| Computer vision for pattern detection in chromosome contact maps C Matthey-Doret, L Baudry, A Breuer, R Montagne, N Guiglielmoni, ... Nature Communications 11 (1), 1-11, 2020 | 99 | 2020 |
| instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder L Baudry, N Guiglielmoni, H Marie-Nelly, A Cormier, M Marbouty, K Avia, ... Genome Biology 21 (1), 1-22, 2020 | 58 | 2020 |
| Chromosome-level genome assembly reveals homologous chromosomes and recombination in asexual rotifer Adineta vaga P Simion, J Narayan, A Houtain, A Derzelle, L Baudry, E Nicolas, R Arora, ... Science Advances 7 (41), eabg4216, 2021 | 56* | 2021 |
| Overcoming uncollapsed haplotypes in long-read assemblies of non-model organisms N Guiglielmoni, A Houtain, A Derzelle, K Van Doninck, JF Flot BMC Bioinformatics, 2021 | 50 | 2021 |
| Comparative analysis of the Mercenaria mercenaria genome provides insights into the diversity of transposable elements and immune molecules in bivalve mollusks S Farhat, E Bonnivard, E Pales Espinosa, A Tanguy, I Boutet, ... BMC Genomics 23 (1), 1-23, 2022 | 29 | 2022 |
| hicstuff: Simple library/pipeline to generate and handle Hi-C data C Matthey-Doret, L Baudry, A Bignaud, A Cournac, R Montagne, ... Zenodo, 2020 | 20* | 2020 |
| Chromosomal assembly of the flat oyster (Ostrea edulis L.) genome as a new genetic resource for aquaculture I Boutet, HJ Alves Monteiro, L Baudry, T Takeuchi, E Bonnivard, B Billoud, ... Evolutionary Applications 15 (11), 1730-1748, 2022 | 19 | 2022 |
| The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomics AM Mc Cartney, G Formenti, A Mouton, D De Panis, LS Marins, HG Leitão, ... npj Biodiversity 3 (1), 28, 2024 | 18 | 2024 |
| Pulmonate slug evolution is reflected in the de novo genome of Arion vulgaris Moquin-Tandon, 1855 Z Chen, Ö Doğan, N Guiglielmoni, A Guichard, M Schrödl Scientific Reports 12 (1), 1-16, 2022 | 17* | 2022 |
| The genome of the reef-building glass sponge Aphrocallistes vastus provides insights into silica biomineralization WR Francis, M Eitel, S Vargas, CA Garcia-Escudero, N Conci, F Deister, ... Royal Society Open Science 10 (6), 230423, 2023 | 11 | 2023 |
| Comparative genome analysis of Vagococcus fluvialis reveals abundance of mobile genetic elements in sponge-isolated strains A Rodriguez Jimenez, N Guiglielmoni, L Goetghebuer, E Dechamps, ... BMC Genomics 23 (1), 1-16, 2022 | 8 | 2022 |
| A deep dive into genome assemblies of non-vertebrate animals N Guiglielmoni, R Rivera-Vicéns, R Koszul, JF Flot Peer Community Journal 2, 2022 | 8 | 2022 |
| The genome sequence of the Montseny horsehair worm, Gordionus montsenyensis sp. nov., a key resource to investigate Ecdysozoa evolution K Eleftheriadi, N Guiglielmoni, J Salces-Ortiz, C Vargas-Chavez, ... Peer Community Journal 4, 2024 | 6 | 2024 |
| Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction KH Stankiewicz, N Guiglielmoni, SA Kitchen, JF Flot, KL Barott, ... Biorxiv, 2023.09. 22.558704, 2023 | 6 | 2023 |
| Chromosome-level genome assembly and annotation of two lineages of the ant Cataglyphis hispanica: steppingstones towards genomic studies of hybridogenesis and thermal … H Darras, N de Souza Araujo, L Baudry, N Guiglielmoni, P Lorite, ... Peer Community Journal 2, 2022 | 6* | 2022 |
| GraphUnzip: unzipping assembly graphs with long reads and Hi-C R Faure, N Guiglielmoni, JF Flot JOBIM 2021 - Journées Ouvertes en Biologie, Informatique et Mathématiques, 2021 | 6 | 2021 |
| Meet-U: educating through research immersion N Abdollahi, A Albani, E Anthony, A Baud, M Cardon, R Clerc, ... PLoS computational biology 14 (3), e1005992, 2018 | 6 | 2018 |
| An episodic burst of massive genomic rearrangements and the origin of non-marine annelids C Vargas-Chávez, L Benítez-Álvarez, GI Martínez-Redondo, ... bioRxiv, 2024.05. 16.594344, 2024 | 5 | 2024 |
| Revisiting genomes of non-model species with long reads yields new insights into their biology and evolution N Guiglielmoni, L Villegas, J Kirangwa, P Schiffer Frontiers in Genetics 15, 2024 | 4 | 2024 |
| High quality genome assembly and annotation (v1) of the eukaryotic terrestrial microalga Coccomyxa viridis SAG 216-4 A Kraege, EA Chavarro-Carrero, N Guiglielmoni, E Schnell, J Kirangwa, ... Peer Community Journal 4, 2024 | 2 | 2024 |