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» Pairwise region-based scan alignment
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BMCBI
2011
12 years 9 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
BMCBI
2007
226views more  BMCBI 2007»
13 years 5 months ago
MiRFinder: an improved approach and software implementation for genome-wide fast microRNA precursor scans
Background: MicroRNAs (miRNAs) are recognized as one of the most important families of noncoding RNAs that serve as important sequence-specific post-transcriptional regulators of ...
Ting-Hua Huang, Bin Fan, Max F. Rothschild, Zhi-Li...
JCB
2006
107views more  JCB 2006»
13 years 5 months ago
Protein Image Alignment via Piecewise Affine Transformations
Abstract We present a new approach for aligning families of 2D gels. Instead of choosing one of the gels as reference and performing pairwise alignment, we construct an ideal gel t...
Florian A. Potra, Xing Liu, Françoise Seill...
MICCAI
2009
Springer
14 years 6 months ago
Supervised Nonparametric Image Parcellation
Segmentation of medical images is commonly formulated as a supervised learning problem, where manually labeled training data are summarized using a parametric atlas. Summarizing th...
Mert R. Sabuncu, B. T. Thomas Yeo, Koen Van Leem...
ECCB
2008
IEEE
13 years 11 months ago
Connect the dots: exposing hidden protein family connections from the entire sequence tree
Motivation: Mapping of remote evolutionary links is a classic computational problem of much interest. Relating protein families allows for functional and structural inference on u...
Yaniv Loewenstein, Michal Linial