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NAR
2011
357views Computer Vision» more  NAR 2011»
13 years 5 months ago
miRGator v2.0 : an integrated system for functional investigation of microRNAs
miRGator is an integrated database of microRNA (miRNA)-associated gene expression, target prediction, disease association and genomic annotation, which aims to facilitate function...
Sooyoung Cho, Yukyung Jun, Sanghyun Lee, Hyung-Seo...
BMCBI
2007
146views more  BMCBI 2007»
13 years 11 months ago
Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data
Background: Transcriptional modules (TM) consist of groups of co-regulated genes and transcription factors (TF) regulating their expression. Two high-throughput (HT) experimental ...
Xiangdong Liu, Walter J. Jessen, Siva Sivaganesan,...
BMCBI
2007
233views more  BMCBI 2007»
13 years 11 months ago
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
Isaac T. S. Li, Warren Shum, Kevin Truong
BMCBI
2008
123views more  BMCBI 2008»
13 years 11 months ago
Validation of protein models by a neural network approach
Background: The development and improvement of reliable computational methods designed to evaluate the quality of protein models is relevant in the context of protein structure re...
Paolo Mereghetti, Maria Luisa Ganadu, Elena Papale...
BMCBI
2005
162views more  BMCBI 2005»
13 years 10 months ago
Accelerated probabilistic inference of RNA structure evolution
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...
Ian Holmes