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E-GEOD-63753 - Single-nucleotide resolution mapping of m6A and m6Am throughout the transcriptome

Status
Released on 29 June 2015, last updated on 19 August 2015
Organism
Homo sapiens, Mus musculus
Samples (7)
Protocols (2)
Description
N6-methyladenosine (m6A) is the most abundant modified base in eukaryotic mRNA and has been linked to diverse effects on mRNA fate and function. Current m6A mapping approaches rely on immunoprecipitation of m6A-containing RNA fragments to identify regions of transcripts that contain m6A. This approach localizes m6A residues to 100-200 nt-long regions of transcripts. The precise position of m6A in mRNAs cannot be identified on a transcriptome-wide level because there are no chemical methods to distinguish between m6A and adenosine. Here we show that anti-m6A antibodies can induce specific mutational signatures at m6A residues after ultraviolet light-induced antibody-RNA crosslinking and reverse transcription. Similarly, we find these antibodies induce mutational signatures at N6, 2’-O-dimethyladenosine (m6Am), a nucleotide found at the first encoded position of certain mRNAs. Using these mutational signatures, we map m6A and m6Am at single-nucleotide resolution in human and mouse mRNA and identify snoRNAs as a novel class of m6A-containing ncRNAs. UV-crosslinking and immunoprecipitation with m6A-specific antibodies was used to map m6A and m6Am in cellular RNA with single nucleotide resolution.
Experiment types
other, RNA-seq of coding RNA 
Contacts
Samie R Jaffrey <srj2003@med.cornell.edu>, Anthony O Olalerin-George, Anya Grozhik, Bastian Linder, Cem Meydan, Christopher Mason
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-63753.idf.txt
Sample and data relationshipE-GEOD-63753.sdrf.txt
Additional data (1)E-GEOD-63753.additional.1.zip
Links