Paper Info
Title
SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data.
Abstract
SELEX_DB is an online resource containing both the experimental data on in vitro selected DNA/RNA oligomers (aptamers) and the applets for recognition of these oligomers. Since in vitro experimental data are evidently system-dependent, the new release of the SELEX_DB has been supplemented by the database SYSTEM storing the experimental design. In addition, the recognition applet package, SELEX_TOOLS, applying in vitro selected data to annotation of the genome DNA, is accompanied by the cross-validation test database CROSS_TEST discriminating the sites (natural or other) related toin vitro selected sites out of random DNA. By cross-validation testing, we have unexpectedly observed that the recognition accuracy increases with the growth of homology between the training and test sets of protein binding sequences. For natural sites, the recognition accuracy was lower than that for the nearest protein homologs and higher than that for distant homologs and non-homologous proteins binding the common site. The current SELEX_DB release is available at http://wwwmgs.bionet.nsc.ru/mgs/systems/selex/.
Year
DOI
Venue
2002
10.1093/nar/30.1.195
NUCLEIC ACIDS RESEARCH
Keywords
Field
DocType
cross validation,database system,experimental design,site directed mutagenesis,genomic dna,protein binding
Genome,Systematic evolution of ligands by exponential enrichment,Binding site,Aptamer,Site-directed mutagenesis,Biology,DNA,Oligonucleotide,Homology (biology),Genetics,Molecular biology,Database
Journal
Volume
Issue
ISSN
30
1.0
0305-1048
Citations 
PageRank 
References 
5
1.35
3
Authors
5
Name
Order
Citations
PageRank
Julia V. Ponomarenko125724.02
Galina Orlova2387.54
Anatoly S. Frolov310015.56
M S Gelfand434371.47
Mikhail P Ponomarenko513127.97