explorer.ista.ac.at/record/9831
DOI: 10.1371/journal.pone.0193049.s001

Separating intrinsic interactions from extrinsic correlations in a network of sensory neurons
U. Ferrari, S. Deny, M.J. Chalk, G. Tkadik, O. Marre, T. Mora, Physical Review E 98 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/31
DOI: 10.1103/PhysRevE.98.042410
WoS: 000447486100004

Toward a unified theory of efficient, predictive, and sparse coding
M.J. Chalk, O. Marre, G. Tkadik, PNAS 115 (2018) 186–191.
LibreCat: https://research-explorer.ista.ac.at/record/543
DOI: 10.1073/pnas.1711114115
WoS: 000419128700049

Well posedness and maximum entropy approximation for the dynamics of quantitative traits
K. Bodova, J. Haskovec, P. Markowich, Physica D: Nonlinear Phenomena 376–377 (2018) 108–120.
LibreCat: https://research-explorer.ista.ac.at/record/607
DOI: 10.1016/j.physd.2017.10.015
WoS: 000437962900012
arXiv: 1704.08757

Nonoptimal gene expression creates latent potential for antibiotic resistance
A. Palmer, R.P. Chait, R. Kishony, Molecular Biology and Evolution 35 (2018) 2669–2684.
LibreCat: https://research-explorer.ista.ac.at/record/19
DOI: 10.1093/molbev/msy163
WoS: 000452567200006
PMID: 30169679

Nonlinear decoding of a complex movie from the mammalian retina
V. Botella Soler, S. Deny, G.S. Martius, O. Marre, G. Tkadik, PLoS Computational Biology 14 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/292
DOI: 10.1371/journal.pcbi.1006057
WoS: 000434012100002

Nonlinear decoding of a complex movie from the mammalian retina
S. Deny, O. Marre, V. Botella-Soler, G.S. Martius, G. Tkadik, (2018).
LibreCat: https://research-explorer.ista.ac.at/record/5584
DOI: 10.15479/AT:ISTA:98

Statistical mechanics for metabolic networks during steady state growth
D. De Martino, A.A. Mc, T. Bergmiller, C.C. Guet, G. Tkadik, Nature Communications 9 (2018).
LibreCat: https://research-explorer.ista.ac.at/record/161
DOI: 10.1038/s41467-018-05417-9
WoS: 000440149300021

Supporting materials "STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH"
D. De Martino, G. Tkadik, (2018).
LibreCat: https://research-explorer.ista.ac.at/record/5587
DOI: 10.15479/AT:ISTA:62

Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkadik, J.P. Bollback, C.C. Guet, Nature Ecology and Evolution 2 (2018) 1633–1643.
LibreCat: https://research-explorer.ista.ac.at/record/67
DOI: 10.1038/s41559-018-0651-y
WoS: 000447947600021

Data for the paper Evolutionary potential of transcription factors for gene regulatory rewiring
C. Igler, M. Lagator, G. Tkadik, J.P. Bollback, C.C. Guet, (2018).
LibreCat: https://research-explorer.ista.ac.at/record/5585
DOI: 10.15479/AT:ISTA:108

Shaping bacterial population behavior through computer interfaced control of individual cells
R.P. Chait, J. Ruess, T. Bergmiller, G. Tkadik, C.C. Guet, Nature Communications 8 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/613
DOI: 10.1038/s41467-017-01683-1

Dynamical self consistency leads to behavioral development and emergent social interactions in robots
R. Der, G.S. Martius, in:, IEEE, 2017.
LibreCat: https://research-explorer.ista.ac.at/record/652
DOI: 10.1109/DEVLRN.2016.7846789

Self organized behavior generation for musculoskeletal robots
R. Der, G.S. Martius, Frontiers in Neurorobotics 11 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/658
DOI: 10.3389/fnbot.2017.00008

Probabilistic models for neural populations that naturally capture global coupling and criticality
J. Humplik, G. Tkadik, PLoS Computational Biology 13 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/720
DOI: 10.1371/journal.pcbi.1005763

Discrete modes of social information processing predict individual behavior of fish in a group
R. Harpaz, G. Tkadik, E. Schneidman, PNAS 114 (2017) 10149–10154.
LibreCat: https://research-explorer.ista.ac.at/record/725
DOI: 10.1073/pnas.1703817114
PMID: 28874581

Data from: Error-robust modes of the retinal population code
J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkadik, M. Berry, (2017).
LibreCat: https://research-explorer.ista.ac.at/record/9709
DOI: 10.5061/dryad.1f1rc

Sensory noise predicts divisive reshaping of receptive fields
M.J. Chalk, P. Masset, B. Gutkin, S. Denève, PLoS Computational Biology 13 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/680
DOI: 10.1371/journal.pcbi.1005582

Supplementary appendix
M.J. Chalk, P. Masset, B. Gutkin, S. Denève, (2017).
LibreCat: https://research-explorer.ista.ac.at/record/9855
DOI: 10.1371/journal.pcbi.1005582.s001