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lncRNA from TCGA

Hi, how can I extract TCGA-LIHC data for long non-coding RNAs in R?

lihc tcga lncrna
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updated by ATpoint ATpoint • written by jain72744 • jain72744

1 answer

Linc should be in the regular mRNA expression files. You just need to read the GTF for linc gene IDs.

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written by Zhenyu Zhang Zhenyu Zhang

Okay, what is the difference between these IDs? And can they be extracted using code in R?

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written by jain72744 • jain72744

People here won't spoonfeed. Show some effort on what you tried. Take a GTF file that matches the TCGA annotations they used, subset for lncRNAs (it is annotated there) and then filter.

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written by ATpoint ATpoint

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