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BMCBI
2005
136views more  BMCBI 2005»
13 years 7 months ago
Identification of clustered microRNAs using an ab initio prediction method
Background: MicroRNAs (miRNAs) are endogenous 21 to 23-nucleotide RNA molecules that regulate protein-coding gene expression in plants and animals via the RNA interference pathway...
Alain Sewer, Nicodème Paul, Pablo Landgraf,...
BMCBI
2005
94views more  BMCBI 2005»
13 years 7 months ago
YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities
Background: A number of algorithms for steady state analysis of metabolic networks have been developed over the years. Of these, Elementary Mode Analysis (EMA) has proven especial...
Roland Schwarz, Patrick Musch, Axel von Kamp, Bern...
BMCBI
2005
99views more  BMCBI 2005»
13 years 7 months ago
CGH-Profiler: Data mining based on genomic aberration profiles
Background: CGH-Profiler is a program that supports the analysis of genomic aberrations measured by Comparative Genomic Hybridisation (CGH). Comparative genomic hybridisation (CGH...
Falk Schubert, Bernhard Tausch, Stefan Joos, Rolan...
BMCBI
2005
73views more  BMCBI 2005»
13 years 7 months ago
Empirical codon substitution matrix
Background: Codon substitution probabilities are used in many types of molecular evolution studies such as determining Ka/Ks ratios, creating ancestral DNA sequences or aligning c...
Adrian Schneider, Gina Cannarozzi, Gaston H. Gonne...
BMCBI
2005
106views more  BMCBI 2005»
13 years 7 months ago
Thesaurus-based disambiguation of gene symbols
Background: Massive text mining of the biological literature holds great promise of relating disparate information and discovering new knowledge. However, disambiguation of gene s...
Bob J. A. Schijvenaars, Barend Mons, Marc Weeber, ...
BMCBI
2005
75views more  BMCBI 2005»
13 years 7 months ago
Prediction of a common structural scaffold for proteasome lid, COP9-signalosome and eIF3 complexes
Background: The 'lid' subcomplex of the 26S proteasome and the COP9 signalosome (CSN complex) share a common architecture consisting of six subunits harbouring a so-call...
Hartmut Scheel, Kay Hofmann
BMCBI
2005
120views more  BMCBI 2005»
13 years 7 months ago
pSLIP: SVM based protein subcellular localization prediction using multiple physicochemical properties
Background: Protein subcellular localization is an important determinant of protein function and hence, reliable methods for prediction of localization are needed. A number of pre...
Deepak Sarda, Gek Huey Chua, Kuo-Bin Li, Arun Kris...
BMCBI
2005
89views more  BMCBI 2005»
13 years 7 months ago
MILANO - custom annotation of microarray results using automatic literature searches
Background: High-throughput genomic research tools are becoming standard in the biologist's toolbox. After processing the genomic data with one of the many available statisti...
Ran Rubinstein, Itamar Simon
BMCBI
2005
145views more  BMCBI 2005»
13 years 7 months ago
CAGER: classification analysis of gene expression regulation using multiple information sources
Background: Many classification approaches have been applied to analyzing transcriptional regulation of gene expressions. These methods build models that can explain a gene's...
Jianhua Ruan, Weixiong Zhang
BMCBI
2005
115views more  BMCBI 2005»
13 years 7 months ago
MPrime: efficient large scale multiple primer and oligonucleotide design for customized gene microarrays
Background: Enhancements in sequencing technology have recently yielded assemblies of large genomes including rat, mouse, human, fruit fly, and zebrafish. The availability of larg...
Eric C. Rouchka, Abdelnaby Khalyfa, Nigel G. F. Co...