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USS
2008
15 years 9 months ago
Automatic Generation of XSS and SQL Injection Attacks with Goal-Directed Model Checking
Cross-site scripting (XSS) and SQL injection errors are two prominent examples of taint-based vulnerabilities that have been responsible for a large number of security breaches in...
Michael C. Martin, Monica S. Lam
ACL
2006
15 years 8 months ago
An Effective Two-Stage Model for Exploiting Non-Local Dependencies in Named Entity Recognition
This paper shows that a simple two-stage approach to handle non-local dependencies in Named Entity Recognition (NER) can outperform existing approaches that handle non-local depen...
Vijay Krishnan, Christopher D. Manning
BMCBI
2007
139views more  BMCBI 2007»
15 years 7 months ago
XSTREAM: A practical algorithm for identification and architecture modeling of tandem repeats in protein sequences
Background: Biological sequence repeats arranged in tandem patterns are widespread in DNA and proteins. While many software tools have been designed to detect DNA tandem repeats (...
Aaron M. Newman, James B. Cooper
BMCBI
2007
138views more  BMCBI 2007»
15 years 7 months ago
A full Bayesian hierarchical mixture model for the variance of gene differential expression
Background: In many laboratory-based high throughput microarray experiments, there are very few replicates of gene expression levels. Thus, estimates of gene variances are inaccur...
Samuel O. M. Manda, Rebecca E. Walls, Mark S. Gilt...
BMCBI
2005
114views more  BMCBI 2005»
15 years 7 months ago
A new decoding algorithm for hidden Markov models improves the prediction of the topology of all-beta membrane proteins
Background: Structure prediction of membrane proteins is still a challenging computational problem. Hidden Markov models (HMM) have been successfully applied to the problem of pre...
Piero Fariselli, Pier Luigi Martelli, Rita Casadio