mobileOG-db
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clb21565
When will the database be updated next? or will it be updated ?
Hey hii, i like the the mobileOG db and the small script you have given for quick analysis. do u have idea to update this database? will this be maintained going forward?
Hi there! Thanks for using mobileOG-db and for your question. We are working on a medium-size update to mobileOG-db that should be out in a few weeks, and then a more major upgrade within a few months. The larger update will include a new deep learning pipeline and database with enhanced class (e.g., phage, plasmid) labelling.
In the mean time, if you have any requests and/or suggestions for additions, please do let us know!
Thats great to know. I think one of things I came across your database is, it has also somehow included some ARGs in them, as when I looking at amr results and urs, some regions had same amr hits, and ur gene names were also same as the ARG. So this aspect could be improved I think.
which ARG database were you using?
there are rare cases where the annotation is genuinely ambiguous-- for example-- transcriptional regulators that promote resistance and conjugation. We've debated removing those
Hi there!
Just wanted to check in on this - we are hoping to release an updated version in the next few months, and I recalled you mentioned we had some overlap with ARGs. Do you know which database of ARGs you were using? Thanks so much!
Hi sure,it was the MEGARes database from AMRplusplus pipeline, here is the github link: https://meglab.org/megares/ their AMR and your mobileOGdb MGE protein both had same gene name hits on my sample data on the same regions as wel.
Hi, how is it going? looking forward for the update you mentioned. @clb21565 .
Almost there - but - I can offer a V. 1.7 if that's of interest with updated element labels. the final (2.0) version will be substantially larger.
Hi there- just wanted to make you aware of a 2.0 pre-release. Please feel free to try it out and let us know if you run into issues or have suggestions.
https://zenodo.org/records/14725479
Cheers,
Connor