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Carbone A*, Dib L. Co-evolution and information signals in biological sequences. Theoretical Computer Science. 412, pp.2486 - 2495 (2011). |
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Mäder U, Nicolas P, Richard H, Bessières P, Aymerich S. Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods. Curr Opin Biotechnol. 22(1), pp.32-41 (2011). |
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Bernardes JS, Carbone A*, Zaverucha G. A discriminative method for family-based protein remote homology detection that combines inductive logic programming and propositional models. BMC Bioinformatics. 12, pp.83 (2011). |
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Bietti S, Somaschini C, Sarti E, Koguchi N, Sanguinetti S, Isella G, Chrastina D, Fedorov A. Photoluminescence Study of Low Thermal Budget III–V Nanostructures on Silicon by Droplet Epitaxy. Nanoscale Research Letters. 5(10), pp.1650 (2010). |
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Warren WC, Clayton DF, Ellegren H, Arnold AP, Hillier LDW, Kunstner A, Searle S, White S, Vilella AJ, Fairley S, Heger A, Kong L, Ponting CP, Jarvis ED, Mello CV, Minx P, Lovell P, Velho TAF, Ferris M, Balakrishnan CN, Sinha S, Blatti C, London SE, Li Y, Lin Y-C, George J, Sweedler J, Southey B, Gunaratne P, Watson M, Nam K, Backstrom N, Smeds L, Nabholz B, Itoh Y, Whitney O, Pfenning AR, Howard J, Volker M, Skinner BM, Griffin DK, Ye L, McLaren WM, Flicek P, Quesada V, Velasco G, Lopez-Otin C, Puente XS, Olender T, Lancet D, Smit AFA, Hubley R, Konkel MK, Walker JA, Batzer MA, Gu W, Pollock DD, Chen L, Cheng Z, Eichler EE, Stapley J, Slate J, Ekblom R, Birkhead T, Burke T, Burt D, Scharff C, Adam I, Richard H, Sultan M, Soldatov A, Lehrach H, Edwards SV, Yang S-P, Li XC, Graves T, Fulton L, Nelson J, Chinwalla A, Hou S, et al.. The genome of a songbird. Nature. 464(7289), pp.757 - 762 (2010). |
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Mathelier A, Carbone A*. MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data. Bioinformatics. 26(18), pp.2226-34 (2010). |
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Laine E, Goncalves C, Karst JC, Lesnard A, Rault S, Tang W-J, Malliavin TE, Ladant D, Blondel A. Use of allostery to identify inhibitors of calmodulin-induced activation of Bacillus anthracis edema factor. Proc Natl Acad Sci U S A. 107(25), pp.11277-82 (2010). |
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Mathelier A, Carbone A*. Chromosomal periodicity and positional networks of genes in Escherichia coli. Mol Syst Biol. 6, pp.366 (2010). |
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Richard H, Schulz MH, Sultan M, Nürnberger A, Schrinner S, Balzereit D, Dagand E, Rasche A, Lehrach H, Vingron M, Haas SA, Yaspo M-L. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments. Nucleic Acids Res. 38(10), pp.e112 (2010). |
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Engelen S, Trojan LA, Sacquin-Mora S, Lavery R, Carbone A*. Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling. PLoS Comput Biol. 5(1), pp.e1000267 (2009). |
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Carbone A*, Dib L Co-evolution and Information Signals in Biological Sequences. in Theory and Applications of Models of Computation. LNCS 5532, Springer Berlin Heidelberg. pp. 6-17 (2009) |
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Carbone A*, Engelen S Information content of sets of biological sequences revisited. in Algorithmic Bioprocesses. Springer. pp. 31–42 (2009) |
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Hu H, Wrogemann K, Kalscheuer V, Tzschach A, Richard H, Haas SA, Menzel C, Bienek M, Froyen G, Raynaud M, Van Bokhoven H, Chelly J, Ropers H, Chen W. Erratum to: Mutation screening in 86 known X-linked mental retardation genes by droplet-based multiplex PCR and massive parallel sequencing. Hugo J. 3(1-4), pp.83 (2009). |
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Baussand J, Carbone A*. A combinatorial approach to detect coevolved amino acid networks in protein families of variable divergence. PLoS Comput Biol. 5(9), pp.e1000488 (2009). |
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Sacquin-Mora S, Carbone A*, Lavery R. Identification of Protein Interaction Partners and Protein–Protein Interaction Sites. Journal of Molecular Biology. 382, pp.1276 - 1289 (2008). |
