Evidence map›Paper›PMID 29176825›Full record

ArticlePLoS computational biology2017

The effect of spatial randomness on the average fixation time of mutants.

Suzan Farhang-Sardroodi, Amir H Darooneh, Moladad Nikbakht, Natalia L Komarova, Mohammad Kohandel

Open access · goldAbstract read
In one paragraph

Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
9.0field-weighted citation impact, top 3% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed, 21 citations in OpenAlex.

  1. Article
  2. The speed of neutral evolution on graphs.Journal of the Royal Society, Interface · 2024
    Article
  3. Article
  4. Evolution in alternating environments with tunable interlandscape correlations.Evolution; international journal of organic evolution · 2021
    Article
  5. The Moran process on 2-chromatic graphs.PLoS computational biology · 2020
    Article
  6. Article
  7. Article
  8. Article
  9. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 3 institutions in 3 countries.

Suzan Farhang-SardroodiDepartment of Physics, University of Zanjan, Zanjan, Iran.
Amir H DaroonehDepartment of Physics, University of Zanjan, Zanjan, Iran.
Moladad NikbakhtDepartment of Physics, University of Zanjan, Zanjan, Iran.
Natalia L KomarovaDepartment of Mathematics, University of California Irvine, Irvine, California, United States of America.ORCID http://orcid.org/0000-0003-4876-0343
Mohammad KohandelDepartment of Applied Mathematics, University of Waterloo, Waterloo, Ontario, Canada.
University of Zanjan · IRUniversity of California, Irvine · USUniversity of Waterloo · CA

Funding

Aspirin and Cancer Prevention in Lynch Syndrome: From Cell to Population DataU01CA187956 · NCI · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI GOEL, AJAY, WODARZ, DOMINIK F · 2014 to 2018
$2.7M
NCI NIH HHS U01 CA187956
6 · The paper itself

Abstract

The mean conditional fixation time of a mutant is an important measure of stochastic population dynamics, widely studied in ecology and evolution. Here, we investigate the effect of spatial randomness on the mean conditional fixation time of mutants in a constant population of cells, N. Specifically, we assume that fitness values of wild type cells and mutants at different locations come from given probability distributions and do not change in time. We study spatial arrangements of cells on regular graphs with different degrees, from the circle to the complete graph, and vary assumptions on the fitness probability distributions. Some examples include: identical probability distributions for wild types and mutants; cases when only one of the cell types has random fitness values while the other has deterministic fitness; and cases where the mutants are advantaged or disadvantaged. Using analytical calculations and stochastic numerical simulations, we find that randomness has a strong impact on fixation time. In the case of complete graphs, randomness accelerates mutant fixation for all population sizes, and in the case of circular graphs, randomness delays mutant fixation for N larger than a threshold value (for small values of N, different behaviors are observed depending on the fitness distribution functions). These results emphasize fundamental differences in population dynamics under different assumptions on cell connectedness. They are explained by the existence of randomly occurring "dead zones" that can significantly delay fixation on networks with low connectivity; and by the existence of randomly occurring "lucky zones" that can facilitate fixation on networks of high connectivity. Results for death-birth and birth-death formulations of the Moran process, as well as for the (haploid) Wright Fisher model are presented.

Indexed as

Evolution, MolecularMutationPopulation DynamicsComputational BiologyGenetic FitnessModels, BiologicalModels, Statistical

Identifiers

PMID29176825
PMCPMC5720826
OpenAlexW2768218497

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.