The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
DNA binding sites: representation and discovery
Abstract
The purpose of this article is to provide a brief history of the development and application of computer algorithms for the analysis and prediction of DNA binding sites. This problem can be conveniently divided into two subproblems. The first is, given a collection of known binding sites, develop a representation of those sites that can be used to search new sequences and reliably predict where additional binding sites occur. The second is, given a set of sequences known to contain binding sites for a common factor, but not knowing where the sites are, discover the location of the sites in each sequence and a representation for the specificity of the protein. Contact: stormo@ural.wustl.edu
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Cites
Lin, S.-Y., & Riggs, A. D. (1975) · Cell · doi:10.1016/0092-8674(75)90116-6 · Cited by 338
Quantitative analysis of the relationship between nucleotide sequence and functional activity
Stormo, G. D., Schneider, T. D., & Gold, L. (1986) · Nucleic Acids Research · doi:10.1093/nar/14.16.6661 · Cited by 158
Self-citation
Cited by
Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning
Alipanahi, B., Delong, A., Weirauch, M. T., & Frey, B. J. (2015) · Nature Biotechnology · doi:10.1038/nbt.3300 · Cited by 2,873
Opportunities and obstacles for deep learning in biology and medicine
Ching, T., Himmelstein, D. S., Beaulieu-Jones, B. K., Kalinin, A. A., Do, B. T., Way, G. P., Ferrero, E., Agapow, P.-M., Zietz, M., Hoffman, M. M., et al. (2018) · Journal of The Royal Society Interface · doi:10.1098/rsif.2017.0387 · Cited by 2,310
Transcriptional control of human p53-regulated genes
Riley, T., Sontag, E., Chen, P., & Levine, A. (2008) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2395 · Cited by 1,921
JASPAR 2020: update of the open-access database of transcription factor binding profiles
Fornes, O., Castro-Mondragon, J. A., Khan, A., van der Lee, R., Zhang, X., Richmond, P. A., Modi, B. P., Correard, S., Gheorghe, M., Baranašić, D., et al. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz1001 · Cited by 1,763
Benchmark and integration of resources for the estimation of human transcription factor activities
Garcia-Alonso, L., Holland, C. H., Ibrahim, M. M., Turei, D., & Saez-Rodriguez, J. (2019) · Genome Research · doi:10.1101/gr.240663.118 · Cited by 1,122
Metadata
- Authors
- Stormo, G. D.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2000-01-01
- Volume
- 16
- Issue
- 1
- Pages
- 16-23
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2149769193
- Cited by
- 1,502
- References
- 2
- FWCI
- 7.77
- Type
- journal article
- Language
- en
- Open access
- closed
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