Research
Cancer bioinformatics and systems biology : J. Colinge

Cancer bioinformatics and systems biology

SUMMARY

Our current research is divided into two major and related areas. Firstly, the development and deployment of methods for inferring intracellular biological networks (signaling, transcription), as well as intercellular networks involving the microenvironment. Then, through collaborations, we apply these methods to the study of specific tumor cohorts. Our objectives are generally to identify active functional modules, resistance mechanisms or potential therapeutic targets. A majority of our projects involve space and single-cell biology.

We are also developing various mathematical models for computational proteomics, the study of circulating DNA, or the nanomechanics (rigidity) of tumors.

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Publications

Lehmann S, Vialaret J, Gabelle A, Bauchet L, Villemin J-P, Hirtz C, Colinge J Enabling population protein dynamics through Bayesian modeling. Bioinformatics. 2024;40(8):btae484. doi:10.1093/bioinformatics/btae484

Honda C, Kurozumi S, Fujii T, Pourquier D, Khellaf L, Horiguchi J, Oyama T, Shirabe K, Colinge J, Yokobori T, Turtoi A Cancer-associated fibroblast spatial heterogeneity and EMILIN1 expression in the tumor microenvironment modulate TGF-? activity and CD8+ T-cell infiltration in breast cancer. Theranostics. 2024;14(5):1873-1885. doi:10.7150/thno.90627

Villemin J-P, Bassaganyas L, Pourquier D, Boissière F, Cabello-Aguilar S, Crapez E, Tanos R, Cornillot E, Turtoi A, Colinge J Inferring ligand-receptor cellular networks from bulk and spatial transcriptomic datasets with BulkSignalR. Nucleic Acids Res. 2023-05-05. doi:10.1093/nar/gkad352

Giguelay A, Turtoi E, Khelaf L, Tosato G, Dadi I, Chastel T, Poul M-A, Pratlong M, Nicolescu S, Severac D, Adenis A, Sgarbura O, Carrère S, Rouanet P, Ychou M, Pourquier D, Colombo P-E, Turtoi A, Colinge J The landscape of cancer-associated fibroblasts in colorectal cancer liver metastases. Theranostics. 2022;12(17):7624-7639. doi:10.7150/thno.72853

Cabello-Aguilar S, Alame M, Kon-Sun-Tack F, Fau C, Lacroix M, Colinge J SingleCellSignalR: inference of intercellular networks from single-cell transcriptomics. Nucleic Acids Res.. Mar 20, 2020. doi:10.1093/nar/gkaa183


Team

Team Leader  : Jacques Colinge
 

Institut de Recherche en
Cancérologie de Montpellier
Campus Val d’Aurelle
34298 Montpellier cedex 5


 

Tél. : 33 (0)4 67 61 23 92
Fax : 33 (0)4 67 61 37 87
jacques.colinge@inserm.fr

 

partners / funding


© Institut de Recherche en Cancérologie de Montpellier - 2011 - Tous droits réservés - Mentions légales - Connexion - Conception : ID Alizés