* Wen, J., 2026. Pan-disease dimensions in the brain, eye, and heart capture shared and specific heterogeneity Nature Mental Health. Link

* The MULTI Consortium, Boquet-Pujadas, A., Anagnostakis, F., Yang, Z., Tian, Y.E., Duggan, M.R., Erus, G., Srinivasan, D., Joynes, C.M., Bai, W., Patel, P.J. and Walker, K.A., Wen, J., 2026. Multi-organ AI endophenotypes chart the heterogeneity of brain, eye and heart pan-disease. Nature Mental Health, Link

* The MULTI Consortium, O’Toole, C.K., Song, Z., Anagnostakis, F., Yang, Z., Tian, Y.E., Duggan, M.R., Zou, C., Leng, Y., Cai, Y., Bai, W. and Fu, C.H., Wen, J., 2026. Sleep chart of biological aging clocks in middle and late life. Under revision, Link

* Li, R., Feng, R., Liu, A., Cao, X., De Jager, P.L., Bennett, D.A., Alzheimer's Disease Functional Genomics Consortium, Davatzikos, C., Wen, J., and Wang, G., Neuroimaging-derived brain endophenotypes link molecular mechanisms to Alzheimer's disease and aging. medRxiv, pp.2025-11., 2025. In preparation, Link

* The MULTI Consortium, Cao, H., Song, Z., Duggan, M.R., Erus, G., Srinivasan, D., Tian, Y.E., Bai, W., Rafii, M.S., Aisen, P. and Belsky, D.W., Wen, J., 2025. MRI-based multi-organ clocks for healthy aging and disease assessment. Nature Medicine, Link

* The MULTI Consortium, Boquet-Pujadas, A., Anagnostakis, F., Duggan, M.R., Joynes, C.M., Toga, A.W., Yang, Z., Walker, K.A., Davatzikos, C., and Wen, J., (2025). Brain-heart-eye axis revealed by multi-organ imaging genetics and proteomics. Nature Biomedical Engineering, DOI: 10.1038/s41551-025-01506-5, Link

* Wen, J., (2025). Towards a multi-organ, multi-omics medical digital twin. Nature Biomedical Engineering, Link

* Wen, J., (2025). Refining the generation, interpretation, and application of multi-organ, multi-omics biological aging clocks. Nature Aging, Link.

* Duggan, M. R., Yang, S., Gomez, G. T., Cui, Y., Capuano, A. W., Chen, J., Yang, Z., Wen, J., Erus, G., Drouin, S. M., Zweibaum, D., Tian, Q., Candia, J., Bilgel, M., Lewis, A., Moghekar, A., Ashton, N. J., Kac, P. R., Karikari, T. K., … Walker, K. A. (2025). Proteomic signatures of Corona and herpes viral antibodies identify IGDCC4 as a mediator of neurodegeneration, 11(22). Science Advances, Link

* Wen, J., Skampardoni, I., Tian, Y.E., Yang, Z., Cui, Y., Erus, G., Hwang, G., Varol, E., Boquet-Pujadas, A., Chand, G.B. and Nasrallah, I., 2025. Neuroimaging endophenotypes reveal underlying mechanisms and genetic factors contributing to progression and development of four brain disorders. Nature Biomedical Engineering. Link

* The MULTI Consortium, Anagnostakis, F., Ko, S., Saadatinia, M., Wang, J. Davatzikos, C., and Wen, J., 2025. Multi-organ metabolome biological age implicates cardiometabolic conditions and mortality risk. (2025), Nature Communications, Link

* Bao, J., Wen, J., Chang C., Mu S., Chen J., Shivakumar M., Cui Y., Erus G., Yang Z., Yang S., Wen Z., Zhao Y., Kim D., Duong-Tran D., Saykin A., Zhao Z., Davatzikos C., Long Q., Shen L. (2025). A genetically informed brain atlas for enhancing brain imaging genomics. Nature Communications, Link

* Chen, J., Ionita, M., Feng, Y., Lu, Y., Orzechowski, P., Garai, S., Hassinger, K., Bao, J., Wen, J., Duong-Tran, D. and Wagenaar, J., (2025). Automated cytometric gating with human-level performance using bivariate segmentation. Nature Communications, Link

* Boquet-Pujadas, A., Zeng, J., Tian, Y.E., Yang, Z., Shen, L., Zalesky, A., Davatzikos, C., the MULTI Consortium, and Wen, J., 2025. MUTATE: A Human Genetic Atlas of Multi-organ AI Endophenotypes using GWAS Summary Statistics. pp.2024-06. Briefings in Bioinformatics, Link

