Self Organization in Competition and Diversity

Project Information

SOURCE

Grant agreement ID: 740704

DOI 10.3030/740704

Project closed

EC signature date 10 May 2017

Start date 1 September 2017

End date 28 February 2023

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 2 211 015,00

EU contribution € 2 211 015,00

Coordinated by

KOBENHAVNS UNIVERSITET
Denmark

Publications

Peer reviewed articles (34)

Optimal Transport Flows for Distributed Production Networks.

Author(s): Julius B. Kirkegaard; Kim Sneppen
Published in: Kirkegaard , J B & Sneppen , K 2020 , ' Optimal Transport Flows for Distributed Production Networks ' , Physical Review Letters , vol. 124 , no. 20 , 208101 . https://doi.org/10.1103/PhysRevLett.124.208101, Issue 124, 2020, Page(s) 208101, ISSN 1079-7114
Publisher: American Physical Society (United States)
DOI: 10.48550/arxiv.1910.14411

When to wake up? The optimal waking-up strategies for starvation-induced persistence

Author(s): Yusuke Himeoka; Namiko Mitarai
Published in: PLoS Computational Biology, Vol 17, Iss 2, p e1008655 (2021), Issue 17, 2021, Page(s) e1008655, ISSN 1553-7358
Publisher: Public Library of Science
DOI: 10.1101/2019.12.29.890285

Optimal Transport Flows for Distributed Production Networks

Author(s): Julius B. Kirkegaard, Kim Sneppen
Published in: Physical Review Letters, Issue 124/20, 2020, ISSN 0031-9007
Publisher: American Physical Society
DOI: 10.1103/physrevlett.124.208101

Lockdowns exert selection pressure on overdispersion of SARS-CoV-2 variants

Author(s): Bjarke Frost Nielsen; Andreas Eilersen; Lone Simonsen; Kim Sneppen
Published in: Epidemics, Issue 40, 2022, Page(s) 100613, ISSN 1755-4365
Publisher: Elsevier BV
DOI: 10.1016/j.epidem.2022.100613

Establishment of heterochromatin in domain-size-dependent bursts

Author(s): Jan Fabio Nickels, Ashleigh Katrine Edwards, Sebastian Jespersen Charlton, Amanda Møller Mortensen, Sif Christine Lykke Hougaard, Ala Trusina, Kim Sneppen, Geneviève Thon
Published in: Procedeings of the National Academy of Sciences USA, 2021, ISSN 1091-6490
Publisher: United States National Academy of Sciences
DOI: 10.1073/pnas.2022887118

COVID-19 Superspreading Suggests Mitigation by Social Network Modulation.

Author(s): Bjarke Frost Nielsen; Lone Simonsen; Kim Sneppen
Published in: Proceedings of the National Academy of Sciences of the United States of America, Issue 13, 2021, Page(s) 126, 118301, ISSN 1079-7114
Publisher: American Physical Society
DOI: 10.1103/physrevlett.126.118301

Cost-benefit of limited isolation and testing in COVID-19 mitigation.

Author(s): Andreas Eilersen; Kim Sneppen
Published in: Scientific Report, Issue 12, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-75640-2

Superspreading of airborne pathogens in a heterogeneous world

Author(s): Julius B. Kirkegaard, Joachim Mathiesen, Kim Sneppen
Published in: Scientific Reports, Issue Sci Rep 11, (2021), 2021, Page(s) 11191, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-021-90666-w

Overdispersion in COVID-19 increases the effectiveness of limiting nonrepetitive contacts for transmission control

Author(s): Kim Sneppen, Bjarke Frost Nielsen, Robert J. Taylor, Lone Simonsen
Published in: Proceedings National Academy of Sciences, 2021, ISSN 1091-6490
Publisher: United States National Academy of Sciences
DOI: 10.1073/pnas.2016623118

Spatial model of Ebola outbreaks contained by behavior change

Author(s): Gustav S. Halvorsen, Lone Simonsen, Kim Sneppen
Published in: PlosOne, 2022, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0264425

The transcription factor Atf1 lowers the transition barrier for nucleosome-mediated establishment of heterochromatin

