Nelle Varoquaux
Nelle Varoquaux
CNRS, Université Grenoble Alpes
Verified email at univ-grenoble-alpes.fr - Homepage
Title
Cited by
Cited by
Year
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
6902015
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
5262014
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
1972014
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
1892014
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
59*2014
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
442018
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
422015
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
402015
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
382019
Effective normalization for copy number variation in Hi-C data
N Servant, N Varoquaux, E Heard, JP Vert, E Barillot
202017
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
142018
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
72019
iced: fast and memory efficient normalization of contact maps
N Varoquaux, N Servant
Journal of Open Source Software 4 (36), 1286, 2019
22019
Challenges of Doing Data-Intensive Research in Teams, Labs, and Groups: Report from the BIDS Best Practices in Data Science Series
RS Geiger, D Sholler, A Culich, C Martinez, FH de la Guardia, F Lanusse, ...
SocArXiv, 2018
12018
Challenges of Doing Data-Intensive Research in Teams, Labs, and Groups: Report from the BIDS Best Practices in Data Science Series
RS Geiger, D Sholler, A Culich, C Martinez, FH de la Guardia, F Lanusse, ...
SocArXiv, 2018
12018
Measuring Cluster Stability for Bayesian Nonparametrics Using the Linear Bootstrap
R Giordano, R Liu, N Varoquaux, MI Jordan, T Broderick
NIPS 2017 Advances in Approximate Bayesian Inference Workshop, 2017
12017
Proceedings of the 7th European Conference on Python in Science (EuroSciPy 2014)
P de Buyl, N Varoquaux
arXiv preprint arXiv:1412.7030, 2014
12014
MarkUs: An Open-Source Web Application to Annotate Student Papers On-Line
M Magnin, G Moreau, N Varoquaux, B Vialle, K Reid, M Conley, ...
ASME 2012 11th Biennial Conference on Engineering Systems Design and …, 2013
12013
Proceedings of the 6th European Conference on Python in Science (EuroSciPy 2013)
P de Buyl, N Varoquaux
arXiv preprint arXiv:1405.0166, 2013
12013
Inference of genome 3D architecture by modeling overdispersion of Hi-C data
N Varoquaux, WS Noble, JP Vert
bioRxiv, 2021
2021
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Articles 1–20