@misc{peyrouset2025cluster,title={Cluster Size Matters: A Comparative Study of Notip and pARI for Post Hoc Inference in fMRI},author={Peyrouset, Nils and Neuvial, Pierre and Thirion, Bertrand},year={2025},hal_id={hal-05345389},category={submitted},note={submitted}}
A principled approach for comparing Variable Importance
@misc{reyerolobo2025principled,title={A principled approach for comparing Variable Importance},author={Reyero-Lobo, Angel and Neuvial, Pierre and Thirion, Bertrand},year={2025},primaryclass={stat.ME},category={submitted},note={submitted}}
@misc{bontemps:posir,title={{Inference post region selection}},author={Bontemps, Dominique and Bachoc, François and Neuvial, Pierre},url={https://hal.science/hal-05109459},note={submitted},year={2025},month=jun,hal_id={hal-05109459},category={submitted}}
When Knockoffs fail: diagnosing and fixing non-exchangeability of Knockoffs
@misc{blain:knockoffs,title={When Knockoffs fail: diagnosing and fixing non-exchangeability of Knockoffs},author={Blain, Alexandre and Reyero Lobo, Angel and Linhart, Julia and Thirion, Bertrand and Neuvial, Pierre},year={2025},doi={10.48550/arXiv.2407.06892},hal_id={hal-04642238},category={submitted},note={submitted}}
@misc{gonzalez-delgado2023pci-dep,title={Post-clustering Inference under Dependency},author={González-Delgado, Javier and Deronzier, Mathis and Cortés, Juan and Neuvial, Pierre},year={2025},month=aug,hal_id={hal-04250364},doi={10.48550/arXiv.2310.11822},category={submitted},note={submitted}}
@inproceedings{reyerolobo2026semiko,title={{Semi-knockoffs: a model-agnostic Conditional Independence Testing method with finite-sample guarantees}},author={Reyero-Lobo, Angel and Thirion, Bertrand and Neuvial, Pierre},url={https://hal.science/hal-05681965},booktitle={{International Conference on Machine Learning}},address={Seoul, South Korea},year={2026},keywords={Conditional randomization test ; Knockoffs ; Conditional independence testing},hal_id={hal-05681965},}
@inproceedings{blain2025fcp,title={{False Coverage Proportion Control for Conformal Prediction}},author={Blain, Alexandre and Thirion, Bertrand and Neuvial, Pierre},url={https://hal.science/hal-05134749},booktitle={{International Conference on Machine Learning}},address={Vancouver (BC), Canada},year={2025},hal_id={hal-05134749},}
@inproceedings{blain2023kopi,title={False Discovery Proportion control for aggregated Knockoffs},author={Blain, Alexandre and Thirion, Bertrand and Grisel, Olivier and Neuvial, Pierre},year={2023},booktitle={{NeurIPS}},hal_id={hal-04250621v1},}
Journal papers
RSOS
Overcoming barriers to computational reproducibility
Roman Hornung, László Németh, Oleksandr Zadorozhnyi, Theresa Ullmann, Michael Kammer, Rebecca Killick, Christopher Paciorek, Julien Chiquet, Moritz Herrmann, Lucija Batinović, and
6 more authors
@article{hornung26reproducibility,title={{Overcoming barriers to computational reproducibility}},author={Hornung, Roman and N{\'e}meth, L{\'a}szl{\'o} and Zadorozhnyi, Oleksandr and Ullmann, Theresa and Kammer, Michael and Killick, Rebecca and Paciorek, Christopher and Chiquet, Julien and Herrmann, Moritz and Batinovi{\'c}, Lucija and Carlsson, Rickard and Neuvial, Pierre and Hejblum, Boris and Wrobel, Julia and Boulesteix, Anne-Laure and Tabelow, Karsten},url={https://royalsocietypublishing.org/rsos/article/13/6/252489/482007/Overcoming-barriers-to-computational},journal={{Royal Society Open Science}},publisher={{The Royal Society}},volume={13},number={6},year={2026},month=jun,doi={10.1098/rsos.252489},hal_id={hal-05642924},}
