ArticleBMC bioinformatics2012
Comparative analysis and visualization of multiple collinear genomes.
Article in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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.
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Who cites it
38 citing papers in PubMed.
- Characterization of extensive diversity in immunoglobulin light chain variable germline genes across biomedically important mouse strains.ImmunoHorizons · 2025Article
- Intact, recombinant, and spliced forms of endogenous mouse mammary tumor viruses in inbred and wild mice.Journal of virology · 2025Article
- Postnatal Ovarian Transdifferentiation in the Absence of Estrogen Receptor Signaling Is Dependent on Genetic Background.Endocrinology · 2024Article
- Intersection of Immunity, Metabolism, and Muscle Regeneration in an Autoimmune-Prone MRL Mouse Model.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Baseline Gait and Motor Function Predict Long-Term Severity of Neurological Outcomes of Viral Infection.International journal of molecular sciences · 2023Article
- Immunoglobulin genes, reproductive isolation and vertebrate speciation.Immunology and cell biology · 2022Article
- SNPs, short tandem repeats, and structural variants are responsible for differential gene expression across C57BL/6 and C57BL/10 substrains.Cell genomics · 2022Article
- Patterns of Coevolutionary Adaptations across Time and Space in Mouse Gammaretroviruses and Three Restrictive Host Factors.Viruses · 2021Article
- Article
- Phylogenomics of 8,839 Clostridioides difficile genomes reveals recombination-driven evolution and diversification of toxin A and B.PLoS pathogens · 2020Article
- Vitamin D3 receptor polymorphisms regulate T cells and T cell-dependent inflammatory diseases.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- Genomic mapping in outbred mice reveals overlap in genetic susceptibility for HZE ion- and γ-ray-induced tumors.Science advances · 2020Article
- Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation.PLoS genetics · 2020Article
- Hybrid Sterility with Meiotic Metaphase Arrest in Intersubspecific Mouse Crosses.The Journal of heredity · 2019Article
- Distribution of endogenous gammaretroviruses and variants of the Fv1 restriction gene in individual mouse strains and strain subgroups.PloS one · 2019Article
- A collective diabetes cross in combination with a computational framework to dissect the genetics of human obesity and Type 2 diabetes.Human molecular genetics · 2018Article
- Xenotropic Mouse Gammaretroviruses Isolated from Pre-Leukemic Tissues Include a Recombinant.Viruses · 2018Article
- Genetic background influences susceptibility to chemotherapy-induced hematotoxicity.The pharmacogenomics journal · 2018Article
- On being the right size: antibody repertoire formation in the mouse and human.Immunogenetics · 2018Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
backgroundGenome browsers are a common tool used by biologists to visualize genomic features including genes, polymorphisms, and many others. However, existing genome browsers and visualization tools are not well-suited to perform meaningful comparative analysis among a large number of genomes. With the increasing quantity and availability of genomic data, there is an increased burden to provide useful visualization and analysis tools for comparison of multiple collinear genomes such as the large panels of model organisms which are the basis for much of the current genetic research.
resultsWe have developed a novel web-based tool for visualizing and analyzing multiple collinear genomes. Our tool illustrates genome-sequence similarity through a mosaic of intervals representing local phylogeny, subspecific origin, and haplotype identity. Comparative analysis is facilitated through reordering and clustering of tracks, which can vary throughout the genome. In addition, we provide local phylogenetic trees as an alternate visualization to assess local variations.
conclusionsUnlike previous genome browsers and viewers, ours allows for simultaneous and comparative analysis. Our browser provides intuitive selection and interactive navigation about features of interest. Dynamic visualizations adjust to scale and data content making analysis at variable resolutions and of multiple data sets more informative. We demonstrate our genome browser for an extensive set of genomic data sets composed of almost 200 distinct mouse laboratory strains.
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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.