2012
DOI: 10.1093/nar/gks1007
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MODOMICS: a database of RNA modification pathways—2013 update

Abstract: MODOMICS is a database of RNA modifications that provides comprehensive information concerning the chemical structures of modified ribonucleosides, their biosynthetic pathways, RNA-modifying enzymes and location of modified residues in RNA sequences. In the current database version, accessible at http://modomics.genesilico.pl, we included new features: a census of human and yeast snoRNAs involved in RNA-guided RNA modification, a new section covering the 5′-end capping process, and a catalogue of ‘building blo… Show more

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Cited by 922 publications
(981 citation statements)
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“…More than 150 nucleotide modifications of RNA have been described and of these > 10 have been reported in mRNA (Machnicka et al ., 2013). N 6‐methyladenosine (m 6 A) is the most prevalent internal mRNA modification found in eukaryotes, and has received a burst of interest in recent years (Meyer & Jaffrey, 2014; Fray & Simpson, 2015; Yue et al ., 2015).…”
Section: Introductionmentioning
confidence: 99%
“…More than 150 nucleotide modifications of RNA have been described and of these > 10 have been reported in mRNA (Machnicka et al ., 2013). N 6‐methyladenosine (m 6 A) is the most prevalent internal mRNA modification found in eukaryotes, and has received a burst of interest in recent years (Meyer & Jaffrey, 2014; Fray & Simpson, 2015; Yue et al ., 2015).…”
Section: Introductionmentioning
confidence: 99%
“…16 However, numerous other modifications have been added to the mRNA repertoire. m 1 A has been described in tRNA and rRNA, 17,18 but we now know that it is also present in mRNA, albeit at levels approximately 10-fold lower than m 6 A. 19,20 In the studies that first described its distribution in mRNA, one identified 7,154 peaks in 4,151 coding genes, 19 while the other identified 887 peaks in 600 genes.…”
Section: Mrnamentioning
confidence: 99%
“…Each molecule carries, on average, 14 modifications that contribute to its function. 18,52 While a detailed description of all the known modifications on tRNA, their respective functions, and their regulatory machineries is beyond the scope of this overview, decades of work have revealed some interesting paradigms by which modifications influence tRNA function.…”
Section: Trnamentioning
confidence: 99%
“…2). 11-13 These ten nucleoside positions of the ASL are not simultaneously modified in any one tRNA, rather a set of 3–5 specific nucleosides are found to be modified in an individual tRNA. Many times in the sequencing of a tRNA species one finds that as many as three nucleoside positions of the seven residue loop are modified.…”
Section: Introductionmentioning
confidence: 98%