| Year |
Citation |
Score |
| 2023 |
Romashchenko N, Linard B, Pardi F, Rivals E. EPIK: precise and scalable evolutionary placement with informative k-mers. Bioinformatics (Oxford, England). 39. PMID 37975872 DOI: 10.1093/bioinformatics/btad692 |
0.3 |
|
| 2020 |
Linard B, Romashchenko N, Pardi F, Rivals E. PEWO: a collection of workflows to benchmark phylogenetic placement. Bioinformatics (Oxford, England). PMID 32697844 DOI: 10.1093/Bioinformatics/Btaa657 |
0.342 |
|
| 2019 |
Cazaux B, Lecroq T, Rivals E. Linking indexing data structures to de Bruijn graphs: Construction and update Journal of Computer and System Sciences. 104: 165-183. DOI: 10.1016/J.Jcss.2016.06.008 |
0.351 |
|
| 2018 |
Marschall T, Marz M, Abeel T, Dijkstra L, Dutilh BE, Ghaffaari A, Kersey P, Kloosterman WP, Makinen V, Novak AM, Paten B, Porubsky D, Rivals E, Alkan C, Baaijens JA, et al. Computational pan-genomics: status, promises and challenges. Briefings in Bioinformatics. 19: 118-135. PMID 27769991 DOI: 10.1093/Bib/Bbw089 |
0.47 |
|
| 2018 |
Cazaux B, Rivals E. Relationship between superstring and compression measures: New insights on the greedy conjecture Discrete Applied Mathematics. 245: 59-64. DOI: 10.1016/J.Dam.2017.04.017 |
0.364 |
|
| 2017 |
Argout X, Martin G, Droc G, Fouet O, Labadie K, Rivals E, Aury JM, Lanaud C. The cacao Criollo genome v2.0: an improved version of the genome for genetic and functional genomic studies. Bmc Genomics. 18: 730. PMID 28915793 DOI: 10.1186/S12864-017-4120-9 |
0.469 |
|
| 2017 |
Blanc-Mathieu R, Krasovec M, Hebrard M, Yau S, Desgranges E, Martin J, Schackwitz W, Kuo A, Salin G, Donnadieu C, Desdevises Y, Sanchez-Ferandin S, Moreau H, Rivals E, Grigoriev IV, et al. Population genomics of picophytoplankton unveils novel chromosome hypervariability. Science Advances. 3: e1700239. PMID 28695208 DOI: 10.1126/Sciadv.1700239 |
0.425 |
|
| 2017 |
Baaijens JA, El Aabidine AZ, Rivals E, Schönhuth A. De novo assembly of viral quasispecies using overlap graphs. Genome Research. PMID 28396522 DOI: 10.1101/Gr.215038.116 |
0.429 |
|
| 2017 |
Paulet D, David A, Rivals E. Ribo-seq enlightens codon usage bias. Dna Research : An International Journal For Rapid Publication of Reports On Genes and Genomes. PMID 28168289 DOI: 10.1093/Dnares/Dsw062 |
0.437 |
|
| 2016 |
Limasset A, Cazaux B, Rivals E, Peterlongo P. Read mapping on de Bruijn graphs. Bmc Bioinformatics. 17: 237. PMID 27306641 DOI: 10.1186/S12859-016-1103-9 |
0.449 |
|
| 2016 |
Salmela L, Walve R, Rivals E, Ukkonen E. Accurate self-correction of errors in long reads using de Bruijn graphs. Bioinformatics (Oxford, England). PMID 27273673 DOI: 10.1093/Bioinformatics/Btw321 |
0.426 |
|
| 2016 |
Le Bras Y, Collin O, Monjeaud C, Lacroix V, Rivals É, Lemaitre C, Miele V, Sacomoto G, Marchet C, Cazaux B, Zine El Aabidine A, Salmela L, Alves-Carvalho S, Andrieux A, Uricaru R, et al. Colib'read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads. Gigascience. 5: 9. PMID 26870323 DOI: 10.1186/S13742-015-0105-2 |
0.357 |
|
| 2016 |
Cazaux B, Rivals E. A linear time algorithm for Shortest Cyclic Cover of Strings Journal of Discrete Algorithms. 37: 56-67. DOI: 10.1016/J.Jda.2016.05.001 |
0.322 |
|
| 2015 |
Uricaru R, Michotey C, Chiapello H, Rivals E. YOC, A new strategy for pairwise alignment of collinear genomes. Bmc Bioinformatics. 16: 111. PMID 25885358 DOI: 10.1186/S12859-015-0530-3 |
0.473 |
|
| 2015 |
Keyser C, Hollard C, Gonzalez A, Fausser JL, Rivals E, Alexeev AN, Riberon A, Crubézy E, Ludes B. The ancient Yakuts: a population genetic enigma. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 370: 20130385. PMID 25487336 DOI: 10.1098/Rstb.2013.0385 |
0.327 |
|
| 2014 |
