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Using splint oligonucleotide assisted site-specific ligation, these two cDNA products are then visualized on a gel as two distinct PCR products in the same lane corresponding to the Ψ-modified and unmodified target site. CLAP validates Ψ sites identified by high throughput sequencing, quantifies Ψ levels in mRNA and lncRNA, and enables convenient and rapid investigation on the function and mechanism of the Ψ modification.Most proteins in proteomes are large, typically consist of more than one domain and are structurally complex. This often makes studying th