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CF
2009
ACM
14 years 2 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 ...
BMCBI
2007
89views more  BMCBI 2007»
13 years 7 months ago
Comparing segmentations by applying randomization techniques
Background: There exist many segmentation techniques for genomic sequences, and the segmentations can also be based on many different biological features. We show how to evaluate ...
Niina Haiminen, Heikki Mannila, Evimaria Terzi
RECOMB
2010
Springer
14 years 2 months ago
Genomic DNA k-mer Spectra: Models and Modalities
Background: The empirical frequencies of DNA k-mers in whole genome sequences provide an interesting perspective on genomic complexity, and the availability of large segments of g...
Benny Chor, David Horn, Nick Goldman, Yaron Levy, ...
CORR
2002
Springer
78views Education» more  CORR 2002»
13 years 7 months ago
Linear-Time Algorithms for Computing Maximum-Density Sequence Segments with Bioinformatics Applications
an abstract optimization problem arising from biomolecular sequence analysis. For a sequence A of pairs (ai, wi) for i = 1, . . . , n and wi > 0, a segment A(i, j) is a consecu...
Michael H. Goldwasser, Ming-Yang Kao, Hsueh-I Lu
BMCBI
2007
94views more  BMCBI 2007»
13 years 7 months ago
Model based analysis of real-time PCR data from DNA binding dye protocols
Background: Reverse transcription followed by real-time PCR is widely used for quantification of specific mRNA, and with the use of double-stranded DNA binding dyes it is becoming...
Mariano J. Alvarez, Guillermo J. Vila-Ortiz, Maria...