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 Demeny, S. -H. Hsieh, A.R. Srinivasan, and Bohdan Schneider were members of the original NDB project team. The NDB Project is funded by the National Science Foundation and the Department of Energy. The NDB maintains the mmCIF Web site. mmCIF (macromolecular Crystallographic Information File) is the IUCr-approved data representation for macromolecular structures. ... [Information of the supplier]
Synthetic biology has gained much attention since Craig Venter and his team in 2010 made the historic announcement of the creation of first fully functioning, reproducing cell controlled by synthetic DNA. The 2013 NCMLS New Frontiers symposium - a joint venture between the Radboud University Medical & Science faculties - will feature international keynote speakers as well as NCMLS top researchers, who will provide high-quality presentations on current achievements and challenges ahead in our quest to understanding the chemistry and biology of life. ... [Information of the supplier]
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 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 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 Vienna Drosophila RNAi Center (VDRC) is a joint initiative of the Institute of Molecular Biotechnology (IMBA) and the Research Institute of Molecular Pathology (IMP). The VDRC exploits and further develops the Drosophila transgenic RNAi library generated by the Dickson group, formerly at IMBA and now at the IMP. Its mission is to promote scientific discoveries based on the use of this technology. The in vivo RNAi approach allows researchers to systematically knock down individual Drosophila genes, using the GAL4/UAS system to target the RNAi to specific cells in the animal. With over 85% of the Drosophila genome covered, this promises to be a powerful method to assign functions to known and newly-annotated genes from the genome sequencing effort. ... [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]