Author(s): Jan Fabio Nickels; Maria Eduarda Della-Rosa; Iñigo Miguelez Goyeneche; Sebastian Jespersen Charlton; Kim Sneppen; Genevieve Thon
Published in: Nickels , J F , Della-Rosa , M E , Miguelez Goyeneche , I , Charlton , S J , Sneppen , K & Thon , G 2022 , ' The transcription factor Atf1 lowers the transition barrier for nucleosome-mediated establishment of heterochromatin ' , Cell Reports , vol. 39 , no. 7 , 110828 . https://doi.org/10.1016/j.celrep.2022.110828, Issue 39, 2022, Page(s) 110828, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2022.110828

On phage adsorption to bacterial chains

Author(s): Rasmus Skytte Eriksen; Namiko Mitarai; Kim Sneppen
Published in: Biophysical Journal, Issue 14, 2020, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1101/2020.06.10.144675

Host heterogeneity and epistasis explain punctuated evolution of SARS-CoV-2

Author(s): Bjarke Frost Nielsen; Chadi M. Saad-Roy; Yimei Li; Kim Sneppen; Lone Simonsen; Cécile Viboud; Simon A. Levin; Bryan T. Grenfell
Published in: Plos Computational Biology, Issue 19.2, 2023, Page(s) 2, ISSN 1476-9271
Publisher: Pergamon Press Ltd.
DOI: 10.1371/journal.pcbi.1010896

Superspreading quantified from bursty epidemic trajectories

Author(s): Julius B. Kirkegaard, Kim Sneppen
Published in: Scientific Reports, 2021, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-021-03126-w

Hitchhiking, collapse, and contingency in phage infections of migrating bacterial populations

Author(s): Derek Ping, Tong Wang, David T. Fraebel, Sergei Maslov, Kim Sneppen, Seppe Kuehn
Published in: ISME J, Issue 14, 2020, Page(s) 2007-2018, ISSN 1751-7370
Publisher: nature
DOI: 10.1038/s41396-020-0664-9

From kill the winner to eliminate the winner in open phage-bacteria systems

Author(s): Anastasios Marantos, Namiko Mitarai, Kim Sneppen
Published in: PLoS Comput Biol, Issue 18, 2022, Page(s) e1010400, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1371/journal.pcbi.1010400

Theoretical tool bridging cell polarities with development of robust morphologies

Author(s): Silas Boye Nissen, Steven Rønhild, Ala Trusina, Kim Sneppen
Published in: elife, 2018, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.38407.001

Exploring the Link between Nucleosome Occupancy and DNA Methylation

Author(s): Cecilia Lövkvist, Kim Sneppen, Jan O. Haerter
Published in: Frontiers in Genetics, Issue 8, 2018, ISSN 1664-8021
Publisher: Frontiers Media
DOI: 10.3389/fgene.2017.00232

Deconstructing the principles of ductal network formation in the pancreas

Author(s): Svend Bertel Dahl-Jensen, Siham Yennek, Lydie Flasse, Hjalte List Larsen, Dror Sever, Gopal Karremore, Ivana Novak, Kim Sneppen, Anne Grapin-Botton
Published in: PLOS Biology, Issue 16/7, 2018, Page(s) e2002842, ISSN 1545-7885
Publisher: PLoS
DOI: 10.1371/journal.pbio.2002842

Exploring the contribution of exposure heterogeneity to the cessation of the 2014 Ebola epidemic

Author(s): Florian Uekermann, Lone Simonsen, Kim Sneppen
Published in: PLOS ONE, Issue 14/2, 2019, Page(s) e0210638, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0210638

Self-assembly, buckling and density-invariant growth of three-dimensional vascular networks

Author(s): Julius B. Kirkegaard, Bjarke F. Nielsen, Ala Trusina, Kim Sneppen
Published in: Journal of The Royal Society Interface, Issue 16/159, 2019, Page(s) 20190517, ISSN 1742-5689
Publisher: The Royal Society
DOI: 10.1098/rsif.2019.0517

Regime Shifts in a Phage-Bacterium Ecosystem and Strategies for Its Control

Author(s): Sergei Maslov, Kim Sneppen
Published in: mSystems, Issue 4/6, 2019, ISSN 2379-5077
Publisher: American Society for Microbiology
DOI: 10.1128/msystems.00470-19

