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BMCBI
2007
98views more  BMCBI 2007»
13 years 7 months ago
Evaluation of 3D-Jury on CASP7 models
Background: 3D-Jury, the structure prediction consensus method publicly available in the Meta Server http://meta.bioinfo.pl/, was evaluated using models gathered in the 7th round ...
László Kaján, Leszek Rychlews...
BMCBI
2007
147views more  BMCBI 2007»
13 years 7 months ago
Modeling biochemical transformation processes and information processing with Narrator
Background: Software tools that model and simulate the dynamics of biological processes and systems are becoming increasingly important. Some of these tools offer sophisticated gr...
Johannes J. Mandel, Hendrik Fuß, Niall M. Pa...
BMCBI
2007
102views more  BMCBI 2007»
13 years 7 months ago
Setting up a large set of protein-ligand PDB complexes for the development and validation of knowledge-based docking algorithms
Background: The number of algorithms available to predict ligand-protein interactions is large and ever-increasing. The number of test cases used to validate these methods is usua...
Luis A. Diago, Persy Morell, Longendri Aguilera, E...
BMCBI
2007
167views more  BMCBI 2007»
13 years 7 months ago
MindSeer: a portable and extensible tool for visualization of structural and functional neuroimaging data
Background: Three-dimensional (3-D) visualization of multimodality neuroimaging data provides a powerful technique for viewing the relationship between structure and function. A n...
Eider B. Moore, Andrew V. Poliakov, Peter Lincoln,...
BMCBI
2007
218views more  BMCBI 2007»
13 years 7 months ago
Annotation and query of tissue microarray data using the NCI Thesaurus
Background: The Stanford Tissue Microarray Database (TMAD) is a repository of data serving a consortium of pathologists and biomedical researchers. The tissue samples in TMAD are ...
Nigam H. Shah, Daniel L. Rubin, Inigo Espinosa, Ke...
BMCBI
2007
173views more  BMCBI 2007»
13 years 7 months ago
Recursive Cluster Elimination (RCE) for classification and feature selection from gene expression data
Background: Classification studies using gene expression datasets are usually based on small numbers of samples and tens of thousands of genes. The selection of those genes that a...
Malik Yousef, Segun Jung, Louise C. Showe, Michael...
BMCBI
2007
108views more  BMCBI 2007»
13 years 7 months ago
Design and implementation of a generalized laboratory data model
Background: Investigators in the biological sciences continue to exploit laboratory automation methods and have dramatically increased the rates at which they can generate data. I...
Michael C. Wendl, Scott Smith, Craig S. Pohl, Davi...
BMCBI
2007
180views more  BMCBI 2007»
13 years 7 months ago
Using expression arrays for copy number detection: an example from E. coli
Background: The sequencing of many genomes and tiling arrays consisting of millions of DNA segments spanning entire genomes have made high-resolution copy number analysis possible...
Dmitriy Skvortsov, Diana Abdueva, Michael E. Stitz...
BMCBI
2007
111views more  BMCBI 2007»
13 years 7 months ago
MotifCombinator: a web-based tool to search for combinations of cis-regulatory motifs
Background: A combination of multiple types of transcription factors and cis-regulatory elements is often required for gene expression in eukaryotes, and the combinatorial regulat...
Mamoru Kato, Tatsuhiko Tsunoda