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. 2022 May 19;13(5):910. doi: 10.3390/genes13050910

Table 2.

Detection methods for mapping m1A RNA modification.

Methods Features RNA Substrate Antibody Dependent Resolution Cell Line
ARM-seq [7] AlkB treatment tRNA No Fragment BY4741, GM05372,
GM12878
m1A-quant-seq [11] Spike-in m1A RNA; AlkB treatment;
RT-1306-mediated RT mutation		 tRNA, rRNA, mRNA, lncRNA No Single base HEK293T
m1A-seq [10] m1A-RNA immunoprecipitation;
Dimroth rearrangement		 rRNA, mRNA Yes Fragment BY4741, Sp1, MEF, mESC, HeLa
m1A-ID-seq [9] m1A-RNA immunoprecipitation;
AlkB treatment;
AMV-mediated RT truncation		 rRNA, mRNA, lncRNA Yes Fragment HEK293T
m1A-seq-SS [12] m1A-RNA immunoprecipitation;
Dimroth rearrangement;
SS-mediated RT truncation		 tRNA, rRNA, mRNA, lncRNA Yes Single base HEK293T
m1A-seq-TGIRT [12] m1A-RNA immunoprecipitation;
Dimroth rearrangement;
TGIRT-mediated RT readthrough		 tRNA, rRNA, mRNA, lncRNA Yes Single base HEK293T
m1A-MAP [8] m1A-RNA immunoprecipitation;
AlkB treatment;
TGIRT-mediated RT read-through		 tRNA, rRNA, mRNA, lncRNA Yes Single base HEK293T
m1A-IP-seq [11] m1A-RNA immunoprecipitation;
AlkB treatment;
RT-1306-mediated RT mutation		 tRNA, rRNA, mRNA, lncRNA Yes Single base HEK293T

AlkB, α-ketoglutarate-dependent dioxygenase; RT, reverse transcription; AMV, avian myeloblastosis virus; SS, SuperScript III; TGIRT, thermostable group II intron reverse transcriptase; BY4741, saccharomyces cerevisiae BY4741 strains; GM05372, human B lymphocyte-derived GM05372 cell; GM12878, human B lymphocyte-derived GM12878 cell; HEK293T, human embryonic kidney 293T cell; Sp1, schizosaccharomyces pombe Sp1 cells; MEF, mouse embryonic fibroblasts; mESC, mouse embryonic stem cell; HeLa, human HeLa cell.