Table 1 Summary of m6A detection methods
From: When animal viruses meet N6-methyladenosine (m6A) modifications: for better or worse?
Method | Resolution | Advantages | Disadvantages | Main applications |
|---|---|---|---|---|
MeRIP-seq (m6A-seq) | Low | Provides a broad overview of m6A distribution; widely applicable | Requires antibodies; complex background in results | Transcriptome-wide studies of m6A distribution |
PA-m6A-seq |  ~30 nts | Low background noise | Multiple complex steps; requires 4-thiouridine and UV crosslinking | Studying m6A modifications in viral and cellular RNA, detecting various kinds of RNA modifications |
MiCLIP-m6A-seq | Single-nucleotide | Highly specific | Complicated procedure; low UV crosslinking efficiency | Precise mapping of m6A modifications transcriptome-wide |
High-Resolution Melting (HRM) | Single-nucleotide | Simple and quick; antibody-independent | Requires prior knowledge or speculation of m6A modification sites | Detecting m6A modifications in specific RNA sequences |
m6A-REF-seq | Single-nucleotide | High-throughput; antibody-independent | Only applicable to specific sequences (ACA) | Precise identification of m6A modification sites and methylation levels |
MAZTER-seq | Single-nucleotide | Quantitative and high-throughput; antibody-independent | Only applicable to ACA sites; sensitivity and specificity need calibration | Studying m6A dynamics in yeast and mammalian systems |
BstI DNA Polymerase dependent methods | Single-nucleotide | Simple and quick; antibody-independent | Limited reverse transcription fragment length; requires prior knowledge of m6A modification range | Detecting m6A modifications in structurally complex RNAs such as viral RNA |
Nano-m6A | Single-nucleotide | High precision; Direct detection of native RNA | Complex data processing; expensive equipment | Detailed analysis of RNA modifications, including m6A and other RNA modifications |
ONT Direct RNA Sequencing (DRS) | Single-nucleotide | Preserves native RNA state; no reverse transcription needed; detects multiple RNA modifications | Expensive equipment; complex data processing; requires extensive data analysis | Transcriptome-wide RNA modification detection, including long transcripts and identification of native RNA 3′ ends |