ArticleFrontiers in genetics2015
SNeP: a tool to estimate trends in recent effective population size trajectories using genome-wide SNP data.
Article in Frontiers in genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 277 papers, 2 of them syntheses that pooled 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.
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
277 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Pooled it
- Comparison of two multi-trait association testing methods and sequence-based fine mapping of six additive QTL in Swiss Large White pigs.BMC genomics · 2023Pooled it
- Evolutionary Signatures of Thermotolerance Shaped by Adaptive Admixtures in the Ghurrah Pig of India.Journal of molecular evolution · 2026Article
- Transition from Conventional to Genomic Selection (ssGBLUP) led to improve in accuracy gains and selection decisions in Sahiwal Cattle.Scientific reports · 2026Article
- Genome-wide SNP-based genomic diversity and population structure analysis in alpaca populations from Europe and Peru.G3 (Bethesda, Md.) · 2026Article
- Genomic characterization of an Apennine heeling dog population: insights into diversity and conservation.Veterinary and animal science · 2026Article
- Whole-genome sequencing identifies genetic diversity and adaptive signatures of hypoxia and ultraviolet radiation in Chinese chickens.Journal of advanced research · 2026Article
- Genomic diversity, inbreeding, and selection signatures in duroc, landrace, and yorkshire pigs from a long-term closed breeding system.Journal of applied genetics · 2026Article
- Genomic relationships, diversity and admixture in the Lucerna breed of Colombia.Tropical animal health and production · 2026Article
- Unravelling the genetic structure and genetic relationships of indigenous Greek sheep breeds using SNP markers.Genetics, selection, evolution : GSE · 2026Article
- Analysis of the Genetic Diversity and Genetic Structure of Bamei Pig Population Based on Single-Nucleotide Polymorphism Chip.Animals : an open access journal from MDPI · 2026Article
- Genomic diversity and population structure of understudied cattle populations of Sri Lanka in relation to established indigenous breeds.Tropical animal health and production · 2026Article
- Deciphering genetic diversity and selection footprints in Rathi cattle through ddRAD-based genome-wide analysis.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Genome-wide analysis across Indian camel populations reveals genetic distinctiveness of the Kharai camel breed.BMC genomics · 2026Article
- Integrated multi-population selection-signature scans identify putative functional genes influencing litter size in jishen black pigs.BMC genomics · 2026Article
- An analysis of the genomic architecture of the worldwide Irish Wolfhound dogs.Scientific reports · 2026Article
- Genome-wide characterization of genetic diversity and breed discrimination markers in Tharparkar cattle.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Recent population history in Swedish cattle breeds.Genetics, selection, evolution : GSE · 2026Article
- Genome-wide DAPC-based genetic structure, linkage disequilibrium, and effective population size in indigenous buffaloes of Northeastern and Central India.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Unscrambling the history of African indicine cattle genomes.iScience · 2026Article
217 more citing papers are in PubMed but not listed here.
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
Effective population size (Ne ) is a key population genetic parameter that describes the amount of genetic drift in a population. Estimating Ne has been subject to much research over the last 80 years. Methods to estimate Ne from linkage disequilibrium (LD) were developed ~40 years ago but depend on the availability of large amounts of genetic marker data that only the most recent advances in DNA technology have made available. Here we introduce SNeP, a multithreaded tool to perform the estimate of Ne using LD using the standard PLINK input file format (.ped and.map files) or by using LD values calculated using other software. Through SNeP the user can apply several corrections to take account of sample size, mutation, phasing, and recombination rate. Each variable involved in the computation such as the binning parameters or the chromosomes to include in the analysis can be modified. When applied to published datasets, SNeP produced results closely comparable with those obtained in the original studies. The use of SNeP to estimate Ne trends can improve understanding of population demography in the recent past, provided a sufficient number of SNPs and their physical position in the genome are available. Binaries for the most common operating systems are available at https://sourceforge.net/projects/snepnetrends/.
Indexed as
Identifiers
What 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.