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© Institut Pasteur
Cells infected for 24 hrs with C. Trachomatis. The cell nuclei are labelled in blue, the bacteria appear yellow, within the inclusion lumen. A bacterial protein secreted out the inclusion into the host cytoplasm id labelled in red.
Publication : Physical review letters

Probabilistic sequence alignments: realistic models with efficient algorithms

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Physical review letters - 12 Feb 2007

Yeramian E, Debonneuil E

Link to Pubmed [PMID] – 17359063

Phys. Rev. Lett. 2007 Feb;98(7):078101

Alignment algorithms usually rely on simplified models of gaps for computational efficiency. Based on correspondences between alignments and structural models for nucleic acids, and using methods from statistical mechanics, we show that alignments with realistic laws for gaps can be computed with fast algorithms. Improved performances of probabilistic alignments with realistic models of gaps are illustrated. By contrast with optimization-based alignments, such improvements with realistic laws are not observed. General perspectives for biological and physical modelings are mentioned.

https://www.ncbi.nlm.nih.gov/pubmed/17359063