Works by Varoquaux, Nelle

Results: 14

Holo‐omics disentangle drought response and biotic interactions among plant, endophyte and pathogen.

Published in:

New Phytologist, 2025, v. 246, n. 6, p. 2702, doi. 10.1111/nph.70155

By:

Chen, Peilin;
Yu, Qingyi;
Wang, Cong;
Montoya, Liliam;
West, Patrick T.;
Xu, Ling;
Varoquaux, Nelle;
Cole, Benjamin;
Hixson, Kim K.;
Kim, Young‐Mo;
Liu, Ling;
Zhang, Baodan;
Zhang, Jie;
Li, Baiyang;
Purdom, Elizabeth;
Vogel, John;
Jansson, Christer;
Hutmacher, Robert B.;
Dahlberg, Jeffery A.;
Coleman‐Derr, Devin

Publication type:

Article

Dynamics of the compartmentalized Streptomyces chromosome during metabolic differentiation.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25462-1

By:

Lioy, Virginia S.;
Lorenzi, Jean-Noël;
Najah, Soumaya;
Poinsignon, Thibault;
Leh, Hervé;
Saulnier, Corinne;
Aigle, Bertrand;
Lautru, Sylvie;
Thibessard, Annabelle;
Lespinet, Olivier;
Leblond, Pierre;
Jaszczyszyn, Yan;
Gorrichon, Kevin;
Varoquaux, Nelle;
Junier, Ivan;
Boccard, Frédéric;
Pernodet, Jean-Luc;
Bury-Moné, Stéphanie

Publication type:

Article

Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-23553-7

By:

Xu, Ling;
Dong, Zhaobin;
Chiniquy, Dawn;
Pierroz, Grady;
Deng, Siwen;
Gao, Cheng;
Diamond, Spencer;
Simmons, Tuesday;
Wipf, Heidi M.-L.;
Caddell, Daniel;
Varoquaux, Nelle;
Madera, Mary A.;
Hutmacher, Robert;
Deutschbauer, Adam;
Dahlberg, Jeffery A.;
Guerinot, Mary Lou;
Purdom, Elizabeth;
Banfield, Jillian F.;
Taylor, John W.;
Lemaux, Peggy G.

Publication type:

Article

Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression.

Published in:

Molecular Ecology, 2023, v. 32, n. 10, p. 2674, doi. 10.1111/mec.16343

By:

Gao, Cheng;
Courty, Pierre‐Emmanuel;
Varoquaux, Nelle;
Cole, Benjamin;
Montoya, Liliam;
Xu, Ling;
Purdom, Elizabeth;
Vogel, John;
Hutmacher, Robert B.;
Dahlberg, Jeffery A.;
Coleman‐Derr, Devin;
Lemaux, Peggy G.;
Taylor, John W.

Publication type:

Article

Community, Time, and (Con)text: A Dynamical Systems Analysis of Online Communication and Community Health among Open‐Source Software Communities.

Published in:

Cognitive Science, 2022, v. 46, n. 5, p. 1, doi. 10.1111/cogs.13134

By:

Paxton, Alexandra;
Varoquaux, Nelle;
Holdgraf, Chris;
Geiger, R. Stuart

Publication type:

Article

Cell Wall Compositions of Sorghum bicolor Leaves and Roots Remain Relatively Constant Under Drought Conditions.

Published in:

Frontiers in Plant Science, 2021, v. 12, p. 1, doi. 10.3389/fpls.2021.747225

By:

Scavuzzo-Duggan, Tess;
Varoquaux, Nelle;
Madera, Mary;
Vogel, John P.;
Dahlberg, Jeffery;
Hutmacher, Robert;
Belcher, Michael;
Ortega, Jasmine;
Coleman-Derr, Devin;
Lemaux, Peggy;
Purdom, Elizabeth;
Scheller, Henrik V.

Publication type:

Article

Effective normalization for copy number variation in Hi-C data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2256-5

By:

Servant, Nicolas;
Varoquaux, Nelle;
Heard, Edith;
Barillot, Emmanuel;
Vert, Jean-Philippe

Publication type:

Article

Diversification of Ubiquinone Biosynthesis via Gene Duplications, Transfers, Losses, and Parallel Evolution.

Published in:

Molecular Biology & Evolution, 2023, v. 40, n. 10, p. 1, doi. 10.1093/molbev/msad219

By:

Kazemzadeh, Katayoun;
Pelosi, Ludovic;
Chenal, Clothilde;
Chobert, Sophie-Carole;
Chehade, Mahmoud Hajj;
Jullien, Margaux;
Flandrin, Laura;
Schmitt, William;
He, Qiqi;
Bouvet, Emma;
Jarzynka, Manon;
Varoquaux, Nelle;
Junier, Ivan;
Pierrel, Fabien;
Abby, Sophie S

Publication type:

Article

A statistical approach for inferring the 3D structure of the genome.

Published in:

Bioinformatics, 2014, v. 30, n. 12, p. i26, doi. 10.1093/bioinformatics/btu268

By:

Varoquaux, Nelle;
Ay, Ferhat;
Noble, William Stafford;
Vert, Jean-Philippe

Publication type:

Article

Multiple dimensions of epigenetic gene regulation in the malaria parasite Plasmodium falciparum.

Published in:

BioEssays, 2015, v. 37, n. 2, p. 182, doi. 10.1002/bies.201400145

By:

Ay, Ferhat;
Bunnik, Evelien M.;
Varoquaux, Nelle;
Vert, Jean-Philippe;
Noble, William Stafford;
Le Roch, Karine G.

Publication type:

Article

Identifying multi-locus chromatin contacts in human cells using tethered multiple 3C.

Published in:

BMC Genomics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12864-015-1236-7

By:

Ay, Ferhat;
Vu, Thanh H.;
Zeitz, Michael J.;
Varoquaux, Nelle;
Carette, Jan E.;
Vert, Jean-Philippe;
Hoffman, Andrew R.;
Noble, William S.

Publication type:

Article

Accurate identification of centromere locations in yeast genomes using Hi-C.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 11, p. 5331, doi. 10.1093/nar/gkv424

By:

Varoquaux, Nelle;
Liachko, Ivan;
Ay, Ferhat;
Burton, Joshua N.;
Shendure, Jay;
Dunham, Maitreya J.;
Vert, Jean-Philippe;
Noble, William S.

Publication type:

Article

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing.

Published in:

Genome Biology, 2015, v. 18, p. 259, doi. 10.1186/s13059-015-0831-x

By:

Servant, Nicolas;
Varoquaux, Nelle;
Lajoie, Bryan R.;
Viara, Eric;
Chen, Chong-Jian;
Vert, Jean-Philippe;
Heard, Edith;
Dekker, Job;
Barillot, Emmanuel

Publication type:

Article

Unfolding the Genome: The Case Study of P. falciparum.

Published in:

International Journal of Biostatistics, 2019, v. 15, n. 2, p. N.PAG, doi. 10.1515/ijb-2017-0061

By:

Varoquaux, Nelle

Publication type:

Article