* Anagnostakis, F., Kokkorakis, M., Walker, K.A., Skampardoni, I., Wen, J., Erus, G., Tosun, D., Tassopoulou, V., Cui, Y., Govindarajan, S.T., and Srinivasan, D., 2025. Radiomic and proteomic signatures of body mass index on brain ageing and Alzheimer's-like patterns of brain atrophy, 116. EBioMedicine. Link

* Anagnostakis, F., Kokkorakis, M., Asvestis, C., Papadimopoulos, I., Nagarajan, S., Talbot, K., Li, L., Chen, Y., Nasrallah, I.M., Wen, J., and Davatzikos, C., 2025. Impact of cardiometabolic conditions on the progression from mild cognitive impairment to dementia: A large cohort study, 21(9), p.e70692. Alzheimer's & Dementia. Link

* Ratzan, A., Goel, S., Wen, J., Davatzikos, C. and Varol, E., Predicting Functional Brain Connectivity with Context-Aware Deep Neural Networks. NeuroIPS. Link

* Xiao, W., Woodham, R.D., Cui, Y., Wen, J., Antoniades, M., Srinivasan, D., Fan, Y., Erus, G., Garcia, J.A., Arnott, S.R. and Chen, T., 2025. Neuroanatomical dimensions in major depression linked to cognition, adverse life events, self-harm, metabolomics and genetics. Communications Medicine. Link

* Duggan, M.R., Sipilä, P.N., Yang, Z., Wen, J., Erus, G., Bilgel, M., Lewis, A., Moghekar, A., Davatzikos, C., Resnick, S.M. and Kivimäki, M., 2025. Post-infection brain atrophy accelerates cognitive and molecular changes underlying dementia. Alzheimer's Research & Therapy. Link

* Vilor-Tejedor, N., Rodriguez-Fernandez, B., Genius, P., Luckett, E.S., Anastasi, F., Lorenzini, L., Murray, H., Bull, C., Clement, M.H., Morris, A. and Navarro, A., 2025. Genomics and Transcriptomics of Alzheimer Disease (pp. 365-400). Cham: Springer Nature Switzerland. Biomarkers of Neurodegenerative Disorders: Current Progress and Future Directions. Link

* Min, J.J., Bao, J., Baik, J.Y., Wen, J., Zhao, Y., Thompson, P.M., Shen, L. and Duong-Tran, D., 2025. Brain-Body Signatures of Trait Anxiety Uniquely Characterized by Functional Dynamics, Allostatic Load and Gene Expression, pp.2025-10. medRxiv. Link

* Li, R., Feng, R., Liu, A., Cao, X., De Jager, P.L., Bennett, D.A., Alzheimer's Disease Functional Genomics Consortium, Davatzikos, C., Wen, J. (Co-senior), and Wang, G., 2025. Neuroimaging-derived brain endophenotypes link molecular mechanisms to Alzheimer's disease and aging, pp.2025-11. medRxiv. Link

* Wen, J., Wen, J., Yang, Z., Nasrallah, I.M., Cui, Y., Erus, G., Srinivasan, D., Abdulkadir, A., Mamourian, E., Hwang, G., Singh, A. and Bergman, M., 2024. Genetic and clinical correlates of two neuroanatomical AI dimensions in the Alzheimer’s disease continuum. 14(1), p.420.Translational Psychiatry. Link

* Wen, J., Tian, Y.E., Yang, Z., Cui, Y., Anagnostakis, F., Mamourian, E., Zhao, B., Toga, A.W., Zalesky, A. and Davatzikos, C., 2024. 4(9), pp.1290-1307. Nature Aging. Link

* Wen, J., 2024. Multiorgan biological age shows that no organ system is an island. Nature Aging. Link

* Yang, Z., Wen, J., Erus, G., Govindarajan, S.T., Melhem, R., Mamourian, E., Cui, Y., Srinivasan, D., Abdulkadir, A., Parmpi, P. and Wittfeld, K., 2024. Brain aging patterns in a large and diverse cohort of 49,482 individuals. 30(10), pp.3015-3026. Nature Medicine. Link

* Wen, J., Zhao, B., Yang, Z., Erus, G., Mamourian, E., Cui, Y., Hwang, G., Bao, J., Boquet-Pujadas, A. and Zhou, Z., 2024. The genetic architecture of multimodal human brain age. 15(1), p.2604. Nature Communications. Link

* Wen, J., Antoniades, M., Yang, Z., Hwang, G., Wang, R. and Davatzikos, C., 2024. Dimensional neuroimaging endophenotypes: neurobiological representations of disease heterogeneity through machine learning. Biological Psychiatry. Link