Blanc-Mathieu R, Verhelst B, Derelle E, Rombauts S, Bouget FY, Carré I, Château A, Eyre-Walker A, Grimsley N, Moreau H, Piégu B, Rivals E, Schackwitz W, Van de Peer Y, Piganeau G. An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies. Bmc Genomics. 15: 1103. PMID 25494611 DOI: 10.1186/1471-2164-15-1103 |
0.533 |
|
| 2014 |
Salmela L, Rivals E. LoRDEC: accurate and efficient long read error correction. Bioinformatics (Oxford, England). 30: 3506-14. PMID 25165095 DOI: 10.1093/Bioinformatics/Btu538 |
0.399 |
|
| 2014 |
Buard J, Rivals E, Dunoyer de Segonzac D, Garres C, Caminade P, de Massy B, Boursot P. Diversity of Prdm9 zinc finger array in wild mice unravels new facets of the evolutionary turnover of this coding minisatellite. Plos One. 9: e85021. PMID 24454780 DOI: 10.1371/Journal.Pone.0085021 |
0.413 |
|
| 2014 |
Philippe N, Bou Samra E, Boureux A, Mancheron A, Rufflé F, Bai Q, De Vos J, Rivals E, Commes T. Combining DGE and RNA-sequencing data to identify new polyA+ non-coding transcripts in the human genome. Nucleic Acids Research. 42: 2820-32. PMID 24357408 DOI: 10.1093/Nar/Gkt1300 |
0.759 |
|
| 2014 |
Cazaux B, Rivals E. Reverse engineering of compact suffix trees and links: A novel algorithm Journal of Discrete Algorithms. 28: 9-22. DOI: 10.1016/J.Jda.2014.07.002 |
0.326 |
|
| 2013 |
Philippe N, Salson M, Commes T, Rivals E. CRAC: an integrated approach to the analysis of RNA-seq reads. Genome Biology. 14: R30. PMID 23537109 DOI: 10.1186/Gb-2013-14-3-R30 |
0.724 |
|
| 2012 |
Philippe N, Salson M, Commes T, Rivals E. A combinatorial and integrated method to analyse RNA-seq reads Embnet.Journal. 17: 11. DOI: 10.14806/Ej.17.B.290 |
0.768 |
|
| 2012 |
Philippe N, Ruffle F, Bou-Samra E, Boureux A, Commes T, Rivals E. Digital gene expression data, cross-species conservation and noncoding RNA Embnet.Journal. 17: 32. DOI: 10.14806/Ej.17.B.288 |
0.756 |
|
| 2011 |
Uricaru R, Mancheron A, Rivals E. Novel definition and algorithm for chaining fragments with proportional overlaps. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 18: 1141-54. PMID 21899421 DOI: 10.1089/Cmb.2011.0126 |
0.409 |
|
| 2011 |
Shao ZJ, Rivals E, Zhao N, Lek S, Chang J, Berrebi P. Evolutionary process of a tetranucleotide microsatellite locus in Acipenseriformes. Journal of Genetics. 90: 217-27. PMID 21869470 DOI: 10.1007/S12041-011-0055-0 |
0.405 |
|
| 2011 |
Cayrou C, Coulombe P, Vigneron A, Stanojcic S, Ganier O, Peiffer I, Rivals E, Puy A, Laurent-Chabalier S, Desprat R, Méchali M. Genome-scale analysis of metazoan replication origins reveals their organization in specific but flexible sites defined by conserved features. Genome Research. 21: 1438-49. PMID 21750104 DOI: 10.1101/Gr.121830.111 |
0.408 |
|
| 2011 |
Philippe N, Salson M, Lecroq T, Léonard M, Commes T, Rivals E. Querying large read collections in main memory: a versatile data structure. Bmc Bioinformatics. 12: 242. PMID 21682852 DOI: 10.1186/1471-2105-12-242 |
0.759 |
|
| 2011 |
Mancheron A, Uricaru R, Rivals E. An alternative approach to multiple genome comparison. Nucleic Acids Research. 39: e101. PMID 21646341 DOI: 10.1093/Nar/Gkr177 |
0.483 |
|
| 2010 |
Leclercq S, Rivals E, Jarne P. DNA slippage occurs at microsatellite loci without minimal threshold length in humans: a comparative genomic approach. Genome Biology and Evolution. 2: 325-35. PMID 20624737 DOI: 10.1093/Gbe/Evq023 |
0.699 |
|
| 2010 |
Hernandez Mora JR, Rivals E, Mireau H, Budar F. Sequence analysis of two alleles reveals that intra-and intergenic recombination played a role in the evolution of the radish fertility restorer (Rfo). Bmc Plant Biology. 10: 35. PMID 20178653 DOI: 10.1186/1471-2229-10-35 |
0.365 |
|
| 2010 |
