The RNA modification database, RNAMDB: 2011 update

By W. Cantara, P. F. Crain, J. Rozenski, J. McCloskey, K. Harris, Xiaonong Zhang, Franck A. P. Vendeix, D. Fabris, P. Agris. Nucleic Acids Res., 2010

792 citations recorded by the source corpus.

Since its inception in 1994, The RNA Modification Database (RNAMDB, http://rna-mdb.cas.albany.edu/RNAmods/) has served as a focal point for information pertaining to naturally occurring RNA modifications. In its current state, the database employs an easy-to-use, searchable interface for obtaining detailed data on the 109 currently known RNA modifications. Each entry provides the chemical structure, common name and symbol, elemental composition and mass, CA registry numbers and index name, phylogenetic source, type of RNA species in which it is found, and references to the first reported structure determination and synthesis. Though newly transferred in its entirety to The RNA Institute, the RNAMDB continues to grow with two notable additions, agmatidine and 8-methyladenosine, appended in the last year. The RNA Modification Database is staying up-to-date with significant improvements being prepared for inclusion within the next year and the following year. The expanded future role of The RNA Modification Database will be to serve as a primary information portal for researchers across the entire spectrum of RNA-related research.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/633888a9e6ac257c3e1e3d480525231c1627dc8d

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Citations in the corpus

N6-methyl-adenosine (m6A) in RNA: An Old Modification with A Novel Epigenetic Function (2012, background): “More than 100 modifications have been identified in native cellular RNAs including mRNAs, tRNAs, rRNAs, small nuclear RNA (snRNAs) and small nucleolar RNAs (snoRNAs) [1,2].”
Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA (2012, background): “While DNA is relatively devoid of other modifications, 109 modifications have been identified in different classes of RNA across all three domains of life (7).”
The rise of regulatory RNA (2014, background): “Moreover, apart from snoRNA-directed modifications, there are well over 100 other documented modifications of RNA 309,310 , including cytosine and adenosine methylation which have known physiological and cognitive effects 311–314 , indicating a new additional layer of RNA informational code and…”
RNA N6-methyladenosine methylation in post-transcriptional gene expression regulation (2015, background): “To date, more than a hundred structurally distinct chemical modifications have been found in eukaryotic RNAs (Cantara et al. 2011; Machnicka et al. 2013); however, the enzymes responsible for each modification and the biological consequences of these modified RNAs are largely unknown.”
MODOMICS: a database of RNA modification pathways. 2017 update (2017, background): “Information about modified residues is also available in the RNAMDB database (9), while information about modified nucleosides identified from high-throughput experiments like Pseudo-seq, CeU-seq, m6A-seq, Aza-IP and RiboMeth-seq is hosted by RMBase (10).”
MODOMICS: a database of RNA modification pathways—2013 update (2012, background): “Information about modified residues is also available in the RNMDB database (29).”
ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility (2012, positive): “Cellular RNAs such as mRNA, tRNA, rRNA, and snRNA have long been known to contain more than 100 structurally distinct posttranscriptional modifications (Cantara et al., 2011; Globisch et al., 2011).”