circRNA-miRNA-mRNA (and Proteins) interaction protocol

[AlexanderPico]

[Franzi]

[ShahnazShefa]

Trying to check which pathways candidate miRNAs and groups of miRNAs are engaged in and the track down the mRNA targets. It's not working. When I did the same is geneid did work though. Any advice will be highly appreciated .

[susancoort]

Dear Shahnaz, Just that I understand your question correctly. Do you start with a list of microRNAs? If so how are they annotated? Are you using a Cytoscape app to find the mRNA targets? With the CyTargetLinker app you can find the predicted and/or validated microRNA target genes. Thereafter you can find the pathways in which the target genes are present. Both microRNAs-targets and target-pathway interactions can be visualized in one network. Is this what you are looking for? With kind regards, Susan Coort From: ShahnazShefa [mailto:[email protected]] Sent: dinsdag 3 april 2018 16:29 To: cytoscape/cytoscape-tutorials Cc: Subscribed Subject: Re: [cytoscape/cytoscape-tutorials] circRNA-miRNA-mRNA (and Proteins) interaction protocol (#10) Trying to check which pathways candidate miRNAs and groups of miRNAs are engaged in and the track down the mRNA targets. It's not working. When I did the same is geneid did work though. Any advice will be highly appreciated . — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#10 (comment)>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AE-IsW8udq61LXYT_T8iDEgAH5461_1Eks5tk4c2gaJpZM4QvH8H>.

[ShahnazShefa]

Dear Susan
I do have a list of miRNA in excel . I got the acession and ID form mirbase. I did import the file to Cytscape3.6.0. I am attaching what I did in a word doc. Would be very kind of you indeed if you could advise me what I am doing wrong.
Thanks
Shahnaz
EXAMPLE.docx

EXAMPLE.xlsx