Theoretical analysis of Polycomb-Trithorax systems predicts that poised chromatin is bistable and not bivalent

Author(s): Kim Sneppen, Leonie Ringrose
Published in: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-019-10130-2

A growing microcolony can survive and support persistent propagation of virulent phages

Author(s): Rasmus Skytte Eriksen, Sine L. Svenningsen, Kim Sneppen, Namiko Mitarai
Published in: Proceedings of the National Academy of Sciences, Issue 115/2, 2018, Page(s) 337-342, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1708954115

Sustainability of spatially distributed bacteria-phage systems

Author(s): Rasmus Skytte Eriksen, Namiko Mitarai, Kim Sneppen
Published in: Scientific Reports, Issue 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-59635-7

Chaos in disease outbreaks among prey

Author(s): Andreas Eilersen, Mogens H. Jensen, Kim Sneppen
Published in: Scientific Reports, Issue 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-60945-z

Model to Link Cell Shape and Polarity with Organogenesis

Author(s): Bjarke Frost Nielsen, Silas Boye Nissen, Kim Sneppen, Joachim Mathiesen, Ala Trusina
Published in: iScience, Issue 23/2, 2020, Page(s) 100830, ISSN 2589-0042
Publisher: cell press
DOI: 10.1016/j.isci.2020.100830

Enhanced DNA repair through droplet formation and p53 oscillations.

Author(s): Mathias S. Heltberg; Alessandra Lucchetti; Feng-Shu Hsieh; Duy Pham Minh Nguyen; Sheng-hong Chen; Mogens H. Jensen
Published in: Crossref, Issue 185, 2022, Page(s) 4394-4408.e10, ISSN 1097-4172
Publisher: Cell Press
DOI: 10.1016/j.cell.2022.10.004

Social contagion in a world with asymmetric influence

Author(s): G. S. Halvorsen; B. N. Pedersen; Kim Sneppen
Published in: Physical Review E, Issue 103, 2020, Page(s) 2, ISSN 1898-2395
Publisher: American Physical Society
DOI: 10.1103/physreve.103.022303

Nematic Defects from Self-assembly, buckling and density-invariant growth of three-dimensional vascular networks

Author(s): Kirkegaard, Julius B.; Nielsen, Bjarke F.; Trusina, Ala; Sneppen, Kim
Published in: Journal of the Royal Society Interface, Issue 16, 2019, Page(s) 20190517, ISSN 1742-5662
Publisher: The Royal Society (United Kingdom)
DOI: 10.6084/m9.figshare.9970610.v1

The uneasy coexistence of predators and pathogens

Author(s): Eilersen, Andreas; Sneppen, Kim
Published in: Eilersen, K. Sneppen, 2020 , ' The uneasy coexistence of predators and pathogens ' , The European Physical Journal E: Soft Matter and Biological Physics , vol. 43 , no. 7 , 42 . https://doi.org/10.1140/epje/i2020-11966-7, Issue Eur. Phys. J. E 43, 2020, Page(s) 42, ISSN 1292-895X
Publisher: epj
DOI: 10.1101/721506

Emergence of networks of shared restriction-modification systems in phage–bacteria ecosystems

Author(s): Rasmus Skytte Eriksen; Nitish Malhotra; Aswin Sai Narain Seshasayee; Kim Sneppen; Sandeep Krishna
Published in: Crossref, Issue 47, 2022, Page(s) 38, ISSN 0973-7138
Publisher: springer
DOI: 10.1007/s12038-022-00274-7

Jag1-Notch cis-interaction determines cell fate segregation in pancreatic development

Author(s): Xiaochan Xu, Philip Allan Seymour, Kim Sneppen, Ala Trusina, Anuska la Rosa Egeskov-Madsen, Mette Christine Jørgensen, Mogens Høgh Jensen, Palle Serup
Published in: Nature Communications, Issue 14, 2023, Page(s) 348, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-35963-w

Differences in social activity increase efficiency of contact tracing

Author(s): Bjarke Frost Nielsen, Kim Sneppen, Lone Simonsen, Joachim Mathiesen
Published in: Eur. Phys. J. B, Issue 94, 209, 2021, ISSN 1434-6028
Publisher: Springer Verlag
DOI: 10.1140/epjb/s10051-021-00222-8