ReviewNature reviews. Genetics2024
Next-generation data filtering in the genomics era.
Review in Nature reviews. Genetics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers, 1 of them a synthesis that pooled it.
What it found
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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.
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.
Who cites it
49 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Embracing the power of genomics to inform evolutionary significant units.The Journal of heredity · 2026Pooled it
- Similar Habitat Gradients Across Native and Invasive Ranges Elicit Divergent Evolutionary Responses.Ecology and evolution · 2026Article
- Haplotype Blocks Are Associated With Rapid Local Adaptation to Environmental Shifts in Wild Barley.Molecular ecology · 2026Article
- Genetic rescue stabilizes diversity in small isolated populations of Bonneville cutthroat trout.Scientific reports · 2026Article
- A Practical Workflow for Correcting Kit-Specific Effects in Whole-Exome Sequencing Data.Methods and protocols · 2026Article
- MixedUpParents: A New and Improved Method for Genetic Parentage Assignment in Admixed Populations.Molecular ecology resources · 2026Article
- Umbilical Cord: A Non-Invasive DNA Source for Sea Turtle Genomics.Molecular ecology resources · 2026Article
- Inbreeding in a Fission-Fusion Equid Decreases Following an Increase in the Number and Redistribution of Water Sources.Molecular ecology · 2026Article
- Article
- Multiple modes of selection underlie repeated and human-mediated adaptation in a formerly migratory fish.Molecular biology and evolution · 2026Article
- A Recipe for a Good π. How to Properly Estimate Population Genetics Summary Statistics and Why we Should Systematically Report Them.Genome biology and evolution · 2026Article
- Summer Rainfall Drives Adaptation with Gene Flow in a Widespread Butterfly.Molecular ecology · 2026Article
- Interactions between genetic and epidemiological factors influencing mammographic density.American journal of epidemiology · 2026Article
- Mining of important genetic loci and evaluation of genetic effects for growth traits in Baicheng You Chicken.Poultry science · 2026Article
- Genome-wide SNP data reveal hidden hierarchical population structure and demographic history of endangered black-and-white snub-nosed monkeys (Rhinopithecus bieti).Molecular biology and evolution · 2026Article
- Different Paths, Similar Pressures: Divergent Drivers of Genetic Diversity Despite Convergent Genomic Signatures of Selection in Response to Urban Intensity in Two Oligolectic Bee Species.Molecular ecology · 2026Article
- Harnessing Deep Learning in Searching Wild Relatives of Domestic Animals.Molecular ecology resources · 2026Article
- Article
- Minor Allele Frequency Filtering Can Strongly Bias Uniqueness Estimates Within and Across Species.Ecology and evolution · 2026Article
- Clinically actionable pharmacogenomic variants for anticancer therapy in Nigeria: first comprehensive variant profiling in underrepresented Nigerian cohorts.BMC medical genomics · 2026Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genomic data are ubiquitous across disciplines, from agriculture to biodiversity, ecology, evolution and human health. However, these datasets often contain noise or errors and are missing information that can affect the accuracy and reliability of subsequent computational analyses and conclusions. A key step in genomic data analysis is filtering - removing sequencing bases, reads, genetic variants and/or individuals from a dataset - to improve data quality for downstream analyses. Researchers are confronted with a multitude of choices when filtering genomic data; they must choose which filters to apply and select appropriate thresholds. To help usher in the next generation of genomic data filtering, we review and suggest best practices to improve the implementation, reproducibility and reporting standards for filter types and thresholds commonly applied to genomic datasets. We focus mainly on filters for minor allele frequency, missing data per individual or per locus, linkage disequilibrium and Hardy-Weinberg deviations. Using simulated and empirical datasets, we illustrate the large effects of different filtering thresholds on common population genetics statistics, such as Tajima's D value, population differentiation (F
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Identifiers
38877133What OpenQuestion holds
Registered trials
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.