DNA sequence pattern recognition methods in GRAIL
The goal of the GRAIL project has been to create a comprehensive analysis environment where a host of questions about genes and genome structure can be answered as quickly and accurately as possible. Constructing this system has entailed solving a number of significant technical challenges including: (a) making coding recognition in sequence more sensitive and accurate, (b) compensating for isochore base compositional effects in coding prediction, (c) developing methods to determine which parts of each strand of a long genomic DNA are the coding strand, (d) improving the accuracy of splice site prediction and recognizing non-consensus sites, and (e) recognizing variable regulatory structures such as polymerase II promoters. An additional challenge has been to construct algorithms which compensate for the deleterious effects of insertion or deletion (indel) errors in the coding region recognition process. This paper addresses progress on these technical issues and the current state of sequence feature recognition methods.
- Research Organization:
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
- Sponsoring Organization:
- USDOE, Washington, DC (United States)
- DOE Contract Number:
- AC05-84OR21400
- OSTI ID:
- 206419
- Report Number(s):
- CONF-9510318-1; ON: DE96005358
- Resource Relation:
- Conference: DIMACS workshop on gene-finding and gene structure prediction, Philadelphia, PA (United States), 13-14 Oct 1995; Other Information: PBD: [1995]
- Country of Publication:
- United States
- Language:
- English
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