The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. [Information of the supplier]
The second Computational RNA Biology conference will bring together computational researchers with experimentalists interested in non-coding RNA biology to discuss the latest developments in this fast moving field. In recent years, there have been important advances in identifying and understanding non-coding RNAs. They are involved in many biological processes and are increasingly seen as important in disease. Computational approaches greatly assist our understanding of how to characterise and understand the biological functions of these molecules. This meeting will cover all aspects of RNA biology with a focus on computational methods to elucidate structure, function and interactions of non-coding RNAs across different species. We expect to see many new exciting results unveiled through the application of high-throughput sequencing as well as single sequence approaches. This meeting follows on from the successful first conference held in 2014, which was characterised by excellent presentations and vibrant discussions. ... [Information of the supplier]
The Drosophila Genomics Resource Center (DGRC) provides the research community with access to genomics resources including microarrays. [Information of the supplier, modified]
For those scientists interested in RNA, and its diverse biological roles, the RNA World website has been set up, which collects RNArelated Internet resources. It provides links to databases of sequences, secondary structures, and coordinates and images of three-dimensional structures to other web tools, software, books, tutorials, meetings and to the RNA prototype newsgroup archive. ... [Information of the supplier]
The plant snoRNA Database and web-site brings together information from three independent computer-assisted searches of the Arabidopsis genome for box C/D snoRNA genes and from studies of ncRNAs. To date, the Arabidopsis box C/D snoRNAs have been used to identify approximately 250 genes from different non-Arabidopsis plant species and these sequences are included as alignments in the Database. Finally, the Database provides a unifying nomenclature for all of the plant snoRNA genes. ... [Information of the supplier]
The Ribosomal Database Project (RDP) provides ribosome related data services to the scientific community, including online data analysis, rRNA derived phylogenetic trees, and aligned and annotated rRNA sequences. [Information of the supplier]
snoRNA-LBME-db includes profiles of more than 350 human snoRNAs, with descriptions of the molecule and data on sequence, size and target. Data is accessible for searching and browsing. [Editorial staff vifabio]
The miRBase Sequence Database is a searchable database of published miRNA sequences and annotation. The data were previously provided by the miRNA Registry. Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence of the mature miRNA sequence (termed miR). Both hairpin and mature sequences are available for searching using BLAST and SSEARCH, and entries can also be retrieved by name, keyword, references and annotation. All sequence and annotation data are also available for download. ... [Information of the supplier]
The Allen Brain Atlas (ABA) is an interactive, genome-wide image database of gene expression in the mouse brain. A combination of RNA in situ hybridization data, detailed Reference Atlases and informatics analysis tools are integrated to provide a searchable digital atlas of gene expression. Together, these resources present a comprehensive online platform for exploration of the brain at the cellular and molecular level. ... [Information of the supplier]
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). For a comprehensive review of models and how they can be used, please see the following reviews: DNA binding sites: representation and discovery. In: Bioinformatics. 2000 Jan;16(1):16-23; Applied bioinformatics for the identification of regulatory elements. In: Nat Rev Genet. 2004 Apr;5(4):276-87. The JASPAR CORE database contains a curated, non-redundant set of 123 profiles, derived from published collections of experimentally defined transcription factor binding sites for multicellular eukaryotes. The prime difference to similar resources (TRANSFAC, TESS etc) consist of the open data acess, non-redundancy and quality: JASPAR CORE is a smaller set that is non-redundant and curated. ... [Information of the supplier]