no code implementations • 21 Mar 2024 • Hong-Li Zeng, Cheng-Long Yang, Bo Jing, John Barton, Erik Aurell
We also find that agreement between ranking of sequences varies with genetic unimodality in the population in a given week.
no code implementations • 24 Dec 2021 • Hong-Li Zeng, Yue Liu, Vito Dichio, Erik Aurell
We use Direct Coupling Analysis (DCA) to determine epistatic interactions between loci of variability of the SARS-CoV-2 virus, segmenting genomes by month of sampling.
no code implementations • 7 Sep 2021 • Hong-Li Zeng, Yue Liu, Vito Dichio, Kaisa Thorell, Rickard Nordén, Erik Aurell
We compute the allele frequencies of the alpha (B. 1. 1. 7), beta (B. 1. 351) and delta (B. 167. 2) variants of SARS-CoV-2 from almost two million genome sequences on the GISAID repository.
no code implementations • 4 May 2021 • Vito Dichio, Hong-Li Zeng, Erik Aurell
This review is about statistical genetics, an interdisciplinary topic between statistical physics and population biology.
no code implementations • 13 Jan 2021 • Giulio Chiribella, Erik Aurell, Karol Życzkowski
Our no-go theorem implies that any time symmetric formulation of quantum theory must either restrict the set of the allowed evolutions, or modify the operational interpretation of quantum states and processes.
Quantum Physics Mathematical Physics Mathematical Physics
no code implementations • 28 Dec 2020 • Erik Aurell, Michał Eckstein, Paweł Horodecki
In contrast, the single-mode thermality of Hawking radiation originating from microscopic black holes, expected to evaporate through several quanta, is not excluded, though there are constraints on modes' frequencies.
Information Retrieval General Relativity and Quantum Cosmology High Energy Physics - Theory Quantum Physics 83C57, 81P45, 81V80
no code implementations • 30 Jun 2020 • Hong-Li Zeng, Eugenio Mauri, Vito Dichio, Simona Cocco, Remi Monasson, Erik Aurell
We consider a population evolving due to mutation, selection and recombination, where selection includes single-locus terms (additive fitness) and two-loci terms (pairwise epistatic fitness).
no code implementations • 3 Mar 2014 • Christoph Feinauer, Marcin J. Skwark, Andrea Pagnani, Erik Aurell
Correlation patterns in multiple sequence alignments of homologous proteins can be exploited to infer information on the three-dimensional structure of their members.
1 code implementation • 20 Jan 2014 • Magnus Ekeberg, Tuomo Hartonen, Erik Aurell
Direct-Coupling Analysis is a group of methods to harvest information about coevolving residues in a protein family by learning a generative model in an exponential family from data.
no code implementations • 9 Oct 2013 • Rémi Lemoy, Mikko Alava, Erik Aurell
A Variable-based Focused Metropolis Search (V-FMS) is then applied to random 3-SAT.