ArticleGenome research2018
Detecting differential copy number variation between groups of samples.
Article in Genome research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 11 papers.
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
11 citing papers in PubMed, 15 citations in OpenAlex.
- Rapid and repeated evolution of myosin copy number in threespine stickleback.Current biology : CB · 2026Article
- Rapid and repeated evolution of myosin copy number in threespine stickleback.bioRxiv : the preprint server for biology · 2025Article
- Genome sequence of a marine threespine stickleback (Gasterosteus aculeatus) from Rabbit Slough in the Cook Inlet.G3 (Bethesda, Md.) · 2025Article
- Epigenetic diversity of genes with copy number variations among natural populations of the three-spined stickleback.Evolutionary applications · 2024Article
- Human-specific genetics: new tools to explore the molecular and cellular basis of human evolution.Nature reviews. Genetics · 2023Review
- Whole-genome Comparisons Identify Repeated Regulatory Changes Underlying Convergent Appendage Evolution in Diverse Fish Lineages.Molecular biology and evolution · 2023Article
- Whole-genome comparisons identify repeated regulatory changes underlying convergent appendage evolution in diverse fish lineages.bioRxiv : the preprint server for biology · 2023Article
- Convergent copy number increase of genes associated with freshwater colonization in fishes.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Article
- Threespine Stickleback: A Model System For Evolutionary Genomics.Annual review of genomics and human genetics · 2021Review
- Adaptation via pleiotropy and linkage: Association mapping reveals a complex genetic architecture within the sticklebackEvolution letters · 2020Article
- DNA fragility in the parallel evolution of pelvic reduction in stickleback fish.Science (New York, N.Y.) · 2019Article
Corrections and comments
- Erratum issued
Authors and funding
8 authors at 3 institutions in 1 country.
Funding
Abstract
We present a method to detect copy number variants (CNVs) that are differentially present between two groups of sequenced samples. We use a finite-state transducer where the emitted read depth is conditioned on the mappability and GC-content of all reads that occur at a given base position. In this model, the read depth within a region is a mixture of binomials, which in simulations matches the read depth more closely than the often-used negative binomial distribution. The method analyzes all samples simultaneously, preserving uncertainty as to the breakpoints and magnitude of CNVs present in an individual when it identifies CNVs differentially present between the two groups. We apply this method to identify CNVs that are recurrently associated with postglacial adaptation of marine threespine stickleback (
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.