Publications
Pont, F., Cerapio, J.P., Gravelle, P. et al. Single-cell spatial explorer: easy exploration of spatial and multimodal transcriptomics. BMC Bioinformatics 24, 30 (2023). https://doi.org/10.1186/s12859-023-05150-1
Cintas, Célia, et al. "Phosphoproteomics Identifies PI3K Inhibitor–selective Adaptive Responses in Pancreatic Cancer Cell Therapy and Resistance." Molecular Cancer Therapeutics 20.12 (2021): 2433-2445. DOI
Juan-Pablo Cerapio, Marion Perrier, Camille-Charlotte Balança, Pauline Gravelle, Fréderic Pont, Christel Devaud, Don-Marc Franchini, Virginie Féliu, Marie Tosolini, Carine Valle, Fréderic Lopez, Anne Quillet-Mary, Loic Ysebaert, Alejandra Martinez, Jean Pierre Delord, Maha Ayyoub, Camille Laurent & Jean-Jacques Fournie (2021) Phased differentiation of γδ T and T CD8 tumor-infiltrating lymphocytes revealed by single-cell transcriptomics of human cancers, OncoImmunology, 10:1, DOI .
Single-Cell Virtual Cytometer + CITE-seq-counter
Frédéric Pont, Marie Tosolini, Qing Gao, Marion Perrier, Miguel Madrid-Mencía, Tse Shun Huang, Pierre Neuvial, Maha Ayyoub, Kristopher Nazor, Jean-Jacques Fournié, Single-Cell Virtual Cytometer allows user-friendly and versatile analysis and visualization of multimodal single cell RNAseq datasets, NAR Genomics and Bioinformatics, Volume 2, Issue 2, June 2020, lqaa025, https://doi.org/10.1093/nargab/lqaa025
Single-Cell Signature Explorer
Frédéric Pont, Marie Tosolini, Jean J Fournié, Single-Cell Signature Explorer for comprehensive visualization of single cell signatures across scRNA-seq datasets, Nucleic Acids Research, 2019, gkz601
PIZZOLATO, Gabriele, KAMINSKI, Hannah, TOSOLINI, Marie, et al. Single-cell RNA sequencing unveils the shared and the distinct cytotoxic hallmarks of human TCRVδ1 and TCRVδ2 γδ T lymphocytes. Proceedings of the National Academy of Sciences, 2019, vol. 116, no 24, p. 11906-11915.
Franchini, D. M. et al. (2019). Microtubule-driven stress granule dynamics regulate inhibitory immune checkpoint expression in T cells. Cell Reports, 26(1), 94-107.
Perchey, R. T., Tonini, L., Tosolini, M., Fournié, J. J., Lopez, F., Besson, A., & Pont, F. (2019). PTMselect: Optimization of protein modifications discovery by mass spectrometry. Scientific Reports, 9(1), 4181.
TOSOLINI, Marie, PONT, Frédéric, POUPOT, Mary, et al.Assessment of tumor-infiltrating TCRV γ 9V δ 2 γδ lymphocyte abundance by deconvolution of human cancers microarrays. Oncoimmunology, 2017, vol. 6, no 3, p. e1284723.
TOSOLINI, Marie, ALGANS, Christelle, PONT, Frédéric, et al.Large-scale microarray profiling reveals four stages of immune escape in non-Hodgkin lymphomas. Oncoimmunology, 2016, vol. 5, no 7, p. e1188246.
AutoCompare ZE, AutoCompare ZE cmdline
YCART, Bernard, PONT, Frédéric, et FOURNIÉ, Jean-Jacques. Curbing false discovery rates in interpretation of genome-wide expression profiles. Journal of biomedical informatics, 2014, vol. 47, p. 58-61.
PONT, Frédéric et FOURNIÉ, Jean Jacques. Sorting protein lists with nwCompare: A simple and fast algorithm for n‐way comparison of proteomic data files. Proteomics, 2010, vol. 10, no 5, p. 1091-1094.
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PONT, Fréderic, TOSOLINI, Marie, YCART, Bernard, et al.nwCompare and AutoCompare Softwares for Proteomics and Transcriptomics Data Mining–Application to the Exploration of Gene Expression Profiles of Aggressive Lymphomas. 2012. intechopen