Research

My research projects focus on better understanding the biological heterogeneity underlying cancers and complex traits though multi-omic integration and network inference.

My current projects mainly focus on cell plasticity and treatment resistance in various cancer types, in particular Melanoma and Pancreatic cancer.

List of publications

ORCID     google scholar 

Selection

  • Fraboulet RM, Si Ahmed Y, Aubry M, Corre S, Galibert MD, Blum Y. Cirscan: a shiny application to identify differentially active sponge mechanisms and visualize circRNA-miRNA-mRNA networks. BCM Bioinformatics. (2024)
  • Fraunhoffer NA, Moreno Vega AI, […], Urrutia R, Dusetti N, Blum Y*, Nicolle R*, Iovanna J.*, Priming therapy by targeting enhancer-initiated pathways in patient-derived pancreatic cancer cells. EBioMedicine, (2023) *co-last
  • Decamps C, […], Blum Y* & Richard M*. DECONbench: a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification, BMC Bioinformatics., (2021) *co-last/co-cor.
  • Nicolle, R*., Blum, Y.*, Duconseil, P., Vanbrugghe, C., Brandone, N., Poizat, F., … & Iovanna J., Dusetti N. Establishment of a pancreatic adenocarcinoma molecular gradient (PAMG) that predicts the clinical outcome of pancreatic cancer. EBioMedicine, (2020) *co-first.
  • Blum,Y. et al. Dissecting heterogeneity in malignant pleural mesothelioma through histo-molecular gradients for clinical applications. Nature Comm. (2019).
  • Lomberk, G.*, Blum,Y.*, Nicolle, R.*, Nair, A., Gaonkar, K. S., Marisa, L., […] & Armenoult, L.. Distinct epigenetic landscapes underlie the pathobiology of pancreatic cancer subtypes. Nature communications, 9(1), 1978.(2018) *co-first

Patents

  • Blum, Y., Dusetti N., Giovannini M., Gilabert M., Iovanna J., Nicolle R., Turrini O. “Method for determining a reference tumor aggressiveness molecular gradient for a pancreatic ductal adenocarcinoma“. International Patent: Application number: EP20305052.1 (2020)
  • Blum Y., Dusetti N., Giovannini M., Gilabert M., Iovanna J., Nicolle R., Turrini O. “Method for determining a reference tumor aggressiveness molecular gradient for a pancreatic ductal adenocarcinoma“. International Patent: WO2020216722A1 (2020)

Large audience article:

  • Nicolle R., Blum Y., Marisa L., Dusetti N. & Iovanna J. Des approches multi-omiques dévoilent de nouvelles cibles thérapeutiques pour le traitement du cancer du pancréas. Médecine Science, n° 5, vol. 34, mai (2018)

Grants and awards

Funding

  • 2024-2028 ANR HIDECIRC, (partner, PI C.Coulouarn)
  • 2023-2027 PEPR Santé Numérique ANR. Program 1-  Axis 1: “Methods and models for multimodal and multi-scale data integration” (partner, PI A. Baudot)
  • 2022 AIS Rennes Metropole. Nanopore “P2-Solo”
  • 2022 Ligue Contre le Cancer – Grand Ouest. Long-read sequencing for extensive profiling of circRNAs associated with acquired resistance to BRAFi in melanoma. (PI)
  • 2021–2025 MIC, ACACIA: Artificial Intelligence on multi-omic data to study cancer heterogeneity and develop clinical grade classifiers. (co-coord M. Richard).
  • 2020 European funding – EIT Health, COMETH: Benchmarking of computational methods (co-coord M. Richard).
  • 2018–2021 Grant PAIR pancreas INCa, project EpiShift, (Partner).

Awards

  • 2018  Best Investigator award, iMig international Conference, Ottawa, Canada,
  • 2010–2019 #4 Best poster awards, (ESMO conference, Barcelona, 2019 ; SysBioCancer workshop, Paris, 2019 ; BioNetVisa, Strasbourg, 2014 ; Yoshi Suzuki award ISAG conference, Edinburgh, 2010)

Scientific activities

Comments are closed.