Exome versus RNA sequencing

Question

[Abdul Rafay Khan]

What is the difference between Exome sequencing versus RNA sequencing ? What type of de novo assemblers should be use for exome sequencing reads and what de novo assemblers for RNA sequencing reads?

Answer 1

[Prasad]

exome sequencing is at the dna level and usually meant for variant detection and rna-seq is at rna level, mostly used for expression analysis. here are some sources to begin with 1, 2

similar post regarding assembly 1, 2

Answer 2

[WouterDeCoster]

I think googling could learn you a lot about these technologies, and you really need to understand the basis and background before you can start working with data generated by either technique.

De novo assembly on whole exome sequencing is pointless since by definition the sequenced fragments are not connected. For de novo assembly of RNA-sequencing, I think most often Trinity is used, but I'm not sure it's the best tool available since I'm not doing de novo assembly myself.