@article{enjalbert-courrech25review,title={Review of post-clustering inference methods},author={Enjalbert Courrech, Nicolas and Maugis-Rabusseau, Cathy and Neuvial, Pierre},journal={International Statistical Review},url={https://hal.science/hal-05053220},year={2025},hal_id={hal-05053220},}
@article{gonzalez-delgado2025statistical,title={The dependence of the amino acid backbone conformation on the translated synonymous codon is not statistically significant},author={González-Delgado, Javier and Mier, Pablo and Bernado, Pau and Neuvial, Pierre and Cortés, Juan},journal={Proceedings of the National Academy of Sciences},volume={122},number={24},pages={e2503264122},year={2025},doi={10.1073/pnas.2503264122},url={https://www.pnas.org/doi/abs/10.1073/pnas.2503264122},hal_id={hal-05113237},}
@article{bachoc2025selective,title={Selective inference after convex clustering with l1 penalization},author={Bachoc, François and Maugis-Rabusseau, Cathy and Neuvial, Pierre},year={2025},journal={ESAIM Probability and Statistics},doi={10.1051/ps/2025004},volume={29},pages={204 - 242},hal_id={hal-04200062},}
@article{davenport2025fdp,author={Davenport, Samuel and Thirion, Bertrand and Neuvial, Pierre},title={FDP control in mass-univariate linear models using the residual bootstrap},journal={Electron. J. Statist.},fjournal={Electronic Journal of Statistics},year={2025},volume={19},number={1},pages={1313-1336},issn={1935-7524},doi={10.1214/25-EJS2354},hal_id={hal-05002607},}
BIB
A comprehensive review and benchmark of differential analysis tools for Hi-C data
@article{jorge2025review,author={Jorge, \'Elise and Foissac, Sylvain and Neuvial, Pierre and Zytnicki, Matthias and Vialaneix, Nathalie},title={A comprehensive review and benchmark of differential analysis tools for {Hi-C} data},journal={Briefings in Bioinformatics},year={2025},volume={26},number={2},pages={bbaf074},doi={10.1093/bib/bbaf074},hal_id={hal-04989132},}
@article{gonzalez-delgado:wario,title={{Weighted families of contact maps to characterize conformational ensembles of (highly-)flexible proteins}},author={Gonz{\'a}lez-Delgado, Javier and Bernad{\'o}, Pau and Neuvial, Pierre and Cort{\'e}s, Juan},journal={{Bioinformatics}},url={https://academic.oup.com/bioinformatics/article/40/11/btae627/7829149},publisher={{Oxford University Press (OUP)}},volume={40},number={11},pages={btae627},year={2024},month=oct,doi={10.1093/bioinformatics/btae627},hal_id={hal-04749226},}
@article{neuvial2024two-sample,author={Neuvial, Pierre and Randriamihamison, Nathana\"el and Chavent, Marie and Foissac, Sylvain and Vialaneix, Nathalie},title={A two-sample tree-based test for hierarchically organized genomic signals},journal={Journal of the Royal Statistical Society, Series C},year={2024},doi={10.1093/jrsssc/qlae011},hal_id={hal-04516167}}
@article{perrot-dockes2023selective,title={Selective Inference for False Discovery Proportion in a Hidden Markov Model},author={Perrot-Dockès, Marie and Blanchard, Gilles and Neuvial, Pierre and Roquain, Etienne},journal={TEST},year={2023},hal_id={hal-03214472},volume={32},pages={1365--1391},doi={10.1007/s11749-023-00886-7},}
@article{gonzalez2023two-sample,title={Two-sample goodness-of-fit tests on the flat torus based on Wasserstein distance and their relevance to structural biology},journal={Electronic journal of Statistics},author={González-Delgado, Javier and González-Sanz, Alberto and Cortés, Juan and Neuvial, Pierre},year={2023},volume={17},issue={1},pages={1547–1586},doi={10.1214/23-EJS2135},hal_id={hal-03369795v2},url={https://hal.archives-ouvertes.fr/hal-03369795v2},}
