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-   -   Study of lncRNA: LNCipedia, NONCODE, MiTranscriptome, ... (http://seqanswers.com/forums/showthread.php?t=69190)

Jane M 05-17-2016 07:02 AM

Study of lncRNA: LNCipedia, NONCODE, MiTranscriptome, ...
 
Hello everybody,

Did some of you use lncRNA databases in addition to Gencode annotation to count reads in genes?
I heard about MiTranscriptome, which contains ~58,000 lncRNA, and is based only on polyA RNA sequencing.
I have ribodepleted samples from which I count the number of reads in each gene based on Gencode annotation. I am interested in coding and non coding elements, in lncRNA in particular. I would like to know if some of the lncRNA databases could help and can be used in combination with Gencode to characterize my RNA repertoire. (I used hg19).

I would appreciate any feedback.
Thank you


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