Visualizing RNA Secondary Structure Base Pair Binding Probabilities using Nested Concave Hulls

Joris Sansen (1) , Romain Bourqui (1) , Patricia Thebault (1) , Julien Allali (1) , David Auber (1)

1 LaBRI - Laboratoire Bordelais de Recherche en Informatique

The challenge 1 of the BIOVIS 2015 design contest consists in designing an intuitive visual depiction of base pairs binding probabilities for secondary structure of ncRNA. Our representation depicts the potential nucleotide pairs binding using nested concave hulls over the computed MFE ncRNA secondary structure. Thus, it allows to identify regions with a high level of uncertainty in the MFE computation and the structures which seem to match to reality.

Domaines: Recherche d'information [cs.IR]; Bio-informatique [q-bio.QM]; Biochimie, Biologie Moléculaire; Génomique, Transcriptomique et Protéomique [q-bio.GN]

Joris Sansen, Romain Bourqui, Patricia Thebault, Julien Allali, David Auber. Visualizing RNA Secondary Structure Base Pair Binding Probabilities using Nested Concave Hulls. 5th Symposium on Biological Data Visualization, Jul 2015, Dublin, Ireland. ⟨hal-01664524⟩