Entering edit mode
4.3 years ago
glady
▴
320
Hello everyone,
I have an RNAseq data of a human cell line, with three experimental conditions(having 3 replicates each). The depth of all the samples is >80M. The same samples were also sequenced for small RNA(miRNAs), with help of some miRNA target prediction algorithms and databases I was able to predict some sponge circuits in my RNASeq data.
Similarly, I was hoping to find some information on interactions between these protein and lncRNAs in the sponge circuits. Are there any recently updated databases or R packages available to perform such analysis? Or any machine learning algorithms?
Some validation on these sponge circuits might help me to solidify my results.
Thank you in advance.
Can you elaborate on the experiment? I'm not sure RNAseq alone can give you information about protein-lncRNA interactions. Maybe with a bit more information someone can help.