ArticleGenome research2017
Upgrading short-read animal genome assemblies to chromosome level using comparative genomics and a universal probe set.
Article in Genome research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 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
64 citing papers in PubMed.
- A cytogenetic analysis with chromosome painting in typical antbirds (Passeriformes, Thamnophilidae) and an inference on chromosome evolution in Passeriformes.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2026Article
- MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes.GigaScience · 2026Article
- Chromosome-level genome assembly and Oligo-FISH confirmation of chromosome models for the Tasmanian snow skink Carinascincus ocellatus (Scincidae, Eugongylinae).BMC biology · 2025Article
- Gone With the Wind: Exploring a Vanished Rock Dove,Ecology and evolution · 2025Article
- Review
- Review
- Assembly and annotation of 2 high-quality columbid reference genomes from sequencing of a Columba livia × Columba guinea F1 hybrid.G3 (Bethesda, Md.) · 2024Article
- Redefining the Evolutionary History of the Rock Dove, Columba livia, Using Whole Genome Sequences.Molecular biology and evolution · 2023Article
- Integrative mapping of the dog epigenome: Reference annotation for comparative intertissue and cross-species studies.Science advances · 2023Article
- Chromosome-level assembly of the Rangifer tarandus genome and validation of cervid and bovid evolution insights.BMC genomics · 2023Article
- A conserved karyotype? Chromosomal rearrangements in Charadrius collaris detected by BAC-FISH.PloS one · 2023Article
- Dinosaurs: Comparative Cytogenomics of Their Reptile Cousins and Avian Descendants.Animals : an open access journal from MDPI · 2022Review
- Microchromosome BAC-FISH Reveals Different Patterns of Genome Organization in Three Charadriiformes Species.Animals : an open access journal from MDPI · 2022Article
- Arctic introgression and chromatin regulation facilitated rapid Qinghai-Tibet Plateau colonization by an avian predator.Nature communications · 2022Article
- Evolution of the ancestral mammalian karyotype and syntenic regions.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Article
- Comparative chromosome maps between the stone curlew and three ciconiiform species (the grey heron, little egret and crested ibis).BMC ecology and evolution · 2022Article
- Evaluation of four methods to identify the homozygotic sex chromosome in small populations.BMC genomics · 2022Article
- Fourth Report on Chicken Genes and Chromosomes 2022.Cytogenetic and genome research · 2022Review
- Article
4 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
11 authors.
Funding
Abstract
Most recent initiatives to sequence and assemble new species' genomes de novo fail to achieve the ultimate endpoint to produce contigs, each representing one whole chromosome. Even the best-assembled genomes (using contemporary technologies) consist of subchromosomal-sized scaffolds. To circumvent this problem, we developed a novel approach that combines computational algorithms to merge scaffolds into chromosomal fragments, PCR-based scaffold verification, and physical mapping to chromosomes. Multigenome-alignment-guided probe selection led to the development of a set of universal avian BAC clones that permit rapid anchoring of multiple scaffolds to chromosomes on all avian genomes. As proof of principle, we assembled genomes of the pigeon (
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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 Socratic graph.