BRANE Cut: biologically-related a priori network enhancement with graph cuts for gene regulatory network inference. - Aurélie Pirayre; Camille Couprie; Frédérique Bidard; Laurent Duval; Jean-Christophe Pesquet (BMC Bioinform., 2015)

Multiomics Data Integration for Gene Regulatory Network Inference with Exponential Family Embeddings. - Surabhi Jaatan; Abdulkadir Çelikkanat; Aurelic Piravre; Frédérique Bidard; Laurent Duval; Fragkiskos D. Malliaros (EUSIPCO, 2021)

BRANEnet: embedding multilayer networks for omics data integration. - Surabhi Jagtap; Aurélie Pirayre; Frédérique Bidard; Laurent Duval; Fragkiskos D. Malliaros (BMC Bioinform., 2022)

BraneMF: integration of biological networks for functional analysis of proteins. - Surabhi Jagtap; Abdulkadir Çelikkanat; Aurélie Pirayre; Frédérique Bidard; Laurent Duval; Fragkiskos D. Malliaros (Bioinform., 2022)