@article{gonzales2023wasco,title={WASCO: A Wasserstein-based statistical tool to compare conformational ensembles of intrinsically disordered proteins},journal={Journal of Molecular Biology},pages={168053},year={2023},issn={0022-2836},doi={https://doi.org/10.1016/j.jmb.2023.168053},url={https://www.sciencedirect.com/science/article/pii/S0022283623001092},author={González-Delgado, Javier and Sagar, Amin and Zanon, Christophe and Lindorff-Larsen, Kresten and Bernadó, Pau and Neuvial, Pierre and Cortés, Juan},hal_id={hal-04056662},}
@article{gonzalez2022statistical,title={Statistical proofs of the interdependence between nearest neighbor effects on polypeptide backbone conformations},author={González-Delgado, Javier and Bernadó, Pau and Neuvial, Pierre and Cortés, Juan},journal={Journal of Structural Biology},volume={214},number={4},pages={107907},year={2022},hal_id={hal-03826233},}
@article{enjalbert-courrech2022powerful,title={{Powerful and interpretable control of false discoveries in differential expression studies}},author={Enjalbert Courrech, Nicolas and Neuvial, Pierre},journal={Bioinformatics},volume={38},number={23},pages={5214--5221},year={2022},doi={10.1093/bioinformatics/btac693},url={https://hal.archives-ouvertes.fr/hal-03601095},hal_id={hal-03601095},}
@article{blain22notip,title={{Notip: Non-parametric True Discovery Proportion control for brain imaging}},author={Blain, Alexandre and Thirion, Bertrand and Neuvial, Pierre},journal={Neuroimage},url={https://doi.org/10.1016/j.neuroimage.2022.119492},year={2022},volume={260},month=oct,hal_id={hal-03649114},}
@article{champion21identification,title={{Identification of Deregulated Mechanisms Specific to Bladder Cancer Subtypes}},author={Champion, Magali and Chiquet, Julien and Neuvial, Pierre and Elati, Mohamed and Radvanyi, Fran{\c c}ois and Birmel{\'e}, Etienne E.},url={https://hal.archives-ouvertes.fr/hal-03079966},journal={{Journal of Bioinformatics and Computational Biology}},publisher={{World Scientific Publishing}},volume={19},number={1},pages={2140003},year={2021},doi={10.1142/S0219720021400035},hal_id={hal-03079966},hal_version={v1},}
@article{randriamihamison21chac,title={{Applicability and Interpretability of Ward Hierarchical Agglomerative Clustering With or Without Contiguity Constraints}},author={Randriamihamison, Nathana{\"e}l and Vialaneix, Nathalie and Neuvial, Pierre},url={https://hal.archives-ouvertes.fr/hal-02294847},journal={Journal of Classification},year={2021},hal_id={hal-02294847},doi={https://dx.doi.org/10.1007/s00357-020-09377-y},}
@article{blanchard20post-hoc,title={Post Hoc Confidence Bounds on False Positives Using Reference Families},author={Blanchard, Gilles and Neuvial, Pierre and Roquain, Etienne},url={https://projecteuclid.org/euclid.aos/1594972818},journal={Annals of Statistics},year={2020},volume={48},number={3},pages={1281--1303},hal_id={hal-01483585},}
Single-Cell Virtual Cytometer allows user-friendly and versatile analysis and visualization of multimodal single cell RNAseq datasets
Frédéric Pont, Marie Tosolini, Qing Gao, Marion Perrier, Madrid-Mencía, Tse Shun Huang, Pierre Neuvial, Maha Ayyoub, Kristopher Nazor, and Jean-Jacques Fournié
@article{pont20single-cell-virtual-cytometer,title={{Single-Cell Virtual Cytometer allows user-friendly and versatile analysis and visualization of multimodal single cell RNAseq datasets}},author={Pont, Frédéric and Tosolini, Marie and Gao, Qing and Perrier, Marion and Madrid-Menc\'ia and Huang, Tse Shun and Neuvial, Pierre and Ayyoub, Maha and Nazor, Kristopher and Fournié, Jean-Jacques},year={2020},url={https://www.biorxiv.org/content/10.1101/843946v1},journal={NAR Genomics and Bioinformatics},hal_id={hal-02861405},}
