Evidence map›Paper›PMID 27436562›Full record

ArticleBioinformatics (Oxford, England)2016

PReFerSim: fast simulation of demography and selection under the Poisson Random Field model.

Diego Ortega-Del Vecchyo, Clare D Marsden, Kirk E Lohmueller

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Bioinformatics (Oxford, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
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

8 citing papers in PubMed.

  1. Article
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  4. Review
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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

3 authors.

Diego Ortega-Del VecchyoInterdepartmental Program in Bioinformatics, University of California, Los Angeles, CA 90095, USA.
Clare D MarsdenDepartment of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, USA.
Kirk E LohmuellerInterdepartmental Program in Bioinformatics, University of California, Los Angeles, CA 90095, USA.

Funding

Training CoreP50GM107632 · NIGMS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI BOEKE, JEF D · 2013 to 2017
$10.0M
Haplotype-based analysis methods for population genomicsR01HG007089 · NHGRI · UNIVERSITY OF CHICAGO · PI NOVEMBRE, JOHN · 2013 to 2017
$1.5M
NHGRI NIH HHS R01 HG007089NIGMS NIH HHS P50 GM107632
6 · The paper itself

Abstract

The Poisson Random Field (PRF) model has become an important tool in population genetics to study weakly deleterious genetic variation under complicated demographic scenarios. Currently, there are no freely available software applications that allow simulation of genetic variation data under this model. Here we present PReFerSim, an ANSI C program that performs forward simulations under the PRF model. PReFerSim models changes in population size, arbitrary amounts of inbreeding, dominance and distributions of selective effects. Users can track summaries of genetic variation over time and output trajectories of selected alleles. AVAILABILITY AND IMPLEMENTATION: PReFerSim is freely available at: https://github.com/LohmuellerLab/PReFerSim CONTACT: klohmueller@ucla.eduSupplementary information: Supplementary data are available at Bioinformatics online.

Indexed as

Genetics, PopulationSoftwareComputer SimulationConsanguinityDemographyHumans

Identifiers

PMID27436562
PMCPMC5181561

What OpenQuestion holds

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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.