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Equipe de Génomique Analytique
Université Pierre et Marie Curie, INSERM U511
Responsable : Alessandra Carbone,
Alessandra DOT Carbone AT lip6 DOT fr

 

  Supplementary material for
 

 

1. A.Carbone, A.Zinovyev, F.Képès, Codon Adaptation Index as a measure for dominating codon bias , Bioinformatics, 19:2005-2015, 2003.

2. A.Carbone, F.Képès, A.Zinovyev, Codon bias signatures, organisation of microorganisms in codon space and lifestyle, Molecular Biology and Evolution, 22(3):547--561, 2004.

3. A.Carbone, R.Madden, Insights on the evolution of metabolic networks of unicellular translationally biased organisms from transcriptomic data and sequence analysis, Journal of Molecular Evolution, 61:456469, 2005.

4. A.Carbone, Computational prediction of genomic functional cores specific to different microbes, Journal of Molecular Evolution, 63(6):733-746, 2006.

5. J.Baussand,C.Deremble, A.Carbone, Periodic distribution of hydrophobic amino acids allows the definition of fundamental building blocks to align distantly related proteins, Proteins: Structure, Function and Bioinformatics, 67(3):695-708, 2007.

6. S.Engelen, L.A.Trojan, S.Sacquin-Mora, R.Lavery, A.Carbone, Joint Evolutionary Trees : a large scale method to predict protein interfaces based on sequence sampling, PLoS Computational Biology, 5(1): e1000267, 2009.

7. J.Baussand, A.Carbone, A combinatorial approach to detect coevolved amino acid networks in protein families of variable divergence, PLoS Computational Biology, 5(9): e1000488, 2009.

8. A.Mathelier, A.Carbone, MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data, Bioinformatics, 26(18):2226--34, 2010.

9. A.Mathelier, A.Carbone, Large scale chromosomal mapping of human microRNA structural clusters, Nucleic Acids Research, 2013, doi: 10.1093/nar/gkt112.

10. L.Dib, A.Carbone, Protein fragments: functional and structural roles of their coevolution networks, PLoS ONE, 7(11): e48124, 2012.

11. L.Dib, A.Carbone, CLAG: an unsupervised non hierarchical clustering algorithm handling biological data, BMC Bioinformatics, 13:194, 2012.

 
 

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