1 - 11 of 11 results

GenBank

A comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole-genome shotgun and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and GenBank staff assign accession numbers upon data receipt. Daily data exchange with the European Nucleotide Archive and the DNA Data Bank of Japan ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bimonthly releases and daily updates of the GenBank database are available by FTP.

REDIportal

Offers a collection of RNA editing in humans including more than 4.5 millions of A-to-I events detected in 55 body sites from thousands of RNAseq experiments. REDIportal embeds RADAR database and represents the first editing resource designed to answer functional questions, enabling the inspection and browsing of editing levels in a variety of human samples, tissues and body sites. It permits to make research by genomic region, gene name and other relevant features as the tissue of origin.

e23D

A database of A-to-I RNA editing sites from human, mouse and fly mapped to evolutionary related protein 3D structures. Genomic coordinates of A-to-I RNA editing sites are converted to protein coordinates and mapped onto 3D structures from PDB or theoretical models from ModBase. e23D allows visualization of the protein structure, modeling of recoding events and orientation of the editing with respect to nearby genomic functional sites from databases of disease causing mutations and genomic polymorphism.

CirGRDB

Searches, visualizes and interprets circadian genes and multiple transcriptional and post-transcriptional regulatory. CirGRDB offers a user-friendly web interface that provides bench researchers substantial convenience to explore the underlying regulatory mechanism for oscillating genes and disease-related circadian RNAs. This online resource offers a useful repository for deciphering the regulation of circadian rhythms and provides valuable insights into novel therapies for circadian-related disorders of humans.

The RNA Editing ATLAS

The first human inosinome atlas comprising 3,041,422 Adenine to Inosine events identified in six tissues from three healthy individuals. Matched directional total-RNA-Seq and whole genome sequence datasets were generated and analysed within a dedicated computational framework, also capable of detecting hyper-edited reads. Inosinome profiles are tissue specific and edited gene sets consistently show enrichment of genes involved in neurological disorders and cancer. Overall frequency of editing also varies, but is strongly correlated with ADAR expression levels.