The DOI matches its Crossref record; 23 of the 23 references it cites were found in a registry or an index.
The p53MH algorithm and its application in detecting p53-responsive genes
Open accessAbstract
A computer algorithm, p53MH, was developed, which identifies putative p53 transcription factor DNA-binding sites on a genomewide scale with high power and versatility. With the sequences from the human and mouse genomes, putative p53 DNA-binding elements were identified in a scan of 2,583 human genes and 1,713 mouse orthologs based on the experimental data of el-Deiry et al. [el-Deiry, W. S., Kern, S. E., Pietenpol, J. A., Kinzler, K. W. & Vogelstein, B. (1992) Nat. Genet. 1, 45–49] and Funk et al. [Funk, W. D., Pak, D. T., Karas, R. H., Wright, W. E. & Shay, J. W. (1992) Mol. Cell. Biol. 12, 2866–2871] ( http://linkage.rockefeller.edu/p53 ). The p53 DNA-binding motif consists of a 10-bp palindrome and most commonly a second related palindrome linked by a spacer region. By scanning from the 5′ to 3′ end of each gene with an additional 10-kb nucleotide sequence appended at each end (most regulatory DNA elements characterized in the literature are in these regions), p53MH computes the binding likelihood for each site under a discrete discriminant model and then outputs ordered scores, corresponding site positions, sequences, and related information. About 300 genes receiving scores greater than a theoretical cut-off value were identified as potential p53 targets. Semiquantitative reverse transcription–PCR experiments were performed in 2 cell lines on 16 genes that were previously unknown regarding their functional relationship to p53 and were found to have high scores in either proximal promoter or possible distal enhancer regions. Ten (∼63%) of these genes responded to the presence of p53.
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Cites
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El-Deiry, W. S., Kern, S. E., Pietenpol, J. A., Kinzler, K. W., & Vogelstein, B. (1992) · Nature Genetics · doi:10.1038/ng0492-45 · Cited by 1,985
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Pattern Recognition and Neural Networks
Fulkerson, B. (1997) · Technometrics · doi:10.1080/00401706.1997.10485099 · Cited by 1,371
Regulation of PTEN Transcription by p53
Stambolic, V., MacPherson, D., Sas, D., Lin, Y., Snow, B., Jang, Y., Benchimol, S., & Mak, T. W. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00323-9 · Cited by 912
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Self-citationA transcriptionally active DNA-binding site for human p53 protein complexes.
Funk, W. D., Pak, D. T., Karas, R. H., Wright, W. E., & Shay, J. W. (1992) · Molecular and Cellular Biology · doi:10.1128/mcb.12.6.2866 · Cited by 732
Analysis of p53-regulated gene expression patterns using oligonucleotide arrays
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Cited by
Blinded by the Light: The Growing Complexity of p53
Vousden, K. H., & Prives, C. (2009) · Cell · doi:10.1016/j.cell.2009.04.037 · Cited by 3,163
Malignant astrocytic glioma: genetics, biology, and paths to treatment
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The p53 pathway: positive and negative feedback loops
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Self-citationTranscriptional control of human p53-regulated genes
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Self-citationDRAM, a p53-Induced Modulator of Autophagy, Is Critical for Apoptosis
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Metadata
- Authors
- Hoh, J., Jin, S., Parrado, T., Edington, J., Levine, A. J., & Ott, J.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2002-06-19
- Volume
- 99
- Issue
- 13
- Pages
- 8467-8472
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2017488005
- Cited by
- 295
- References
- 23
- FWCI
- 6.17
- Type
- journal article
- Language
- en
- Open access
- green
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