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You could do it with Annocript. It annotates the transcriptome and gives putative lnc RNAs sequences... -
You can use Dario web server which is a free web tool for ncRNA analysis using RNAseq data.
I have not used it before. so can not comment on the results. Please let me know your experience wit it.Leave a comment:
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long ncRNA from RNA-seq
I am a biologist and a poor programmer. I have assembled RNA-seq data from which I'd like to extract all potential long ncRNA candidates. I assume the easiest way would be to compare my data to Refseq or Rfam but I don't know how to do this. Furthermore, this strategy would only pick up already annotated lncRNA. I would be glad of any help.Last edited by stephenhart; 09-28-2011, 11:45 PM.
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The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...07-08-2024, 03:19 PM
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