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BMCBI
2007
141views more  BMCBI 2007»
13 years 4 months ago
On the origin and evolution of biosynthetic pathways: integrating microarray data with structure and organization of the Common
Background: The lysine, threonine, and methionine biosynthetic pathways share the three initial enzymatic steps, which are referred to as the Common Pathway (CP). In Escherichia c...
Marco Fondi, Matteo Brilli, Renato Fani
BMCBI
2007
247views more  BMCBI 2007»
13 years 4 months ago
A survey of DNA motif finding algorithms
Background: Unraveling the mechanisms that regulate gene expression is a major challenge in biology. An important task in this challenge is to identify regulatory elements, especi...
Modan K. Das, Ho-Kwok Dai
BMCBI
2007
102views more  BMCBI 2007»
13 years 4 months ago
The MEPS server for identifying protein conformational epitopes
Tiziana Castrignanò, Paolo D'Onorio De Meo,...
BMCBI
2007
178views more  BMCBI 2007»
13 years 4 months ago
SVM clustering
Background: Support Vector Machines (SVMs) provide a powerful method for classification (supervised learning). Use of SVMs for clustering (unsupervised learning) is now being cons...
Stephen Winters-Hilt, Sam Merat
BMCBI
2007
180views more  BMCBI 2007»
13 years 4 months ago
Splicy: a web-based tool for the prediction of possible alternative splicing events from Affymetrix probeset data
Background: The Affymetrix™ technology is nowadays a well-established method for the analysis of gene expression profiles in cancer research studies. However, changes in gene ex...
Davide Rambaldi, Barbara Felice, Viviane Praz, Phi...
BMCBI
2007
99views more  BMCBI 2007»
13 years 4 months ago
Towards validating the hypothesis of phylogenetic profiling
Background: As the number of fully sequenced genome increases, the need is greater for bioinformatics to predict or annotate genes of a newly sequenced genome. Ever since Eisenber...
Raja Loganantharaj, Mazen Atwi
BMCBI
2007
139views more  BMCBI 2007»
13 years 4 months ago
Significance analysis of microarray transcript levels in time series experiments
Background: Microarray time series studies are essential to understand the dynamics of molecular events. In order to limit the analysis to those genes that change expression over ...
Barbara Di Camillo, Gianna Toffolo, Sreekumaran K....
BMCBI
2007
121views more  BMCBI 2007»
13 years 4 months ago
e-Science and biological pathway semantics
Background: The development of e-Science presents a major set of opportunities and challenges for the future progress of biological and life scientific research. Major new tools a...
Joanne S. Luciano, Robert D. Stevens
BMCBI
2007
91views more  BMCBI 2007»
13 years 4 months ago
Graphs in molecular biology
Graph theoretical concepts are useful for the description and analysis of interactions and
Wolfgang Huber, Vincent J. Carey, Li Long, Seth Fa...