| HiC-Pro: an optimized and flexible pipeline for Hi-C data processing N Servant, N Varoquaux, BR Lajoie, E Viara, CJ Chen, JP Vert, E Heard, ... Genome Biology 16 (1), 1-11, 2015 | 1901 | 2015 |
| A community effort to assess and improve drug sensitivity prediction algorithms JC Costello, LM Heiser, E Georgii, M Gönen, MP Menden, NJ Wang, ... Nature biotechnology 32 (12), 1202, 2014 | 786 | 2014 |
| A statistical approach for inferring the 3D structure of the genome N Varoquaux, F Ay, WS Noble, JP Vert Bioinformatics 30 (12), i26-i33, 2014 | 283 | 2014 |
| Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression F Ay, EM Bunnik, N Varoquaux, SM Bol, J Prudhomme, JP Vert, WS Noble, ... Genome research 24 (6), 974-988, 2014 | 248 | 2014 |
| Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses N Varoquaux, B Cole, C Gao, G Pierroz, CR Baker, D Patel, M Madera, ... Proceedings of the National Academy of Sciences 116 (52), 27124-27132, 2019 | 164 | 2019 |
| Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics L Xu, Z Dong, D Chiniquy, G Pierroz, S Deng, C Gao, S Diamond, ... Nature communications 12 (1), 3209, 2021 | 146 | 2021 |
| Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages EM Bunnik, KB Cook, N Varoquaux, G Batugedara, J Prudhomme, L Shi, ... Nature Communications, 2018 | 111 | 2018 |
| Multiple dimensions of epigenetic gene regulation in the malaria parasite Plasmodium falciparum F Ay, EM Bunnik, N Varoquaux, JP Vert, WS Noble, KG Le Roch Bioessays 36 (2014), 0000-0000, 2014 | 78* | 2014 |
| Accurate identification of centromere locations in yeast genomes using Hi-C N Varoquaux, I Liachko, F Ay, JN Burton, J Shendure, MJ Dunham, ... Nucleic acids research 43 (11), 5331-5339, 2015 | 73 | 2015 |
| Identifying multi-locus chromatin contacts in human cells using tethered multiple 3C F Ay, TH Vu, MJ Zeitz, N Varoquaux, JE Carette, JP Vert, AR Hoffman, ... BMC genomics 16 (1), 121, 2015 | 60 | 2015 |
| Dynamics of the compartmentalized Streptomyces chromosome during metabolic differentiation VS Lioy, JN Lorenzi, S Najah, T Poinsignon, H Leh, C Saulnier, B Aigle, ... Nature communications 12 (1), 5221, 2021 | 46 | 2021 |
| The Types, Roles, and Practices of Documentation in Data Analytics Open Source Software Libraries RS Geiger, N Varoquaux, C Mazel-Cabasse, C Holdgraf Computer Supported Cooperative Work (CSCW) 27 (3-6), 767-802, 2018 | 44 | 2018 |
| Effective normalization for copy number variation in Hi-C data N Servant, N Varoquaux, E Heard, JP Vert, E Barillot | 41 | 2017 |
| Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression C Gao, PE Courty, N Varoquaux, B Cole, L Montoya, L Xu, E Purdom, ... Molecular ecology, 2022 | 18 | 2022 |
| Inferring diploid 3D chromatin structures from Hi-C data AG Cauer, G Yardimci, JP Vert, N Varoquaux, WS Noble 19th International Workshop on Algorithms in Bioinformatics (WABI 2019), 2019 | 17 | 2019 |
| Inference of genome 3D architecture by modeling overdispersion of Hi-C data N Varoquaux, WS Noble, JP Vert Bioinformatics, 2023 | 10 | 2023 |
| Cell Wall Compositions of Sorghum bicolor Leaves and Roots Remain Relatively Constant Under Drought Conditions T Scavuzzo-Duggan, N Varoquaux, M Madera, JP Vogel, J Dahlberg, ... Frontiers in plant science 12, 747225, 2021 | 7 | 2021 |
| Unveiling the links between peptide identification and differential analysis FDR controls by means of a practical introduction to knockoff filters L Etourneau, N Varoquaux, T Burger Statistical Analysis of Proteomic Data, 1-24, 2023 | 6 | 2023 |
| A pipeline to analyse time-course gene expression data N Varoquaux, E Purdom F1000Research 9, 1447, 2020 | 6 | 2020 |
| Community, Time, and (Con) text: A Dynamical Systems Analysis of Online Communication and Community Health among Open‐Source Software Communities A Paxton, N Varoquaux, C Holdgraf, RS Geiger Cognitive Science 46 (5), e13134, 2022 | 4 | 2022 |
Jean-Philippe VertOwkin / PSL UniversityVerified email at owkin.com
