Bernard C., Postic G., Ghannay S., Tahi F.RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model qualitybioRxiv 2023.11.14.567018 https://doi.org/10.1101/2023.11.14.567018
Postic G., Tav C., Platon L., Zehraoui F., Tahi F.IRSOM2: a web server for predicting bifunctional RNAs. Nucleic Acids Research. 2023. doi:10.1093/nar/gkad381
Ibéné M, Legendre A, Postic G, Angel E, Tahi F.C-RCPred: a multi-objective algorithm for interactive secondary structure prediction of RNA complexes integrating user knowledge and SHAPE data. Brief Bioinform. 2023. Jul 20;24(4):bbad225 10.1093/bib/bbad225
L. Becquey, E. Angel, and F. Tahi.RNANet: an automatically built dual-source dataset integrating homologous sequences and RNA structuresBioinformatics. 2020. https://doi.org/10.1093/bioinformatics/btaa944
L. Becquey, E. Angel, and F. Tahi.BiORSEO: A bi-objective method to predict RNA secondary structures with pseudoknots using RNA 3D modules.Bioinformatics. 2020. doi:10.1093/bioinformatics/btz962
A. Legendre, E. Angel, and F. Tahi.RCPred : RNA complex prediction as a constrained maximum weight clique problem.BMC Bioinformatics. 2018. doi:10.1186/s12859-019-2648-1
L. Platon, F. Zehraoui, A. Bendahmane, and F. Tahi.IRSOM, a reliable identifier of ncRNAs based on supervised self-organizing maps with rejection.Bioinformatics 2018; 34(17):i620-i628. doi:10.1093/bioinformatics/bty572
A. Legendre, E. Angel, and F. Tahi.Bi-objective integer programming for RNA secondary structure prediction with pseudoknots.BMC Bioinformatics 2018; 19(1), 13. doi:10.1186/s12859-018-2007-7
A. Boucheham, V. Sommard, F. Zehraoui, A. Boualem, M. Batouche, A. Bendahmane, D. Israeli and F. Tahi.IpiRId: Integrative approach for piRNA prediction using genomic and epigenomic data.PloS one 2017; 12(6), e0179787. doi:10.1371/journal.pone.0179787
J. Brayet, F. Zehraoui, L. Jeanson-Leh, D. Israeli, and F. Tahi.Towards a piRNA prediction using multiple kernel fusion and support vector machine.Bioinformatics 30(17):i364-70. 2014. doi:10.1093/bioinformatics/btu441
V.D. Tran, S. Tempel, B. Zerath, F. Zehraoui, and F. Tahi.miRBoost: Boosting support vector machines for microRNA precursor classification.RNA 21:25. 2015. doi:10.1261/rna.043612.113
V.D. Tran, B. Zerath, S. Tempel, F. Zehraoui, and F. Tahi.BoostSVM: A miRNA classifier with high accuracy using boosting SVM.JOBIM pp. 259-266. 2012.
S. Tempel, N. Pollet, and F. Tahi.ncRNAclassifier: a tool for detection and classification of transposable element sequences in RNA hairpins.BMC Bioinformatics 13:246, 2012. doi:10.1186/1471-2105-13-246
C. Tav, S. Tempel, L. Poligny and F. Tahi.miRNAFold: a web server for fast miRNA precursor prediction in genomes.Nucleic Acids Res 44(W1): W181-W184. 2016. doi:10.1093/nar/gkw459
S. Tempel and F. Tahi.A fast ab-initio method for predicting miRNA precursors in genomes.Nucleic Acids Res 40(11):e80. 2012. doi:10.1093/nar/gks146
S. Engelen and F. Tahi.Tfold: efficient in silico prediction of non-coding RNA secondary structures.Nucleic Acids Res 38(7):2453-66. 2010. doi:10.1093/nar/gkp1067
S. Engelen and F. Tahi.Predicting RNA secondary structure by the comparative approach: how to select the homologous sequences.BMC Bioinformatics 8:464. 2007. doi:10.1186/1471-2105-8-464
S. Engelen and F. Tahi.An Open Problem in RNA Secondary Structure Prediction by the Comparative Approach.International MultiConference in Computer Science and Computer Engineering (METMBS'04), Las Vegas, USA. 2004.
F. Tahi, S. Engelen, and M. Régnier.P-DCFold or How to Predict all Kinds of Pseudoknots in Rna Secondary Structures.International Journal on Artificial Intelligence Tools 14(5):703-716. 2005. doi:10.1142/S021821300500234X
F. Tahi, S. Engelen, and M. Régnier.A fast algorithm for RNA secondary structure prediction including pseudoknots.Third IEEE Symposium on BioInformatics and BioEngineering (BIBE'03) pp. 11. 2003. doi:10.1109/BIBE.2003.1188924
F. Tahi, M. Gouy, and M. Régnier.Automatic RNA Secondary Structure Prediction with a Comparative Approach.Computers and Chemistry 26:521-530. 2002. doi:10.1016/S0097-8485(02)00012-8
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