Santa Fe
Institute

Virus classification based on in-depth sequence analyses and development of demarcation criteria using the Betaflexiviridae as a case study

Silva, Joao Marcos Fagundes; Fernando Lucas Melo; Santiago F. Elena; Thierry Candresse; Sead Sabanadzovic; Ionnis E. Tzanetakis; Arnaud G. Blouin; Dan Edward Veloso Villamor; Dimitre Mollov; Fiona Constable; Mengzi Cao; Pasquale Saldarelli; Won Kyong Cho and Tatsuya Nagata
2022
Journal of General Virology
103
11
Abstract

Developing transdisciplinary approaches to sustainability challenges: The need to model socio-environmental systems in the Longue Duree

Silva, Fabio; Fiona Coward; Kimberley Davies; Sarah Elliott; Emma Jenkins; Adrian C. Newton; Philip Riris; Marc Vander Linden; Jennifer Bates… Stefani A. Crabtree et al.
2022
Sustainability
14
10234
Abstract

Multimorbidity and mortality: A data science perspective

Sia, Kien Wei; Chi Heem Wong; Jerry Gupta and Andrew W. Lo
2022
Journal of Multimorbidity and Comorbidity
12
1-20
Abstract

Strength-mass scaling law governs mass distribution inside honey bee swarms

Shishkov, Olga; Claudia Chen; Claire Allison Madonna; Kaushik Jayaram and Orit Peleg
2022
Scientific Reports
12
1
Abstract

Computational capacity of LRC, memristive, and hybrid reservoirs

Sheldon, Forrest C.; Artemy Kolchinsky and Francesco Caravelli
2022
Physical Review E
106
4
Abstract

Sex differences in the functional topography of association networks in youth

Shanmugan, Sheila; Jakob Seidlitz; Zaixu Cui; Azze Adebimpe; Danielle S. Bassett; Maxwell A. Berolero; Christos Davatzikos; Damien A. Fair; Raquel E. Gur et al.
2022
Proceedings of the National Academy of Sciences of the United States of America
119
33
Abstract

Sparse data reconstruction, missing value and multiple imputation through matrix factorization

Sengupta, Nandana; Madeleine Udell; Nathan Srebro and James Evans
2022
American Sociological Review
52
1
Abstract

Multi-scale phase separation by explosive percolation with single-chromatin loop resolution

Sengupta, Kaustav; Michał Denkiewicz; Mateusz Chilinski; Teresa Szczepinska; Ayatullah Faruk Mollah; Sevastianos Korsak; Raissa D’Souza; Yin Ruin and Dariusz Plewczynski
2022
Computational and Structural Biotechnology Journal
20
3591-3603
Abstract

Evolving collaboration, dependencies, and use in the Rust Open Source Software ecosystem

Schueller, William; Johannes Wachs; Vito D. P. Servedio; Stefan Thurner and Vittorio Loreto
2022
Scientific Data
9
1
Abstract

AsymmeTree: A flexible Phyton package for the simulation of complex gene family histories

Schaller, David; Marc Hellmuth and Peter F. Stadler
2022
Software
1
276-298
Abstract

Statistical analysis reveals the onset of synchrony in sparse swarms of Photinus knulli fireflies

Sarfati, Raphael; Laura Gaudette; Joseph M. Cicero and Orit Peleg
2022
Journal of the Royal Society Interface
19
186
Abstract

Chimera states among synchronous fireflies

Sarfati, Raphael and Orit Peleg
2022
Science Advances
8
46
Abstract

Spatial phase synchronization of pistachio alternate bearing: Common-noise-induced synchronization of coupled chaotic oscillators

Sakai, Kenshi; Patrick H. Brown; Todd S. Rosenstock; Shrinivasa K. Upadhyaya and Alan Hastings
2022
Chaos Solitons & Fractals
165
2
Abstract

Traditional protocols and optimization methods lead to absent expression in a mycoplasma cell-free gene expression platform

Sakai, Andrei; Christopher R. Deich; Frank H. T. Nelissen; Aafke J. Jonker; Daniela M. de C. Bittencourt; Christopher P. Kempes; Kim S. Wise; Hans A. Heus; Wilhelm T. S. Huck; Katarzyna P. Adamala and John I. Glass
2022
Synthetic Biology
7
1
Abstract

Traditional protocols and optimization methods lead to absent expression in a mycoplasma cell-tree gene expression platform

Sakai, Andrei; Christopher R. Deich; Frank H. T. Nelissen; Aafke J. Jonker; Daniela M. De C. Bittencourt; Christopher P. Kempes; Kim S. Wise; Hans A. Heus; Wilhelm T. S. Huch and Katarzyna P. Adamala
2022
Synthetic Biology
7
1
Abstract

Intermittent regimes as a synchronization phenomenon in two sets of nonlinear chemical oscillators

Saavedra, Martin; Juan Perez-Mercader and Alberto P. Munuzuri
2022
Chaos
32
11
Abstract

Nonequilibrium statistical mechanics and optimal prediction of partially-observed complex systems

Rupe, Adam; Velimir V. Vesselinov and James P. Crutchfield
2022
New Journal of Physics
24
10
Abstract

Optimizing earthquake nowcasting with machine learning: The role of strain hardening in the earthquake cycle

Rundle, John B.; Joe Yazbeck; Andrea Donnellan; Geoffrey Fox; Lisa Grant Ludwig; Michael Heflin and James Crutchfield
2022
Earth and Space Science
9
11
Abstract

Long-range current-induced spin accumulation in chiral crystals

Roy, Arunesh; Frank T. Cerasoli; Anooja Jayaraj; Karma Tenzin; Marco Nardelli and Jagoda Slawinska
2022
NPJ Computational Materials
8
1
Abstract

Coring, profiling, and trenching: Archaeological field strategies for investigating the Pleistocene-Holocene-Anthropocene continuum

Rick, Torben C.; Abdullah M. Alsharekh; Todd J. Braje; Alison Crowther; Jon M. Erlandson; Dorian Q. Fuller; Kristina M. Gill; Huw S. Groucutt; Maria Guagnin; Richard Helm; Courtney A. Hofman; Mark Horton; Andrea Kay; Ravi Korisettar; Chantal Radimilahy; Leslie Reeder-Myers; Ceri Shipton; Henry T. Wright; Michael Petraglia and Nicole Boivin
2022
Quaternary International
628
1-17
Abstract