Center for Models of Life: People

Sandeep Krishna

Position: Associate Professor (lektor)
Email: sandeep

nbi.dk
Phone: +45 353 25430

Publications:

Benedicte Mengel, Sandeep Krishna, Mogens H. Jensen, Ala Trusina

Nested feedback loops in gene regulation

Physica A 0: (2012)

Csiszovszki Z, Krishna S, Orosz L, Adhya S, Semsey S.

Structure and function of the d-galactose network in enterobacteria.

MBio 2:pii: e0005 (2011)

Bendtsen KM, Erdossy J, Csiszovszki Z, Svenningsen SL, Sneppen K, Krishna S, Semsey S.

Direct and indirect effects in the regulation of overlapping promoters.

Nucleic Acids Res. 0: (2011)

Pernille Yde, Benedicte Mengel, Mogens H Jensen, Sandeep Krishna and Ala Trusina

Modeling the NF-κB mediated inflammatory response predicts cytokine waves in tissue

BMC Systems Biology 5:115 (2011)

Lykke Pedersen, Mogens Høgh Jensen, Sandeep Krishna

Dickkopf1 - A New Player in Modelling the Wnt Pathway

Plos One 6:e25550 (2011)

Mogens H. Jensen, Simone Pigolotti and Sandeep Krishna

Genetic oscillation patterns

Eur. Phys. Jour. ST 178:45 (2011)

Simone Pigolotti, Sandeep Krishna and Mogens H. Jensen

Symbolic Dynamics in Genetic Oscillation Patterns

"The Complexity of Dynamical Systems: a multidisciplinary perspective" eds. J. Dubbeldam, D. Lenstra, and K. Green, Wiley Publishing 0:99 (2011)

Silja Heilmann, Kim Sneppen and Sandeep Krishna

Sustainability of Virulence in a Phage-Bacterial Ecosystem

Journal of Virology 84: (2010)

Kim Sneppen, Sandeep Krishna, Szabolcs Semsey

Simplified Models of Biological Networks

Annual Review of Biophysics 39:43 (2010)

Alexander Hunziker, Csaba Tuboly, Péter Horváth, Sandeep Krishna, and Szabolcs Semsey

Genetic flexibility of regulatory networks

Proc. Natl. Acad. Sci. USA 107:12998 (2010)

Peter B. Jensen, Lykke Pedersen, Sandeep Krishna and Mogens H. Jensen

A Wnt Oscillator Model for Somitogenesis

Biophysical Journal 98: (2010)

Alexander Hunziker, Mogens H Jensen, Sandeep Krishna

Stress-specific response of the p53-Mdm2 feedback loop

BMC Systems Biology 4:94 (2010)

Peter Horvath, Alexander Hunziker, Janos Erdossy, Sandeep Krishna and Szabolcs Semsey

Timing of gene transcription in the galactose utilization system of Escherichia coli

JBC 285:38062 (2010)

Sneppen K, Pedersen S, Krishna S, Dodd I, Semsey S.

Economy of operon formation: cotranscription minimizes shortfall in protein complexes.

MBio 1: e00177 (2010)

Benedicte Mengel, Alexander Hunziker, Lykke Pedersen, Ala Trusina, Mogens H Jensen and Sandeep Krishna

Modeling oscillatory control in NF-κB, p53 and Wnt signaling

Current Opinion in Genetics & Development 20:571 (2010)

Mikkel Avlund, Sandeep Krishna, Szabolcs Semsey, Ian B. Dodd, Kim Sneppen

Minimal Gene Regulatory Circuits for a Lysis-Lysogeny Choice in the Presence of Noise

PLoS ONE 5:e15037 (2010)

Maria Werner, Szabolcs Semsey, Kim Sneppen, Sandeep Krishna

Dynamics of Uptake and Metabolism of Small Molecules in Cellular Response Systems

PLoS ONE 4:e4923 (2009)

Simone Pigolotti, Sandeep Krishna, Mogens H. Jensen

Symbolic dynamics of biological feedback networks

Phys. Rev. Lett. 102:088701 (2009)

Sergei Maslov, Sandeep Krishna, Tin Yau Pang and Kim Sneppen

Toolbox model of evolution of prokaryotic metabolic networks and their regulation

PNAS 106:9743 (2009)

Namiko Mitarai, Julie-Anna M. Benjamin, Sandeep Krishna, Szabolcs Semsey, Zsolt Csiszovszki, Eric Massé, and Kim Sneppen

