Sciweavers

CSB
2005
IEEE
126views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Discover True Association Rates in Multi-protein Complex Proteomics Data Sets
Experimental processes to collect and process proteomics data are increasingly complex, while the computational methods to assess the quality and significance of these data remain...
Changyu Shen, Lang Li, Jake Yue Chen
CSB
2005
IEEE
137views Bioinformatics» more  CSB 2005»
14 years 5 months ago
A Learned Comparative Expression Measure for Affymetrix GeneChip DNA Microarrays
Perhaps the most common question that a microarray study can ask is, “Between two given biological conditions, which genes exhibit changed expression levels?” Existing methods...
Will Sheffler, Eli Upfal, John Sedivy, William Sta...
CSB
2005
IEEE
125views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Islands of Tractability for Parsimony Haplotyping
We study the parsimony approach to haplotype inference, which calls for finding a set of haplotypes of minimum cardinality that explains an input set of genotypes. We prove that ...
Roded Sharan, Bjarni V. Halldórsson, Sorin ...
CSB
2005
IEEE
129views Bioinformatics» more  CSB 2005»
14 years 5 months ago
ssahaSNP A Polymorphism Detection Tool on a Whole Genome Scale
We present a software package which can detect homozygous SNPs and indels on a eukaryotic genome scale from millions of shotgun reads. Matching seeds of a few kmer words are found...
Zemin Ning, Mario Cáccamo, James C. Mulliki...
CSB
2005
IEEE
129views Bioinformatics» more  CSB 2005»
14 years 5 months ago
A Pivoting Algorithm for Metabolic Networks in the Presence of Thermodynamic Constraints
A linear programming algorithm is presented to constructively compute thermodynamically feasible fluxes and change in chemical potentials of reactions for a metabolic network. It...
R. Nigam, S. Liang
CSB
2005
IEEE
141views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Reconstructing Phylogenetic Networks Using Maximum Parsimony
Phylogenies—the evolutionary histories of groups of organisms—are one of the most widely used tools throughout the life sciences, as well as objects of research within systema...
Luay Nakhleh, Guohua Jin, Fengmei Zhao, John M. Me...
CSB
2005
IEEE
143views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Analysis of four different sets of predictive features for metalloproteins
Metals bound to the protein are important for functional or structural roles. Despite their importance there is a distinct lack of research for identification of metalloproteins f...
Huseyin Seker, Parvez I. Haris
CSB
2005
IEEE
126views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Visualization of Logic Analysis of Phylogenetic Profiles (LAPP)
Recently Bowers et al. [1] analyzed triplet logic relationships among 4873 Clusters of Orthologous Groups (COGS) from 67 fully sequenced organisms by calculating how well logic re...
Kay A. Robbins, Li Zhao
CSB
2005
IEEE
135views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Inverse Design of Large Molecules using Linear Diophantine Equations
We have previously developed a method [1] for the inverse design of small ligands. This method can be used to design novel compounds with optimized properties (such as drugs) and ...
Shawn Martin, W. Michael Brown, Jean-Loup Faulon, ...
CSB
2005
IEEE
139views Bioinformatics» more  CSB 2005»
14 years 5 months ago
Using Parallel Algorithms for Searching Molecular Sequence Databases
This work presents the development of algorithms for approximate string matching using parallel methods. It intends to do the maximum of molecular sequences comparisons per unity ...
Carla Correa Tavares dos Reis, Rubem P. Mondaini