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JASPAR is a collection of transcription factor DNA-binding preferences, modeled as matrices. These can be converted into Position Weight Matrices (PWMs or PSSMs), used for scanning genomic sequences. JASPAR is the only database with this scope where the data can be used with no restrictions (open-source)... [Information of the supplier]
jaspar.genereg.net/
Welcome to the SILVA rRNA database project, a comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data, free for academic use. SILVA provides comprehensive, quality checked and regularly updated datasets of aligned small (16S/18S, SSU) and large subunit (23S/28S, LSU) ... [Information of the supplier]
www.arb-silva.de/
The Database for Aligned Ribosomal Complexes (DARC) site provides a resource for directly comparing the structures of available ribosomal complexes. The site offers a collection of files deposited in the RCSB protein data bank and the Electron Microscopy Data Bank, which have been aligned so as to make ... [Information of the supplier]
darcsite.genzentrum.lmu.de/
miRNEST is a comprehensive collection of animal, plant and virus microRNA data. The database provides you with 9980 miRNA candidates from 420 animal and plant species predicted in Expressed Sequence Tags, predicted targets for plant candidates, RNA-seq reads mapped to candidates from 29 species, and ... [Information of the supplier]
lemur.amu.edu.pl/share/php/mirnest/
In animals, RNA binding proteins (RBPs) and microRNAs (miRNAs) post-transcriptionally regulate the expression of virtually all genes by binding to RNA. Recent advances in experimental and computational methods facilitate transcriptome-wide mapping of these interactions. It is thought that the combinatori... [Miscellaneous as indicated]
dorina.mdc-berlin.de/rbp_browser/dorina.html
The greengenes web application provides access to the current and comprehensive 16S rRNA gene sequence alignment for browsing, blasting, probing, and downloading. The data and tools presented by greengenes can assist the researcher in choosing phylogenetically specific probes, interpreting microarray ... [Information of the supplier]
greengenes.lbl.gov/
Natural Antisense Transcripts (NATs), a kind of regulatory RNAs, occur prevalently in plant genomes and play significant roles in physiological and/or pathological processes. PlantNATsDB (Plant Natural Antisense Transcripts DataBase) is a platform for annotating and discovering NATs by integrating ... [Information of the supplier]
bis.zju.edu.cn/pnatdb/
The goal of the Nucleic Acid Database Project (NDB) is to assemble and distribute structural information about nucleic acids. The NDB was founded in 1992 by Helen M. Berman, Rutgers University, Wilma K. Olson, Rutgers University, and David Beveridge, Wesleyan University. In addition, Anke Gelblin, Tamas ... [Information of the supplier]
ndbserver.rutgers.edu/
Welcome to the Znosko Lab RNA Characterization of Secondary Structure Motifs (RNA CoSSMos) database! This tool allows the systematic searching of all catalogued three-dimensional nucleic acid PDB structures that contain secondary structure motifs such as mismatches, (a)symmetric internal loops, hairpin ... [Information of the supplier]
cossmos.slu.edu/
Viral siRNA Database (VIRsiRNAdb) is a structured collection of experimentally validated siRNAs reported in the scientific literature targeting diverse genes of important human viruses. The curation efforts to date has concentrated mainly on viruses known to be associated with infectious diseases in ... [Information of the supplier]
crdd.osdd.net/servers/virsirnadb/
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