@article{durand20post-hoc,title={{Post hoc false positive control for structured hypotheses}},author={Durand, Guillermo and Blanchard, Gilles and Neuvial, Pierre and Roquain, Etienne},url={https://hal.archives-ouvertes.fr/hal-01829037},journal={{Scandinavian Journal of Statistics}},publisher={{Wiley}},volume={47},number={4},pages={1114-1148},year={2020},month=dec,doi={10.1111/sjos.12453},keywords={post hoc bounds ; multiple testing ; Dvoretzky Kiefer Wolfowitz inequality ; forest structure ; selective inference},hal_id={hal-01829037},hal_version={v3},}
@article{ambroise19adjclust,title={{Adjacency-constrained hierarchical clustering of a band similarity matrix with application to Genomics}},author={Ambroise, Christophe and Dehman, Alia and Neuvial, Pierre and Rigaill, Guillem and Vialaneix, Nathalie},journal={Algorithms for molecular biology},year={2019},month=nov,volume={14},number={22},hal_id={hal-02006331},hal_version={v2},}
@article{bachoc18posi,author={Bachoc, Fran\c{c}ois and Blanchard, Gilles and Neuvial, Pierre},title={On the post selection inference constant under restricted isometry properties},journal={Electron. J. Statist.},fjournal={Electronic Journal of Statistics},year={2018},volume={12},number={2},pages={3736-3757},issn={1935-7524},doi={10.1214/18-EJS1490},sici={1935-7524(2018)12:2<3736:OTPSIC>2.0.CO;2-0},url={https://hal.archives-ouvertes.fr/hal-01772538},hal_id={hal-01772538},hal_version={v2},month=nov,}
@article{sadacca17insight,title={New insight for pharmacogenetics studies from the transcriptional analysis of two large-scale cancer cell line panels},author={Sadacca, B. and Hamy-Petit, A.-S. and Laurent, C. and Gestraud, P. and Bonsang-Kitzis, H. and Pinheiro, A and Abecassis, J and Neuvial, P and Reyal, F.},year={2017},journal={Scientific Reports},volume={7},pages={15126},url={https://www.nature.com/articles/s41598-017-14770-6},hal_id={hal-01634180}}
@article{picchetti15model,title={{A model for gene deregulation detection using expression data}},author={Picchetti, Thomas and Chiquet, Julien and Elati, Mohamed and Neuvial, Pierre and Nicolle, R{\'e}my and Birmel{\'e}, Etienne},journal={{BMC Systems Biology}},publisher={{BioMed Central}},year={2015},month=dec,url={http://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0509-9-S6-S6},hal_id={hal-01154154},hal_version={v2},}
@article{chambaz15tmle.npvi,title={tmle.npvi: targeted, integrative search of associations between {DNA} copy number and gene expression, accounting for DNA methylation},author={Chambaz, Antoine and Neuvial, Pierre},year={2015},volume={31},number={18},pages={3054-6},journal={Bioinformatics},url={https://academic.oup.com/bioinformatics/article/31/18/3054/241218},hal_id={hal-01113680},}
@article{pierre-jean15performance,title={Performance evaluation of {DNA} copy number segmentation methods},author={Pierre-Jean, Morgane and Rigaill, Guillem J and Neuvial, Pierre},journal={Briefings in Bioinformatics},year={2015},vol={16},number={4},pages={600-615},hal_id={hal-00952896},url={https://academic.oup.com/bib/article/16/4/600/347347},}
@article{dehman15performance,title={Performance of a Blockwise Approach in Variable Selection using Linkage Disequilibrium Information},author={Dehman, Alia and Ambroise, Christophe and Neuvial, Pierre},journal={BMC Bioinformatics},year={2015},hal_id={hal-01193074},url={http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-015-0556-6},}
