| Splice site prediction using stochastic regular grammars. | |
| | |
MedLine Citation:
|
PMID: 17469059 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
|
This paper presents a novel approach to the problem of splice site prediction, by applying stochastic grammar inference. We used four grammar inference algorithms to infer 1465 grammars, and used 10-fold cross-validation to select the best grammar for each algorithm. The corresponding grammars were embedded into a classifier and used to run splice site prediction and compare the results with those of NNSPLICE, the predictor used by the Genie gene finder. We indicate possible paths to improve this performance by using Sakakibara's windowing technique to find probability thresholds that will lower false-positive predictions. |
| | |
Authors:
|
A Y Kashiwabara; D C G Vieira; A Machado-Lima; A M Durham |
Related Documents
:
|
12144189 - Transparenchymal retraction maneuver: a simple technique in laparoscopic hepatectomy. 9050479 - Novel technique and instrumentation for laparoscopic application of hemostatic clips. 8429649 - Differential lung ventilation. applications beyond the operating room. 12633629 - Snake bite in australia: first aid and envenomation management. 17491459 - Accelerating the optimization of requantization codebook for vector quantization. 22431199 - Hearing aid processing changes tone burst onset: effect on cortical auditory evoked pot... 12853869 - Designing effective hiv/aids social and behavioral interventions for the population of ... 19477739 - Medical treatment for men who have sex with men and are living with hiv/aids. 10288859 - A strategic business issue. |
Publication Detail:
|
Type: Journal Article; Research Support, Non-U.S. Gov't; Validation Studies Date: 2007-03-20 |
Journal Detail:
|
Title: Genetics and molecular research : GMR Volume: 6 ISSN: 1676-5680 ISO Abbreviation: Genet. Mol. Res. Publication Date: 2007 |
Date Detail:
|
Created Date: 2007-04-30 Completed Date: 2007-08-01 Revised Date: - |
Medline Journal Info:
|
Nlm Unique ID: 101169387 Medline TA: Genet Mol Res Country: Brazil |
Other Details:
|
Languages: eng Pagination: 105-15 Citation Subset: IM |
Affiliation:
|
Departamento de Ciência da Computação, Instituto de Matemática e Estatística, Universidade de São Paulo, São Paulo, SP, Brasil. |
Export Citation:
|
APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
|
Algorithms* Artificial Intelligence* Humans Models, Molecular* RNA Splicing / genetics* Stochastic Processes |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
Previous Document: The use of the acridine orange test and the TUNEL assay to assess the integrity of freeze-dried bovi...
Next Document: Cassava diversity in Brazil: the case of carotenoid-rich landraces.