Do CHEUI models work on SARS-CoV-2 RNA modification detection?

[kir1to455]

Hi,
Thank you for developing this tool.
I would like to know if the CHEUI model can be applied to SARS-CoV-2?
I have obtained the result of solo outputs using CHEUI.
But almost all probability values are 0.013649046.

Only one DRACH site with probability 0.99999905.

In addition, I also have samples with Mettle3 inhibitors. Can I use CHEUI diff to detect the differences between the two samples?
Could someone give me some advice?

Best wishes,
Kirito

[EduEyras]

Hi Kirito, Yes, you can use CHEUI for whatever organism and RNA We're using it systematically across all kingdoms of life Yes, you can also use CHEUI-diff to compare between both conditions. Those to A sites with high probability are encouraging. CHEUI predicts in all sequence contexts, so the non-DRACH AGATG modified site could be m6A, or other type of adenosine methylation. We saw that nanopore does not distinguish well between m6A and m1A. I hope this helps Eduardo

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On Wed, 21 Feb 2024 at 18:25, kir1to455 ***@***.***> wrote: Hi, Thank you for developing this tool. I would like to know if the CHEUI model can be applied to SARS-CoV-2? I have obtained the result of solo outputs using CHEUI. But almost all probability values are 0.013649046. image.png (view on web) <https://github.com/comprna/CHEUI/assets/87375686/44959429-bf53-4ea2-846c-62f030aaab6d> Only one DRACH site with probability 0.99999905. image.png (view on web) <https://github.com/comprna/CHEUI/assets/87375686/e305c678-d853-485a-99b3-21d4723a9d9a> In addition, I also have samples with Mettle3 inhibitors. Can I use CHEUI diff to detect the differences between the two samples? Could someone give me some advice? Best wishes, Kirito — Reply to this email directly, view it on GitHub <#34>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADCZKBYSLVBO6NKIQWBZAWTYUWONLAVCNFSM6AAAAABDSQHWFWVHI2DSMVQWIX3LMV43ASLTON2WKOZSGE2DMMBQHA2TEMA> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>