@article{brito13stability-based,author={Brito, Isabel and Hup\'{e}, Philippe and Neuvial, Pierre and Barillot, Emmanuel},journal={{PLoS One}},title={{Stability-based comparison of class discovery methods for array-CGH profiles}},year={2013},month=dec,volume={8},number={12},pages={e81458},publisher={Public Library of Science},hal_id={01201580},url={http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0081458},}
@article{neuvial13medecine,author={Neuvial, Pierre},journal={Variances},month=oct,pages={31--33},title={Vers une médecine personnalisée grâce à la recherche en génomique},volume={48},year={2013},category={popscience},hal_id={hal-01201657},}
@article{neuvial13asymptotic,author={Neuvial, Pierre},title={Asymptotic Results on Adaptive False Discovery Rate
Controlling Procedures Based on Kernel Estimators},journal={Journal of Machine Learning Research},year={2013},volume={14},pages={1423-1459},hal_id={hal-00460677},}
@article{neuvial12on-false,author={Neuvial, Pierre and Roquain, E.},title={On false discovery rate thresholding for classification under sparsity},year={2012},journal={Annals of Statistics},volume={40},number={5},pages={2572--2600},hal_id={hal-00604427},url={https://projecteuclid.org/euclid.aos/1359987531},}
@article{chambaz12estimation,author={Chambaz, Antoine and Neuvial, Pierre and van der Laan, M. J.},fjournal={Electronic Journal of Statistics},journal={Electron. J. Statist.},title={Estimation of a Non-Parametric Variable Importance Measure of a Continuous Exposure},pages={1059-1099},volume={6},year={2012},hal_id={hal-00629899},url={https://projecteuclid.org/euclid.ejs/1340369355},}
@article{ortiz-estevez12calmate,author={Ortiz-Estevez, Maria and Aramburu, Ander and Bengtsson, Henrik and Neuvial, Pierre and Rubio, Angel},journal={Bioinformatics},month=jul,number={13},pages={1793--1794},title={{CalMaTe:} A Method and Software to Improve {Allele-Specific} Copy Number of {SNP} Arrays for Downstream Segmentation},volume={28},year={2012},hal_id={hal-01200761},url={https://academic.oup.com/bioinformatics/article/28/13/1793/234984/},}
@article{jacob12more,author={Jacob, Laurent and Neuvial, Pierre and Dudoit, Sandrine},journal={Annals of Applied Statistics},number={2},pages={561--600},title={More Power via Graph-Structured Tests for Differential Expression of Gene Networks},volume={6},year={2012},hal_id={hal-00521097},url={https://projecteuclid.org/euclid.aoas/1339419608},}
@article{heiser12subtype,author={Heiser, L.M. and Sadanandam, A. and Kuo, W.L. and Benz, S.C. and Goldstein, T.C. and Ng, S. and Gibb, W.J. and Wang, N.J. and Ziyad, S. and Tong, F. and Bayani, Nora and Hu, Zhi and Billig, Jessica I. and Dueregger, Andrea and Lewis, Sophia and Jakkula, Lakshmi and Korkola, James E. and Durinck, Steffen and Pepin, Fran{\c c}ois and Guan, Yinghui and Purdom, Elizabeth and Neuvial, Pierre and Bengtsson, Henrik and Wood, Kenneth W. and Smith, Peter G. and Vassilev, Lyubomir and Hennessy, Bryan T. and Greshock, Joel and Bachman, Kurtis E. and Hardwicke, Mary Ann and Park, John W. and Marton, Laurence J. and Wolf, Denise M. and Collisson, Eric A. and Neve, Richard M. and Mills, Gordon B. and Speed, Terence P. and Feiler, Heidi S. and Wooster, Richard F. and Haussler, David and Stuart, Joshua M. and Gray, Joe W. and Spellman, Paul T},journal={Proceedings of the National Academy of Sciences},month=feb,number={8},pages={2724-2729},title={Subtype and pathway specific responses to anticancer compounds in breast cancer},volume={109},year={2012},hal_id={hal-01201568},url={http://www.pnas.org/content/109/8/2724.long},}
@article{neuvial11tests,title={Tests multiples en génomique},author={Neuvial, Pierre},journal={La gazette des mathématiciens},year={2011},volume={130},pages={71-76},month=oct,category={popscience},url={http://smf4.emath.fr/Publications/Gazette/2011/130/},hal_id={hal-01201629},}
