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CF
2009
ACM
14 years 1 months ago
Quantitative analysis of sequence alignment applications on multiprocessor architectures
The exponential growth of databases that contains biological information (such as protein and DNA data) demands great efforts to improve the performance of computational platforms...
Friman Sánchez, Alex Ramírez, Mateo ...
ECML
2007
Springer
13 years 8 months ago
Sequence Labeling with Reinforcement Learning and Ranking Algorithms
Many problems in areas such as Natural Language Processing, Information Retrieval, or Bioinformatic involve the generic task of sequence labeling. In many cases, the aim is to assi...
Francis Maes, Ludovic Denoyer, Patrick Gallinari
BIBE
2008
IEEE
142views Bioinformatics» more  BIBE 2008»
14 years 1 months ago
Optimizing performance, cost, and sensitivity in pairwise sequence search on a cluster of PlayStations
— The Smith-Waterman algorithm is a dynamic programming method for determining optimal local alignments between nucleotide or protein sequences. However, it suffers from quadrati...
Ashwin M. Aji, Wu-chun Feng
CSB
2004
IEEE
208views Bioinformatics» more  CSB 2004»
13 years 10 months ago
Pair Stochastic Tree Adjoining Grammars for Aligning and Predicting Pseudoknot RNA Structures
Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...
Hiroshi Matsui, Kengo Sato, Yasubumi Sakakibara
BMCBI
2010
240views more  BMCBI 2010»
13 years 7 months ago
CircuitsDB: a database of mixed microRNA/transcription factor feed-forward regulatory circuits in human and mouse
Background: Transcription Factors (TFs) and microRNAs (miRNAs) are key players for gene expression regulation in higher eukaryotes. In the last years, a large amount of bioinforma...
Olivier Friard, Angela Re, Daniela Taverna, Michel...