• 2025
  Kalfon J, Samaran J, Peyré G, Cantini L, scPRINT: pre-training on 50 million cells allows robust gene network predictions., Nat Commun 2025 Apr; 16(1): 3607.
• 2025
  Camard L, Stephen T, Yahia-Cherbal H, Guillemot V, Mella S, Baillet V, Lopez-Maestre H, Capocefalo D, Cantini L, Leloup C, Marsande J, Garro K, Sienes Bailo J, Dangien A, Pietrosemoli N, Hasan M, Wang H, Eckle SBG, Fourie AM, Greving C, Joyce-Shaikh B, Parker R, Cua DJ, Bianchi E, Rogge L, IL-23 tunes inflammatory functions of human mucosal-associated invariant T cells., iScience 2025 Feb; 28(2): 111898.
• 2024
  Samaran J, Peyré G, Cantini L, scConfluence: single-cell diagonal integration with regularized Inverse Optimal Transport on weakly connected features., Nat Commun 2024 Sep; 15(1): 7762.
• 2024
  Trimbour R, Deutschmann IM, Cantini L, Molecular mechanisms reconstruction from single-cell multi-omics data with HuMMuS., Bioinformatics 2024 Mar; (): .
• 2023
  Huizing GJ, Deutschmann IM, Peyré G, Cantini L, Paired single-cell multi-omics data integration with Mowgli., Nat Commun 2023 Nov; 14(1): 7711.
• 2022
  Huizing GJ, Peyré G, Cantini L, , Optimal Transport improves cell-cell similarity inference in single-cell omics data., Bioinformatics 2022 Feb; 38(8): 2169-77.
• 2021
  Cantini L, Zakeri P, Hernandez C, Naldi A, Thieffry D, Remy E, Baudot A, , Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer., Nat Commun 2021 Jan; 12(1): 124.
• 2021
  Kang Y, Thieffry D, Cantini L, , Evaluating the Reproducibility of Single-Cell Gene Regulatory Network Inference Algorithms., Front Genet 2021 ; 12(): 617282.
• 2020
  Corral-Jara KF, Cantini L, Poupin N, Ye T, Rigaudière JP, De Saint Vincent S, Pinel A, Morio B, Capel F, , An Integrated Analysis of miRNA and Gene Expression Changes in Response to an Obesogenic Diet to Explore the Impact of Transgenerational Supplementation with Omega 3 Fatty Acids., Nutrients 2020 Dec; 12(12): .
• 2020
  Zinovyev A, Czerwinska U, Cantini L, Barillot E, Frahm KM, Shepelyansky DL, , Collective intelligence defines biological functions in Wikipedia as communities in the hidden protein connection network., PLoS Comput Biol 2020 Feb; 16(2): e1007652.
• 2020
  Colaprico A, Olsen C, Bailey MH, Odom GJ, Terkelsen T, Silva TC, Olsen AV, Cantini L, Zinovyev A, Barillot E, Noushmehr H, Bertoli G, Castiglioni I, Cava C, Bontempi G, Chen XS, Papaleo E, , Interpreting pathways to discover cancer driver genes with Moonlight., Nat Commun 2020 Jan; 11(1): 69.
• 2019
  Reale E, Taverna D, Cantini L, Martignetti L, Osella M, De Pittà C, Virga F, Orso F, Caselle M, , Investigating the epi-miRNome: identification of epi-miRNAs using transfection experiments., Epigenomics 2019 Nov; 11(14): 1581-1599.
• 2019
  Cantini L, Kairov U, de Reyniès A, Barillot E, Radvanyi F, Zinovyev A, , Assessing reproducibility of matrix factorization methods in independent transcriptomes., Bioinformatics 2019 Nov; 35(21): 4307-4313.
• 2019
  Sompairac N, Nazarov PV, Czerwinska U, Cantini L, Biton A, Molkenov A, Zhumadilov Z, Barillot E, Radvanyi F, Gorban A, Kairov U, Zinovyev A, , Independent Component Analysis for Unraveling the Complexity of Cancer Omics Datasets., Int J Mol Sci 2019 Sep; 20(18): .
• 2019
  Greco A, Sanchez Valle J, Pancaldi V, Baudot A, Barillot E, Caselle M, Valencia A, Zinovyev A, Cantini L, , Molecular Inverse Comorbidity between Alzheimer’s Disease and Lung Cancer: New Insights from Matrix Factorization., Int J Mol Sci 2019 Jun; 20(13): .
• 2019
  Cantini L, Bertoli G, Cava C, Dubois T, Zinovyev A, Caselle M, Castiglioni I, Barillot E, Martignetti L, , Identification of microRNA clusters cooperatively acting on epithelial to mesenchymal transition in triple negative breast cancer., Nucleic Acids Res 2019 Mar; 47(5): 2205-2215.
• 2019
  Cantini L, Caselle M, , Hope4Genes: a Hopfield-like class prediction algorithm for transcriptomic data., Sci Rep 2019 Jan; 9(1): 337.
• 2018
  Cantini L, Calzone L, Martignetti L, Rydenfelt M, Blüthgen N, Barillot E, Zinovyev A, , Classification of gene signatures for their information value and functional redundancy., NPJ Syst Biol Appl 2018 ; 4(): 2.
• 2017
  Kairov U, Cantini L, Greco A, Molkenov A, Czerwinska U, Barillot E, Zinovyev A, , Determining the optimal number of independent components for reproducible transcriptomic data analysis., BMC Genomics 2017 Sep; 18(1): 712.
• 2017
  Cantini L, Caselle M, Forget A, Zinovyev A, Barillot E, Martignetti L, , A review of computational approaches detecting microRNAs involved in cancer., Front Biosci (Landmark Ed) 2017 Jun; 22(10): 1774-1791.