@article{olshen11parent-specific,author={Olshen, Adam B and Bengtsson, Henrik and Neuvial, Pierre and Spellman, Paul T and Olshen, Richard A and Seshan, Venkatraman E},journal={Bioinformatics},month=aug,number={15},pages={2038-2046},title={Parent-specific copy number in paired tumor-normal studies using circular binary segmentation},volume={27},year={2011},hal_id={hal-01200750},url={https://academic.oup.com/bioinformatics/article-lookup/doi/10.1093/bioinformatics/btr329},}
@article{tcga11integrated,author={{The Cancer Genome Atlas Research Network}},journal={Nature},month=jun,number={7353},pages={609--615},title={Integrated Genomic Analyses of Ovarian Carcinoma},volume={474},year={2011},hal_id={hal-01201577},url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3163504/},}
Identification of a CpG Island Methylator Phenotype that Defines a Distinct Subgroup of Glioma
Houtan Noushmehr, Daniel J Weisenberger, Kristin Diefes, Heidi S Phillips, Kanan Pujara, Benjamin P Berman, Fei Pan, Christopher E Pelloski, Erik P Sulman, Krishna P Bhat, and
18 more authors
@article{noushmehr10identification,author={Noushmehr, Houtan and Weisenberger, Daniel J and Diefes, Kristin and Phillips, Heidi S and Pujara, Kanan and Berman, Benjamin P and Pan, Fei and Pelloski, Christopher E and Sulman, Erik P and Bhat, Krishna P and Verhaak, Roel G W and Meyerson, Matthew L and Hoadley, Katherine A. and Hayes, D Neil and Perou, Charles M and Schmidt, Heather K and Ding, Li and Wilson, Richard K and Van Den Berg, David and Shen, Hui and Bengtsson, Henrik and Neuvial, Pierre and Cope, Leslie M and Buckley, Jonathan and Herman, James G and Baylin, Stephen B and Laird, Peter W and Aldape, Kenneth},journal={Cancer Cell},month=apr,number={5},pages={510-522},title={Identification of a {CpG} Island Methylator Phenotype that Defines a Distinct Subgroup of Glioma},volume={17},year={2010},hal_id={hal-01201573},url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2872684/},}
@article{bengtsson10tumorboost,author={Bengtsson, Henrik and Neuvial, Pierre and Speed, Terence P},journal={{BMC} Bioinformatics},number={1},pages={245},title={{TumorBoost}: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays},volume={11},year={2010},hal_id={hal-01199777},url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2894037/},}
@article{neuvial09problematiques,author={Neuvial, Pierre and Bourguignon, Pierre-Yves},journal={Variances},month=feb,pages={56--60},title={Probl{\'e}matiques statistiques {\`a} l'heure de la post-g{\'e}nomique},volume={35},year={2009},category={popscience},url={https://hal.archives-ouvertes.fr/hal-01201651},hal_id={hal—01201651},}
@article{neuvial08asymptotic,author={Neuvial, Pierre},fjournal={Electronic Journal of Statistics},journal={Electron. J. Statist.},title={Asymptotic properties of false discovery rate controlling procedures under independence},volume={2},pages={1065-1110},year={2008},url={https://projecteuclid.org/euclid.ejs/1227287693},hal_id={hal-00286066},note={With corrigendum in EJS 2009(3):1083},}
@article{pn:neuvial09corrigendum,author={Neuvial, Pierre},doi={10.1214/09-EJS519},fjournal={Electronic Journal of Statistics},journal={Electron. J. Statist.},pages={1083},publisher={The Institute of Mathematical Statistics and the Bernoulli Society},title={Corrigendum to 'Asymptotic properties of false discovery rate controlling procedures under independence'},url={https://doi.org/10.1214/09-EJS519},volume={3},year={2009},}
High-resolution mapping of DNA breakpoints to define true recurrences among ipsilateral breast cancers.
