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BMCBI
2010
143views more  BMCBI 2010»
15 years 1 months ago
An efficient biological pathway layout algorithm combining grid-layout and spring embedder for complicated cellular location inf
Background: Graph drawing is one of the important techniques for understanding biological regulations in a cell or among cells at the pathway level. Among many available layout al...
Kaname Kojima, Masao Nagasaki, Satoru Miyano
BMCBI
2010
189views more  BMCBI 2010»
15 years 1 months ago
Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs
Background: Assembling genomic sequences from a set of overlapping reads is one of the most fundamental problems in computational biology. Algorithms addressing the assembly probl...
Vamsi Kundeti, Sanguthevar Rajasekaran, Hieu Dinh,...
BMCBI
2008
178views more  BMCBI 2008»
15 years 1 months ago
Identification of coherent patterns in gene expression data using an efficient biclustering algorithm and parallel coordinate vi
Background: The DNA microarray technology allows the measurement of expression levels of thousands of genes under tens/hundreds of different conditions. In microarray data, genes ...
Kin-On Cheng, Ngai-Fong Law, Wan-Chi Siu, Alan Wee...
NJC
2006
125views more  NJC 2006»
15 years 1 months ago
PRO: A Model for the Design and Analysis of Efficient and Scalable Parallel Algorithms
Abstract. We present a new parallel computation model called the Parallel ResourceOptimal computation model. PRO is a framework being proposed to enable the design of efficient and...
Assefaw Hadish Gebremedhin, Mohamed Essaïdi, ...
APPROX
2011
Springer
234views Algorithms» more  APPROX 2011»
14 years 1 months ago
Streaming Algorithms with One-Sided Estimation
Abstract. We study the space complexity of randomized streaming algorithms that provide one-sided approximation guarantees; e.g., the algorithm always returns an overestimate of th...
Joshua Brody, David P. Woodruff