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» Algorithms for Finding Gene Clusters
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IJHPCA
2010
105views more  IJHPCA 2010»
15 years 4 months ago
A Pipelined Algorithm for Large, Irregular All-Gather Problems
We describe and evaluate a new, pipelined algorithm for large, irregular all-gather problems. In the irregular all-gather problem each process in a set of processes contributes in...
Jesper Larsson Träff, Andreas Ripke, Christia...
CIKM
2005
Springer
15 years 11 months ago
Semantic similarity over the gene ontology: family correlation and selecting disjunctive ancestors
Many bioinformatics applications would benefit from comparing proteins based on their biological role rather than their sequence. In most biological databases, proteins are alrea...
Francisco M. Couto, Mário J. Silva, Pedro C...
JMLR
2006
79views more  JMLR 2006»
15 years 6 months ago
Estimation of Gradients and Coordinate Covariation in Classification
We introduce an algorithm that simultaneously estimates a classification function as well as its gradient in the supervised learning framework. The motivation for the algorithm is...
Sayan Mukherjee, Qiang Wu
BIBM
2009
IEEE
118views Bioinformatics» more  BIBM 2009»
15 years 10 months ago
Inexact Local Alignment Search over Suffix Arrays
We describe an algorithm for finding approximate seeds for DNA homology searches. In contrast to previous algorithms that use exact or spaced seeds, our approximate seeds may conta...
Mohammadreza Ghodsi, Mihai Pop
RECOMB
2008
Springer
16 years 6 months ago
Automatic Recognition of Cells (ARC) for 3D Images of C. elegans
The development of high-resolution microscopy makes possible the high-throughput screening of cellular information, such as gene expression at single cell resolution. One of the cr...
Fuhui Long, Hanchuan Peng, Xiao Liu, Stuart K. Kim...