The DOI matches its Crossref record; 8 of the 8 references it cites were found in a registry or an index.
Significantly improving the quality of genome assemblies through curation
Open accessAbstract
Genome sequence assemblies provide the basis for our understanding of biology. Generating error-free assemblies is therefore the ultimate, but sadly still unachieved goal of a multitude of research projects. Despite the ever-advancing improvements in data generation, assembly algorithms and pipelines, no automated approach has so far reliably generated near error-free genome assemblies for eukaryotes. Whilst working towards improved datasets and fully automated pipelines, assembly evaluation and curation is actively used to bridge this shortcoming and significantly reduce the number of assembly errors. In addition to this increase in product value, the insights gained from assembly curation are fed back into the automated assembly strategy and contribute to notable improvements in genome assembly quality. We describe our tried and tested approach for assembly curation using gEVAL, the genome evaluation browser. We outline the procedures applied to genome curation using gEVAL and also our recommendations for assembly curation in a gEVAL-independent context to facilitate the uptake of genome curation in the wider community.
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Citations
Cites
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Towards complete and error-free genome assemblies of all vertebrate species
Rhie, A., McCarthy, S. A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., et al. (2021) · Nature · doi:10.1038/s41586-021-03451-0 · Cited by 3,097
Self-citationTowards complete and error-free genome assemblies of all vertebrate species
Rhie, A., McCarthy, S. A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Gedman, G. L., et al. (2020) · doi:10.1101/2020.05.22.110833 · Cited by 3,097
Self-citationEarth BioGenome Project: Sequencing life for the future of life
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Cited by
Towards complete and error-free genome assemblies of all vertebrate species
Rhie, A., McCarthy, S. A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., et al. (2021) · Nature · doi:10.1038/s41586-021-03451-0 · Cited by 3,097
Self-citationTowards complete and error-free genome assemblies of all vertebrate species
Rhie, A., McCarthy, S. A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Gedman, G. L., et al. (2020) · doi:10.1101/2020.05.22.110833 · Cited by 3,097
Self-citationSequence locally, think globally: the Darwin Tree of Life Project
The Darwin Tree of Life Project Consortium, Blaxter, M., Mieszkowska, N., Di Palma, F., Holland, P., Durbin, R., Richards, T., Berriman, M., Kersey, P., Hollingsworth, P., et al. (2022) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2115642118 · Cited by 562
Self-citationSemi-automated assembly of high-quality diploid human reference genomes
Jarvis, E. D., Formenti, G., Rhie, A., Guarracino, A., Yang, C., Wood, J., Tracey, A., Thibaud-Nissen, F., Vollger, M. R., Porubsky, D., et al. (2022) · Nature · doi:10.1038/s41586-022-05325-5 · Cited by 209
Self-citationStandards recommendations for the Earth BioGenome Project
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Metadata
- Authors
- Howe, K., Chow, W., Collins, J., Pelan, S., Pointon, D.-L., Sims, Y., Torrance, J., Tracey, A., & Wood, J.
- Venue
- GigaScience
- Publisher
- Oxford University Press (OUP)
- Published
- 2021-01
- Volume
- 10
- Issue
- 1
- ISSN
- 2047-217X (ISSN-L)
- OpenAlex
- W3119817612
- Cited by
- 2,090
- References
- 8
- FWCI
- 72.86
- Type
- journal article
- Language
- en
- Open access
- gold
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