Recent & highlighted publications

Carrillo-Perez F, Pizurica M, Ozawa MG, Vogel H, West RB, Kong CS, Herrera LJ, Shen J, Gevaert O. Synthetic whole-slide image tile generation with gene expression profile-infused deep generative models. Cell Rep Methods. 2023 Jul 19;3(8):100534. doi: 10.1016/j.crmeth.2023.100534. PMID: 37671024; PMCID: PMC10475789.

Steyaert S, Pizurica M, Nagaraj D, Khandelwal P, Hernandez-Boussard T, Gentles A, Gevaert O. Multimodal data fusion for cancer biomarker discovery with deep learning. Nat Mach Intell (2023). https://doi.org/10.1038/s42256-023-00633-5

Steyaert S, Qiu YL, Zheng Y, Mukherjee P, Vogel H, Gevaert O. Multimodal deep learning to predict prognosis in adult and pediatric brain tumors. Commun Med (Lond). 2023 Mar 29;3(1):44. doi: 10.1038/s43856-023-00276-y. PMID: 36991216; PMCID: PMC10060397.

Thieme AH, Zheng Y, Machiraju G, Sadee C, Mittermaier M, Gertler M, Salinas JL, Srinivasan K, Gyawali P, Carrillo-Perez F, Capodici A, Uhlig M, Habenicht D, Löser A, Kohler M, Schuessler M, Kaul D, Gollrad J, Ma J, Lippert C, Billick K, Bogoch I, Hernandez-Boussard T, Geldsetzer P, Gevaert O. A deep-learning algorithm to classify skin lesions from mpox virus infection. Nat Med. 2023 Mar;29(3):738-747. doi: 10.1038/s41591-023-02225-7. Epub 2023 Mar 2. PMID: 36864252; PMCID: PMC10033450.

Bakr S, Brennan K, Mukherjee P, Argemi J, Hernaez M, Gevaert O. Identifying key multifunctional components shared by critical cancer and normal liver pathways via SparseGMM. Cell Rep Methods. 2023 Jan 16;3(1):100392. doi: 10.1016/j.crmeth.2022.100392. PMID: 36814838; PMCID: PMC9939431.

Hartmann K, Sadée CY, Satwah I, Carrillo-Perez F, Gevaert O. Imaging genomics: data fusion in uncovering disease heritability. Trends Mol Med. 2023 Feb;29(2):141-151. doi: 10.1016/j.molmed.2022.11.002. Epub 2022 Dec 2. PMID: 36470817.

Sukhadia SS, Tyagi A, Venkataraman V, Mukherjee P, Prasad P, Gevaert O, Nagaraj SH. ImaGene: a web-based software platform for tumor radiogenomic evaluation and reporting. Bioinform Adv. 2022 Nov 10;2(1):vbac079. doi: 10.1093/bioadv/vbac079. PMID: 36699376; PMCID: PMC9714320.

Gevaert O. Meta-learning reduces the amount of data needed to build AI models in oncology. Br J Cancer. 2021 Mar 29. doi: 10.1038/s41416-021-01358-1. Epub ahead of print. PMID: 33782563.

Mukherjee P, Zhou M, Lee E, Schicht A, Balagurunathan Y, Napel S, Gillies R, Wong S, Thieme A, Leung A, Gevaert O. A Shallow Convolutional Neural Network Predicts Prognosis of Lung Cancer Patients in Multi-Institutional CT-Image Data. Nat Mach Intell. 2020 May;2(5):274-282. doi: 10.1038/s42256-020-0173-6. Epub 2020 May 18. PMID: 33791593; PMCID: PMC8008967.

Qiu YL, Zheng H, Devos A, Selby H, Gevaert O. A meta-learning approach for genomic survival analysis. Nat Commun. 2020 Dec 11;11(1):6350. doi: 10.1038/s41467-020-20167-3. PMID: 33311484; PMCID: PMC7733508.

Vandaele R, Nervo GA, Gevaert O. Topological image modification for object detection and topological image processing of skin lesions. Sci Rep. 2020 Dec 3;10(1):21061. doi: 10.1038/s41598-020-77933-y. PMID: 33273628; PMCID: PMC7713118.

Brennan K, Metzner TJ, Kao CS, Massie CE, Stewart GD, Haile RW, Brooks JD, Hitchins MP, Leppert JT, Gevaert O. Development of a DNA Methylation-Based Diagnostic Signature to Distinguish Benign Oncocytoma From Renal Cell Carcinoma. JCO Precis Oncol. 2020 Sep 28;4:PO.20.00015. doi: 10.1200/PO.20.00015. PMID: 33015531; PMCID: PMC7529536.

All publications of the lab:

Preprints on arXiv, bioRxiv & MedRxiv