ArticleGenome research2009
Breakpoint graphs and ancestral genome reconstructions.
Article in Genome research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers.
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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.
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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
60 citing papers in PubMed.
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- Minimum-Cost Synthetic Genome Planning: An Algorithmic Framework.Computational and structural biotechnology journal · 2026Article
- GenomeDecoder: inferring segmental duplications in highly repetitive genomic regions.Bioinformatics (Oxford, England) · 2025Article
- CoRAL accurately resolves extrachromosomal DNA genome structures with long-read sequencing.Genome research · 2024Article
- Impact and characterization of serial structural variations across humans and great apes.Nature communications · 2024Article
- CoRAL accurately resolves extrachromosomal DNA genome structures with long-read sequencing.bioRxiv : the preprint server for biology · 2024Article
- The chromosome-scale genome assembly of cluster bean provides molecular insight into edible gum (galactomannan) biosynthesis family genes.Scientific reports · 2023Article
- IAGS: Inferring Ancestor Genome Structure under a Wide Range of Evolutionary Scenarios.Molecular biology and evolution · 2022Article
- KOMB: K-core based de novo characterization of copy number variation in microbiomes.Computational and structural biotechnology journal · 2022Article
- Three chromosome-scale Papaver genomes reveal punctuated patchwork evolution of the morphinan and noscapine biosynthesis pathway.Nature communications · 2021Article
- Whole-genome microsynteny-based phylogeny of angiosperms.Nature communications · 2021Article
- A tri-tuple coordinate system derived for fast and accurate analysis of the colored de Bruijn graph-based pangenomes.BMC bioinformatics · 2021Article
- Coconut genome assembly enables evolutionary analysis of palms and highlights signaling pathways involved in salt tolerance.Communications biology · 2021Article
- High Rates of Genome Rearrangements and Pathogenicity ofFrontiers in microbiology · 2021Article
- Using in silico predicted ancestral genomes to improve the efficiency of paleogenome reconstruction.Ecology and evolution · 2020Article
- Genome Complexity Browser: Visualization and quantification of genome variability.PLoS computational biology · 2020Article
- Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples.Genome research · 2020Article
- Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies.BMC biology · 2020Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Recently completed whole-genome sequencing projects marked the transition from gene-based phylogenetic studies to phylogenomics analysis of entire genomes. We developed an algorithm MGRA for reconstructing ancestral genomes and used it to study the rearrangement history of seven mammalian genomes: human, chimpanzee, macaque, mouse, rat, dog, and opossum. MGRA relies on the notion of the multiple breakpoint graphs to overcome some limitations of the existing approaches to ancestral genome reconstructions. MGRA also generates the rearrangement-based characters guiding the phylogenetic tree reconstruction when the phylogeny is unknown.
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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.