Multi-omic data: clustering and network inference (2017-2020)
Audrey’s PhD was co-supervised with Florence Jaffrezic and Henri-Jean Garchon (33%/33%/33%), from 2017 to 2020.
Summary
This thesis develops statistical methods for the analysis of high-dimensional omics data, focusing on two complementary tasks: consensus clustering and network inference. It introduces a fast tree aggregation method that combines several hierarchical clustering trees, obtained for instance from different data types or resampled datasets, into a single consensus tree, with an efficient algorithm implemented in the mergeTrees R package. The thesis also contributes methods for inferring biological association networks from omics data, and illustrates both lines of work on real transcriptomic and proteomic datasets.
PhD manucript
2020
PhD thesis
Analyses de données omiques : clustering et inférence de réseaux
This thesis develops statistical methods for the analysis of high-dimensional omics data, focusing on two complementary tasks: consensus clustering and network inference. It introduces a fast tree aggregation method that combines several hierarchical clustering trees, obtained for instance from different data types or resampled datasets, into a single consensus tree, with an efficient algorithm implemented in the mergeTrees R package. The thesis also contributes methods for inferring biological association networks from omics data, and illustrates both lines of work on real transcriptomic and proteomic datasets.
Journal papers
2020
BMC Bioinfo
Fast tree aggregation for consensus hierarchical clustering
Audrey Hulot, Julien Chiquet, Florence Jaffrezic, and 1 more author
@article{hulot_BMC_2020,author={Hulot, Audrey and Chiquet, Julien and Jaffrezic, Florence and Rigaill, Guillem},title={Fast tree aggregation for consensus hierarchical
clustering},journal={BMC Bioinformatics},year={2020},doi={10.1186/s12859-020-3453-6},}
Conferences
2018
Fused-ANOVA: une méthode de clustering en grande dimension
A. Hulot, J. Chiquet, F. Jaffrezic, and 1 more author
In actes des 50\ieme journées françaises de statistique, Saclay, 2018