A multi-scale constraint programming model of alternative splicing regulation

Damien Eveillard (1, 2) , Delphine Ropers (2, 3) , Hidde de Jong (3) , Christiane Branlant (2) , Alexander Bockmayr (1)

1 MODBIO - Computational models in molecular biology
2 MAEM - Maturation des ARN et enzymologie moléculaire
3 HELIX - Computer science and genomics

Alternative splicing is a key process in post-transcriptional regulation, by which different mature RNA can be obtained from the same premessenger RNA. The resulting combinatorial complexity contributes to biological diversity, especially in the case of the human immunodeficiency virus HIV-1. Using a constraint programming approach, we develop a model of the alternative splicing regulation in HIV-1. Our model integrates different scales (single site vs. multiple sites), and thus allows us to exploit several types of experimental data available to us.

Domaines: Autre [cs.OH]; Autre [q-bio.OT]; Bio-Informatique, Biologie Systémique [q-bio.QM]

Damien Eveillard, Delphine Ropers, Hidde de Jong, Christiane Branlant, Alexander Bockmayr. A multi-scale constraint programming model of alternative splicing regulation. Theoretical Computer Science, 2004, Special issue: computational systems biology, 325 (1), pp.3-24. ⟨10.1016/j.tcs.2004.03.062⟩. ⟨inria-00000916⟩