ArticleGenome research2004
An intermediate grade of finished genomic sequence suitable for comparative analyses.
Article in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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Who cites it
48 citing papers in PubMed.
- Revised eutherian gene collections.BMC genomic data · 2022Article
- The landscape of nutri-informatics: a review of current resources and challenges for integrative nutrition research.Database : the journal of biological databases and curation · 2021Review
- Comparative genomic analysis of eutherian fibroblast growth factor genes.BMC genomics · 2020Article
- Comparative genomic analysis of eutherian connexin genes.Scientific reports · 2019Article
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- Is It Ordered Correctly? Validating Genome Assemblies by Optical Mapping.The Plant cell · 2018Review
- Comparative genomic analysis of eutherian kallikrein genes.Molecular genetics and metabolism reports · 2017Article
- Curated eutherian third party data gene data sets.Data in brief · 2016Article
- Third party data gene data set of eutherian growth hormone genes.Genomics data · 2015Article
- Initial description of primate-specific cystine-knot Prometheus genes and differential gene expansions of D-dopachrome tautomerase genes.Meta gene · 2015Article
- Sequence assembly demystified.Nature reviews. Genetics · 2013Review
- Sequence verification of synthetic DNA by assembly of sequencing reads.Nucleic acids research · 2013Article
- Article
- Birth-and-death of KLK3 and KLK2 in primates: evolution driven by reproductive biology.Genome biology and evolution · 2012Article
- Exploratory analysis of genomic segmentations with Segtools.BMC bioinformatics · 2011Article
- Detection of lineage-specific evolutionary changes among primate species.BMC bioinformatics · 2011Article
- Comparative analysis of the primate X-inactivation center region and reconstruction of the ancestral primate XIST locus.Genome research · 2011Article
- Article
- Structural and functional divergence of a 1-Mb duplicated region in the soybean (Glycine max) genome and comparison to an orthologous region from Phaseolus vulgaris.The Plant cell · 2010Article
- Evolution of a bitter taste receptor gene cluster in a New World sparrow.Genome biology and evolution · 2010Article
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Authors and funding
23 authors.
Funding
Abstract
Although the cost of generating draft-quality genomic sequence continues to decline, refining that sequence by the process of "sequence finishing" remains expensive. Near-perfect finished sequence is an appropriate goal for the human genome and a small set of reference genomes; however, such a high-quality product cannot be cost-justified for large numbers of additional genomes, at least for the foreseeable future. Here we describe the generation and quality of an intermediate grade of finished genomic sequence (termed comparative-grade finished sequence), which is tailored for use in multispecies sequence comparisons. Our analyses indicate that this sequence is very high quality (with the residual gaps and errors mostly falling within repetitive elements) and reflects 99% of the total sequence. Importantly, comparative-grade sequence finishing requires approximately 40-fold less reagents and approximately 10-fold less personnel effort compared to the generation of near-perfect finished sequence, such as that produced for the human genome. Although applied here to finishing sequence derived from individual bacterial artificial chromosome (BAC) clones, one could envision establishing routines for refining sequences emanating from whole-genome shotgun sequencing projects to a similar quality level. Our experience to date demonstrates that comparative-grade sequence finishing represents a practical and affordable option for sequence refinement en route to comparative analyses.
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