The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
Computational Inference of Homologous Gene Structures in the Human Genome
Open accessAbstract
With the human genome sequence approaching completion, a major challenge is to identify the locations and encoded protein sequences of all human genes. To address this problem we have developed a new gene identification algorithm, GenomeScan, which combines exon–intron and splice signal models with similarity to known protein sequences in an integrated model. Extensive testing shows that GenomeScan can accurately identify the exon–intron structures of genes in finished or draft human genome sequence with a low rate of false-positives. Application of GenomeScan to 2.7 billion bases of human genomic DNA identified at least 20,000–25,000 human genes out of an estimated 30,000–40,000 present in the genome. The results show an accurate and efficient automated approach for identifying genes in higher eukaryotic genomes and provide a first-level annotation of the draft human genome.
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Cites
The sequence of the human genome
Venter, J. C., Adams, M. D., Myers, E. W., Li, P. W., Mural, R. J., Sutton, G. G., Smith, H. O., Yandell, M., Evans, C. A., Holt, R. A., et al. (2001) · Science · doi:10.1126/science.1058040 · Cited by 13,909
Cited by
Birney, E., Clamp, M., & Durbin, R. (2004) · Genome Research · doi:10.1101/gr.1865504 · Cited by 2,542
Gene prediction with a hidden Markov model and a new intron submodel
Stanke, M., & Waack, S. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg1080 · Cited by 1,439
Stanke, M., Schöffmann, O., Morgenstern, B., & Waack, S. (2006) · BMC Bioinformatics · doi:10.1186/1471-2105-7-62 · Cited by 1,304
The Amphimedon queenslandica genome and the evolution of animal complexity
Srivastava, M., Simakov, O., Chapman, J., Fahey, B., Gauthier, M. E. A., Mitros, T., Richards, G. S., Conaco, C., Dacre, M., Hellsten, U., et al. (2010) · Nature · doi:10.1038/nature09201 · Cited by 1,049
A beginner’s guide to eukaryotic genome annotation
Yandell, M., & Ence, D. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3174 · Cited by 588
A Post-Synaptic Scaffold at the Origin of the Animal Kingdom
Sakarya, O., Armstrong, K. A., Adamska, M., Adamski, M., Wang, I.-F., Tidor, B., Degnan, B. M., Oakley, T. H., & Kosik, K. S. (2007) · PLoS ONE · doi:10.1371/journal.pone.0000506 · Cited by 291
“Gene intron/exon structures were identified using GenomeScan [33] and GENSCAN [34] and additional manual inspection.”
MethodDe Novo Origin of Human Protein-Coding Genes
Wu, D.-D., Irwin, D. M., & Zhang, Y.-P. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002379 · Cited by 183
Torruella, G., Derelle, R., Paps, J., Lang, B. F., Roger, A. J., Shalchian-Tabrizi, K., & Ruiz-Trillo, I. (2012) · Molecular Biology and Evolution · doi:10.1093/molbev/msr185 · Cited by 169
The genomic landscape of molecular responses to natural drought stress in Panicum hallii
Lovell, J. T., Jenkins, J., Lowry, D. B., Mamidi, S., Sreedasyam, A., Weng, X., Barry, K., Bonnette, J., Campitelli, B., Daum, C., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-07669-x · Cited by 135
Belov, K., Sanderson, C. E., Deakin, J. E., Wong, E. S. W., Assange, D., McColl, K. A., Gout, A., de Bono, B., Barrow, A. D., Speed, T. P., et al. (2007) · Genome Research · doi:10.1101/gr.6121807 · Cited by 116
Origin of animal epithelia: insights from the sponge genome
Fahey, B., & Degnan, B. M. (2010) · Evolution & Development · doi:10.1111/j.1525-142x.2010.00445.x · Cited by 109
A benchmark study of ab initio gene prediction methods in diverse eukaryotic organisms
Scalzitti, N., Jeannin-Girardon, A., Collet, P., Poch, O., & Thompson, J. D. (2020) · BMC Genomics · doi:10.1186/s12864-020-6707-9 · Cited by 96
Sharma, V., Elghafari, A., & Hiller, M. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw210 · Cited by 47
Nagy, A., Szláma, G., Szarka, E., Trexler, M., Bányai, L., & Patthy, L. (2011) · Genes · doi:10.3390/genes2030449 · Cited by 22
Metadata
- Authors
- Yeh, R.-F., Lim, L. P., & Burge, C. B.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2001-05-01
- Volume
- 11
- Issue
- 5
- Pages
- 803-816
- ISSN
- 1088-9051 (ISSN-L)
- 1549-5469
- OpenAlex
- W2141847640
- Cited by
- 404
- References
- 1
- Type
- posted content
- Language
- en
- Open access
- bronze
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