Philippe N, Ruffle F, Bou-Samra, Boureux, Commes T, Rivals E. R76: Séquençage d’ARN, conservation et ARN non codants Bulletin Du Cancer. 97. DOI: 10.1016/S0007-4551(15)30993-0 |
0.661 |
|
| 2009 |
Philippe N, Boureux A, Bréhélin L, Tarhio J, Commes T, Rivals E. Using reads to annotate the genome: influence of length, background distribution, and sequence errors on prediction capacity. Nucleic Acids Research. 37: e104. PMID 19531739 DOI: 10.1093/Nar/Gkp492 |
0.768 |
|
| 2007 |
Rivals E, Boureux A, Lejeune M, Ottones F, Pérez OP, Tarhio J, Pierrat F, Ruffle F, Commes T, Marti J. Transcriptome annotation using tandem SAGE tags. Nucleic Acids Research. 35: e108. PMID 17709346 DOI: 10.1093/Nar/Gkm495 |
0.543 |
|
| 2007 |
Bonhomme F, Rivals E, Orth A, Grant GR, Jeffreys AJ, Bois PR. Species-wide distribution of highly polymorphic minisatellite markers suggests past and present genetic exchanges among house mouse subspecies. Genome Biology. 8: R80. PMID 17501990 DOI: 10.1186/Gb-2007-8-5-R80 |
0.356 |
|
| 2007 |
Leclercq S, Rivals E, Jarne P. Detecting microsatellites within genomes: significant variation among algorithms. Bmc Bioinformatics. 8: 125. PMID 17442102 DOI: 10.1186/1471-2105-8-125 |
0.707 |
|
| 2007 |
Nicolas F, Rivals E. Longest common subsequence problem for unoriented and cyclic strings Theoretical Computer Science. 370: 1-18. DOI: 10.1016/J.Tcs.2006.10.002 |
0.404 |
|
| 2006 |
Bérard S, Nicolas F, Buard J, Gascuel O, Rivals E. A fast and specific alignment method for minisatellite maps. Evolutionary Bioinformatics Online. 2: 303-20. PMID 19455224 DOI: 10.4137/Ebo.S0 |
0.367 |
|
| 2006 |
Rivals E, Bruyère C, Toffano-Nioche C, Lecharny A. Formation of the Arabidopsis pentatricopeptide repeat family. Plant Physiology. 141: 825-39. PMID 16825340 DOI: 10.1104/Pp.106.077826 |
0.351 |
|
| 2004 |
Delgrange O, Rivals E. STAR: an algorithm to Search for Tandem Approximate Repeats. Bioinformatics (Oxford, England). 20: 2812-20. PMID 15180940 DOI: 10.1093/Bioinformatics/Bth335 |
0.474 |
|
| 2004 |
RIVALS E. A SURVEY ON ALGORITHMIC ASPECTS OF TANDEM REPEATS EVOLUTION International Journal of Foundations of Computer Science. 15: 225-257. DOI: 10.1142/S012905410400239X |
0.467 |
|
| 2003 |
Bérard S, Rivals E. Comparison of minisatellites. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 10: 357-72. PMID 12935333 DOI: 10.1089/10665270360688066 |
0.437 |
|
| 2000 |
Haas SA, Beissbarth T, Rivals E, Krause A, Vingron M. GeneNest: Automated generation and visualization of gene indices Trends in Genetics. 16: 521-523. PMID 12199289 DOI: 10.1016/S0168-9525(00)02116-8 |
0.374 |
|
| 1999 |
Varré JS, Delahaye JP, Rivals E. Transformation distances: a family of dissimilarity measures based on movements of segments. Bioinformatics (Oxford, England). 15: 194-202. PMID 10222406 DOI: 10.1093/bioinformatics/15.3.194 |
0.332 |
|
| 1998 |
Bornberg-Bauer E, Rivals E, Vingron M. Computational approaches to identify leucine zippers. Nucleic Acids Research. 26: 2740-6. PMID 9592163 DOI: 10.1093/Nar/26.11.2740 |
0.382 |
|
| 1997 |
Rivals E, Delgrange O, Delahaye JP, Dauchet M, Delorme MO, Hénaut A, Ollivier E. Detection of significant patterns by compression algorithms: the case of approximate tandem repeats in DNA sequences. Computer Applications in the Biosciences : Cabios. 13: 131-6. PMID 9146959 DOI: 10.1093/Bioinformatics/13.2.131 |
0.439 |
|
| 1997 |
Rivals E, Dauchet M, Delahaye JP, Delgrange O. Compression and genetic sequence analysis. Biochimie. 78: 315-22. PMID 8905150 DOI: 10.1016/0300-9084(96)84763-8 |
0.378 |
|
| 1997 |
Rivals É, Delahaye J, Dauchet M, Delgrange O. Fast Discerning Repeats in DNA Sequences with a Compression Algorithm Genome Informatics. 8: 215-226. DOI: 10.11234/Gi1990.8.215 |
0.364 |
|
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