RNA and DNA variant difference
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2.1 years ago
9521ljh ▴ 40

i have 1 patient samples ( normal, tumor), and find out the fusion gene throughout RNA-seq(eg. CPM--CCT2 gene is fusion transcription).

next, i ran the DNA sequence(whole genome sequence). However, fusion gene(CPM--CCT2) do not appear in DNA sequence.

About 95% of fusion gene ( by RNA sequence) do not appear in DNA sequence as fusion gene.

why????

next-gen rna-seq genome sequencing • 430 views
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Entering edit mode
2.1 years ago
ATpoint 55k

RNA-seq is a false-positive or DNA-seq is a false-negative given that all pipelines were ran properly and sample selection for RNA-seq and DNA-seq was appropriate and comparable. You will probably need to validate by experiment, e.g. Sanger sequencing on the cDNA spanning the fusion break points.

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