Marc A Bollet, Nicolas Servant, Pierre Neuvial, Charles Decraene, Ingrid Lebigot, Jean-Philippe Meyniel, Yann De Rycke, Alexia Savignoni, Guillem Rigaill, Philippe Hupé, and
4 more authors
@article{bollet08high-resolution,author={Bollet, Marc A and Servant, Nicolas and Neuvial, Pierre and Decraene, Charles and Lebigot, Ingrid and Meyniel, Jean-Philippe and De Rycke, Yann and Savignoni, Alexia and Rigaill, Guillem and Hup{\'e}, Philippe and Fourquet, Alain and Sigal-Zafrani, Brigitte and Barillot, Emmanuel and Thiery, Jean-Paul},journal={J Natl Cancer Inst},number={1},pages={48--58},title={{High-resolution mapping of DNA breakpoints to define true recurrences among ipsilateral breast cancers.}},volume={100},year={2008},hal_id={hal-00204833},url={https://academic.oup.com/jnci/article-lookup/doi/10.1093/jnci/djm266},}
@article{elati07licorn,author={Elati, Mohamed and Neuvial, Pierre and Bolotin-Fukuhara, Monique and Barillot, Emmanuel and Radvanyi, Fran{\c c}ois and Rouveirol, C{\'e}ine},journal={Bioinformatics},number={18},pages={2407--2414},title={{LICORN: LearnIng COoperative Regulation Networks}},volume={23},year={2007},url={https://academic.oup.com/bioinformatics/article/23/18/2407/236890},hal_id={hal-00192537},}
VAMP: visualization and analysis of array-CGH, transcriptome and other molecular profiles.
Philippe La Rosa, Eric Viara, Philippe Hupé, Gaëlle Pierron, Stéphane Liva, Pierre Neuvial, Isabel Brito, Séverine Lair, Nicolas Servant, Nicolas Robine, and
12 more authors
@article{larosa06vamp,author={La Rosa, Philippe and Viara, Eric and Hup{\'e}, Philippe and Pierron, Ga{\"e}lle and Liva, St{\'e}phane and Neuvial, Pierre and Brito, Isabel and Lair, S{\'e}verine and Servant, Nicolas and Robine, Nicolas and Mani{\'e}, Elodie and Brennetot, Caroline and Janoueix-Lerosey, Isabelle and Raynal, Virginie and Gruel, Nad{\`e}ge and Rouveirol, C{\'e}ine and Stransky, Nicolas and Stern, Marc-Henri and Delattre, Olivier and Aurias, Alain and Radvanyi, Fran{\c c}ois and Barillot, Emmanuel},journal={Bioinformatics},month=sep,number={17},pages={2066--2073},title={{VAMP: visualization and analysis of array-CGH, transcriptome and other molecular profiles.}},volume={22},year={2006},url={https://academic.oup.com/bioinformatics/article-lookup/doi/10.1093/bioinformatics/btl359},hal_id={01199867},}
@article{liva06capweb,author={Liva, St{\'e}phane and Hup{\'e}, Philippe and Neuvial, Pierre and Brito, Isabel and Viara, Eric and La Rosa, Philippe and Barillot, Emmanuel},journal={Nucleic Acids Res},month=jul,number={Web Server issue},pages={477--481},title={{CAPweb: a bioinformatics CGH array Analysis Platform.}},volume={34},year={2006},url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538852/},hal_id={hal-01199870},}
@article{neuvial06spatial,author={Neuvial, Pierre and Hup{\'e}, Philippe and Brito, Isabel and Liva, St{\'e}phane and Mani{\'e}, Elodie and Brennetot, Caroline and Radvanyi, Fran{\c c}ois and Aurias, Alain and Barillot, Emmanuel},journal={BMC Bioinformatics},keywords={CGH, normalization, microarray},month=may,number={1},pages={264},title={Spatial normalization of array-{CGH} data.},volume={7},year={2006},hal_id={hal-00089910},url={https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1523216/},}
Book chapters
Statistical analysis of Single Nucleotide Polymorphism microarrays in cancer studies
@incollection{neuvial11statistical,author={Neuvial, Pierre and Bengtsson, Henrik and Speed, Terence P},booktitle={Handbook of Statistical Bioinformatics},date-modified={2011-01-04 23:05:25 +0100},editor={Lu, Henry Horng-Shing and Sch{\"o}lkopf, Bernhard and Zhao, Hongyu},publisher={Springer},series={Springer Handbooks of Computational Statistics},title={Statistical analysis of Single Nucleotide Polymorphism microarrays in cancer studies},year={2011},hal_id={hal-00497273},url={https://link.springer.com/chapter/10.1007\%2F978-3-642-16345-6_11}}
