| Critical Assessment of Metagenome Interpretation: the second round of challenges F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ... Nature methods 19 (4), 429-440, 2022 | 367 | 2022 |
| Data structures based on k-mers for querying large collections of sequencing data sets C Marchet, C Boucher, SJ Puglisi, P Medvedev, M Salson, R Chikhi Genome Research, 2020 | 147 | 2020 |
| SNP calling from RNA-seq data without a reference genome: identification, quantification, differential analysis and impact on the protein sequence H Lopez-Maestre, L Brinza, C Marchet, J Kielbassa, S Bastien, ... Nucleic Acids Research 44 (19), e148-e148, 2016 | 108 | 2016 |
| REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets C Marchet, Z Iqbal, D Gautheret, M Salson, R Chikhi Bioinformatics 36 (Supplement_1), i177-i185, 2020 | 89 | 2020 |
| A survey of mapping algorithms in the long-reads era K Sahlin, T Baudeau, B Cazaux, C Marchet Genome Biology 24 (1), 133, 2023 | 77 | 2023 |
| CONSENT: Scalable self-correction of long reads with multiple sequence alignment P Morisse, C Marchet, A Limasset, T Lecroq, A Lefebvre | 71* | 2019 |
| BLight: efficient exact associative structure for k-mers C Marchet, M Kerbiriou, A Limasset Bioinformatics, 2021 | 60* | 2021 |
| Comparative assessment of long-read error correction software applied to Nanopore RNA-sequencing data L Lima, C Marchet, S Caboche, C Da Silva, B Istace, JM Aury, H Touzet, ... Briefings in Bioinformatics, 2019 | 52* | 2019 |
| Complementarity of assembly-first and mapping-first approaches for alternative splicing annotation and differential analysis from RNAseq data C Benoit-Pilven, C Marchet, E Chautard, L Lima, MP Lambert, ... Scientific reports 8 (1), 4307, 2018 | 52* | 2018 |
| De novo clustering of long reads by gene from transcriptomics data C Marchet, L Lecompte, CD Silva, C Cruaud, JM Aury, J Nicolas, ... Nucleic acids research 47 (1), e2-e2, 2019 | 41* | 2019 |
| A resource-frugal probabilistic dictionary and applications in bioinformatics C Marchet, L Lecompte, A Limasset, L Bittner, P Peterlongo Discrete Applied Mathematics 274, 92-102, 2020 | 34* | 2020 |
| Playing hide and seek with repeats in local and global de novo transcriptome assembly of short RNA-seq reads L Lima, B Sinaimeri, G Sacomoto, H Lopez-Maestre, C Marchet, V Miele, ... Algorithms for Molecular Biology 12 (1), 2, 2017 | 32* | 2017 |
| Scalable sequence database search using partitioned aggregated Bloom comb trees C Marchet, A Limasset Bioinformatics 39 (Supplement_1), i252-i259, 2023 | 30 | 2023 |
| A de novo approach to disentangle partner identity and function in holobiont systems A Meng, C Marchet, E Corre, P Peterlongo, A Alberti, C Da Silva, ... Microbiome 6 (1), 105, 2018 | 25 | 2018 |
| ELECTOR: Evaluator for long reads correction methods C Marchet, P Morisse, L Lecompte, A Lefebvre, T Lecroq, P Peterlongo, ... NAR Genomics and Bioinformatics 2 (1), lqz015, 2020 | 15 | 2020 |
| Conway–Bromage–Lyndon (CBL): an exact, dynamic representation of k-mer sets I Martayan, B Cazaux, A Limasset, C Marchet Bioinformatics 40 (Supplement_1), i48-i57, 2024 | 12 | 2024 |
| Transipedia. org: k-mer-based exploration of large RNA sequencing datasets and application to cancer data C Bessière, H Xue, B Guibert, A Boureux, F Rufflé, J Viot, R Chikhi, ... Genome Biology 25 (1), 266, 2024 | 11* | 2024 |
| Colib’read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads Y Le Bras, O Collin, C Monjeaud, V Lacroix, É Rivals, C Lemaitre, V Miele, ... GigaScience 5 (1), s13742-015-0105-2, 2016 | 10 | 2016 |
| Fractional hitting sets for efficient multiset sketching T Rouzé, I Martayan, C Marchet, A Limasset Algorithms for Molecular Biology 20 (1), 1, 2025 | 8 | 2025 |
| A strong internal promoter drives massive expression of YEATS‐domain devoid MLLT3 transcripts in HSC and most lethal AML C Bessière, A Zamani, R Pfeifer, S Dailhau, C Marchet, B Guibert, ... Cancer Communications 45 (3), 380, 2025 | 6 | 2025 |
Antoine LimassetCNRS, Université de Lille, Laboratoire CRIStAL, Equipe BonsaiVerified email at univ-lille.fr