Dynamic features of gene expression control by small regulatory RNAs

Proc. Natl. Acad. Sci. USA 106:10655 (2009)

Szabolcs Semsey, Julie-Anna M. Benjamin, Namiko Mitarai, Sandeep Krishna, Zsolt Csiszovszki, Kim Sneppen and Eric Massé

Dynamics of the recovery from sRNA-mediated gene silencing

Cell Cycle 8:2863 (2009)

Mikkel Avlund, Ian B. Dodd, Szabolcs Semsey, Kim Sneppen, and Sandeep Krishna

Why Do Phage Play Dice

Journal of Virology 83:11416 (2009)

Mikkel Avlund, Ian B. Dodd, Kim Sneppen, and Sandeep Krishna

Minimal gene regulatory circuits that can count like bacteriophage lambda

J Mol Biol. 394:681 (2009)

Szabolcs Semsey, Sandeep Krishna, Janos Erdssy, Peter Horvath, Laszlo Orosz, Kim Sneppen and Sankar Adhya

Dominant Negative Autoregulation Limits Steady-State Repression Levels in Gene Networks

Journal of Bacteriology 191:4487 (2009)

Sandeep Krishna, Laszlo Orosz, Kim Sneppen, Sankar Adhya and Szabolcs Semsey

Relation of Intracellular Signal Levels and Promoter Activities in the gal Regulon of Escherichia coli

Journal of Molecular Biology 391:671 (2009)

Jacob Bock Axelsen, Sandeep Krishna, Kim Sneppen

Cost and Capacity of Signaling in the Escherichia coli Protein Reaction Network

J. Stat. Mech. 0:P01018 (2008)
0711.0455

Simone Pigolotti, Sandeep Krishna, Mogens H. Jensen

Oscillation patterns in negative feedback loops

Proc. Natl. Acad. Sci. (USA) 104:6533-6537 (2007)
q-bio.MN/0611038

Namiko Mitarai, Anna M. C. Andersson, Sandeep Krishna, Szabolcs Semsey, and Kim Sneppen

Efficient degradation and expression prioritization with small RNAs

Phys. biol. 4:164 (2007)
q-bio.MN/0611069

Sandeep Krishna, Sergei Maslov, Kim Sneppen

UV-induced mutagenesis in the Escherichia coli SOS response: A quantitative model

PLoS Comput. Biol. 3:e41 (2007)
q-bio.MN/0701013

G Tiana, S Krishna, S Pigolotti, M H Jensen and K Sneppen

Oscillations and temporal signalling in cells

Phys. Biol. 4:R1 (2007)

Szabolcs Semsey, Sandeep Krishna, Kim Sneppen, Sankar Adhya

Signal Integration in the Galactose Network of Escherichia coli

Molecular Microbiology 65:465 (2007)

Sandeep Krishna, Szabolcs Semsey, Kim Sneppen

Combinatorics of feedback in cellular uptake and metabolism of small molecules

Proc. Natl. Acad. Sci. USA 104:20815 (2007)

Jesper Fonslet, Kristian Rud-Petersen, Sandeep Krishna, Mogens H. Jensen

Pulses and chaos: dynamical response in a simple genetic oscillator

Int. J. Mod. Phys. B 21:4083 (2007)

Sandeep Krishna, Anna M. C. Andersson, Szabolcs Semsey, Kim Sneppen

Structure and function of negative feedback loops at the interface of genetic and metabolic networks

Nucleic Acids Research 34:2455 (2006)
q-bio.MN/0604029

Sandeep Krishna, Mogens H. Jensen, Kim Sneppen

Minimal model of spiky oscillations in NF-kB signaling

Proc. Natl. Acad. Sci. (USA) 103:10840 (2006)
q-bio.MN/0509017

Szabolcs Semsey, Anna M. C. Andersson, Sandeep Krishna, Mogens Høgh Jensen, Eric Massé, and Kim Sneppen

Genetic regulation of fluxes: Iron homeostasis of Escherichia coli

Nucleic Acids Research 34:4960 (2006)
q-bio.MN/0609042

Martin Rosvall, Ian B. Dodd, Sandeep Krishna, Kim Sneppen

Network models of phage-bacteria coevolution

Phys. Rev. E 74:66105 (2006)
q-bio.PE/0609031