The Korean Journal of Clinical Laboratory Science : eISSN 2288-1662 / pISSN 1738-3544

Table 1.

Comparison of distinct RNA-seq described in this review

Standard RNA-seq 3’ Tag RNA-seq De novo transcript assembly
Purpose Discovery of DEGs
Splice variant analysis
SNP discovery
Discovery of DEGs Working with unavailable model organism and/or high amount of genomic alteration sample
Applicable species Prokaryote, eukaryote Eukaryote Prokaryote, eukaryote
Recommended read depth 10~30 million reads <5 million reads 100~200 million reads
Cost Average Low High
Recommended input RNA (ng) >500 >25 >500
Recommended RIN >8.0 >5.0 >5.3 (10.1111/1755-0998.12485)
Reference genome Required Required Not required

Abbreviations: RNA-seq, RNA-sequencing; DEGs, differentially expressed genes; SNP, single nucleotide polymorphism; RIN, RNA integrity number.

Korean J Clin Lab Sci 2023;55:235-43
© 2023 Korean J Clin Lab Sci