search

BackofenLab / Cherri

https://backofenlab.github.io/Cherri/
GNU General Public License v3.0
0 stars 0 forks source link

Find RRI pairs where no interaction is known #20

Open teresa-m opened 3 years ago

teresa-m commented 3 years ago

Check if the way the negative set of this publication is constructed is interesting for us: doi: 10.1186/s12918-017-0390-8

The basic idea of our method is like this: for anexperimentally-validated PRI of proteinpand RNAr,rishighly possible to interact with any proteinp′similar top.Onthecontrary,ifproteinp′is dissimilar top,thereislow possibility thatp′interactsr. Based on this idea, wepropose the methodFIREto construct reliable negativePRIs. The flowchart of FIRE is shown in Fig. 3. Concretely,for each positive PRI (p,r), we try to find any proteinp′that is as much dissimilar as possible top.If(p′,r)isnotan experimentally-validated PRI, then it is selected as anegative PRI.

teresa-m commented 3 years ago

At some point, we can discuss if something like this is interesting for us.