Can transcriptome sequencing definitely detect differential genes?

Transcriptome sequencing (RNA-Seq) can effectively detect differential genes, but whether it can completely identify differential genes depends on sample quality, sequencing depth, data analysis methods, and biological variability. Poor sample RNA quality, insufficient sequencing depth, or inappropriate analysis methods may affect the identification of differential genes. Therefore, ensuring sample quality, designing experiments rationally, and using appropriate analysis tools are key to improving the accuracy of differential gene detection.

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