On agnostic post hoc approaches to false positive control
@incollection{blanchard21agnostic,title={On agnostic post hoc approaches to false positive control},author={Blanchard, Gilles and Neuvial, Pierre and Roquain, Etienne},editor={Cui, Xinping and Dickhaus, Thorsten and Ding, Ying and Hsu, Jason C.},url={https://hal.archives-ouvertes.fr/hal-02320543},url2={https://www.routledge.com/Handbook-of-Multiple-Comparisons/Cui-Dickhaus-Ding-Hsu/p/book/9780367140670},booktitle={Handbook of Multiple Comparisons},year={2021},month=nov,edition={1st Edition},series={Chapman \& Hall/CRC Handbooks of Modern Statistical Methods},hal_id={hal-02320543},}
@inbook{neuvial23miti,title={{Comprendre l’organisation spatiale de l'ADN à l'aide de la statistique}},author={Neuvial, Pierre and Foissac, Sylvain and Vialaneix, Nathalie},note={Contribution à un ouvrage collectif édité par la MITI du CNRS},year={2023},booktitle={L'Interdisciplinarité. Voyages au-delà des disciplines},category={popscience},hal_id={hal-03930070v1},}
@article{neuvial13medecine,author={Neuvial, Pierre},journal={Variances},month=oct,pages={31--33},title={Vers une médecine personnalisée grâce à la recherche en génomique},volume={48},year={2013},category={popscience},hal_id={hal-01201657},}
@article{neuvial11tests,title={Tests multiples en génomique},author={Neuvial, Pierre},journal={La gazette des mathématiciens},year={2011},volume={130},pages={71-76},month=oct,category={popscience},url={http://smf4.emath.fr/Publications/Gazette/2011/130/},hal_id={hal-01201629},}
@article{neuvial09problematiques,author={Neuvial, Pierre and Bourguignon, Pierre-Yves},journal={Variances},month=feb,pages={56--60},title={Probl{\'e}matiques statistiques {\`a} l'heure de la post-g{\'e}nomique},volume={35},year={2009},category={popscience},url={https://hal.archives-ouvertes.fr/hal-01201651},hal_id={hal—01201651},}
Technical reports and theses
HDR
Contributions to statistical inference from genomic data
@phdthesis{neuvial20contributions,author={Neuvial, Pierre},school={Université Toulouse III (France)},title={Contributions to statistical inference from genomic data},year={2020},type={Habilitation thesis},hal_id={tel-02969229},}
PhD
Contributions to the statistical analysis of microarray data
Pierre Neuvial
Institut Curie and Université Paris VII (France), 2008
@phdthesis{neuvial08contributions,author={Neuvial, Pierre},school={Institut Curie and Universit\'e Paris VII (France)},title={Contributions to the statistical analysis of microarray data},year={2008},hal_id={tel-00433045},}
M.Sc.
Analyse statistique du lien entre les plages homogènes de séquences d’ADN de différentes bactéries
Erwan Hauvuy, Benjamin Lebrave, and Pierre Neuvial
@mastersthesis{hauvuy03analyse,author={Hauvuy, Erwan and Lebrave, Benjamin and Neuvial, Pierre},school={ENSAE Paristech et Universit\'e Paris Diderot},title={{Analyse statistique du lien entre les plages homogènes de séquences d'ADN de différentes bactéries}},year={2003},}
A Model of Prepayment for the French Residential Loan Market
Romuald Elie, Antoine Frachot, Pierre Georges, and Pierre Neuvial
@techreport{elie02a-model,author={Elie, Romuald and Frachot, Antoine and Georges, Pierre and Neuvial, Pierre},institution={Groupe de Recherche Op{\'e}rationnelle, Cr{\'e}dit Lyonnais, France},title={{A Model of Prepayment for the {F}rench Residential Loan Market}},year={2002},}