* Yang, Z., Wen, J., (2024). Gene-SGAN: discovering disease subtypes with imaging and genetic signatures via multi-view weakly-supervised deep clustering. Nature Communications. Link

* Skampardoni, I., Nasrallah, IM., Abdulkadir, A., Wen, J., Melhem, R., Mamourian, E., Erus, G., Doshi, J., Singh, A., Yang, Z. and Cui, Y., 2024. Genetic and clinical correlates of AI-based brain aging patterns in cognitively unimpaired individuals., 81(5), pp.456-467. JAMA Pyschiatry. Link

* Wen, Z., Bao, J., Yang, S., Wen, J., Zhan, Q., Cui, Y., Erus, G., Yang, Z., Thompson, P.M., Zhao, Y. and Davatzikos, C., 2024, May. Multiscale Estimation of Morphometricity for Revealing Neuroanatomical Basis of Cognitive Traits, 2024. ISBI, IEEE. Link

* Skampardoni, I., Wen, J., Guray, E., Shou, H., Nikita, K. and Davatzikos, C., 2024, May. Mutually-Constrained Cross-Sectional and Longitudinal Non-Negative Matrix Factorization: Application to Modeling Brain Aging Trajectories, 2024. ISBI, IEEE. Link

* Hou, B., Wen, Z., Bao, J., Zhang, R., Tong, B., Yang, S., Wen, J., Cui, Y., Moore, J.H., Saykin, A.J. and Huang, H., 2024. Interpretable deep clustering survival machines for alzheimer’s disease subtype discovery, 97, p.103231. Medical image analysis. Link

* Duggan, M.R., Yang, Z., Cui, Y., Dark, H.E., Wen, J., Erus, G., Hohman, T.J., Chen, J., Lewis, A., Moghekar, A. and Coresh, J., 2024. Proteomic analyses reveal plasma EFEMP1 and CXCL12 as biomarkers and determinants of neurodegeneration, 20(9), pp.6486-6505. Alzheimer's & Dementia. Link

* Antoniades, M., Srinivasan, D., Wen, J., Erus, G., Abdulkadir, A., Mamourian, E., Melhem, R., Hwang, G., Cui, Y., Govindarajan, S.T. and Chen, A.A., 2024. Relationship between MRI brain-age heterogeneity, cognition, genetics and Alzheimer’s disease neuropathology, 109. EBioMedicine. Link

* Wen, J., Nasrallah, I.M., Abdulkadir, A., Satterthwaite, T.D., Yang, Z., Erus, G., Robert-Fitzgerald, T., Singh, A., Sotiras, A., Boquet-Pujadas, A. and Mamourian, E., 2023. Genomic loci influence patterns of structural covariance in the human brain, 120(52), p.e2300842120.. Proceedings of the National Academy of Sciences. Link

* Hwang, G., Wen, J. (co-first), Sotardi, S., (2023), Brodkin, E.S., Chand, G.B., Dwyer, D.B., Erus, G., Doshi, J., Singhal, P., Srinivasan, D. and Varol, E., 2023. Assessment of neuroanatomical endophenotypes of autism spectrum disorder and association with characteristics of individuals with schizophrenia and the general population. 80(5), pp.498-507.. JAMA Psychiatry. Link

* Wen, J., Varol, E., Yang, Z., Hwang, G., Dwyer, D., Kazerooni, A.F., Lalousis, P.A. and Davatzikos, C., 2023. Subtyping brain diseases from imaging data. pp.491-510. Machine Learning for Brain Disorders Link

* Sha, J., Bao, J., Liu, K., Yang, S., Wen, Z., Wen, J., Cui, Y., Tong, B., Moore, J.H., Saykin, A.J. and Davatzikos, C., 2023. Preference matrix guided sparse canonical correlation analysis for mining brain imaging genetic associations in Alzheimer's disease, 218, pp.27-38. Methods. Link

* Dwyer, D.B., Chand, G.B., Pigoni, A., Khuntia, A., Wen, J., Antoniades, M., Hwang, G., Erus, G., Doshi, J., Srinivasan, D. and Varol, E., 2023. Psychosis brain subtypes validated in first-episode cohorts and related to illness remission: results from the PHENOM consortium, 28(5), pp.2008-2017. Molecular psychiatry. Link

* Bao, J., Wen, J., Wen, Z., Yang, S., Cui, Y., Yang, Z., Erus, G., Saykin, A.J., Long, Q., Davatzikos, C. and Shen, L., 2023. Brain-wide genome-wide colocalization study for integrating genetics, transcriptomics and brain morphometry in Alzheimer's disease, 280, p.120346. NeuroImage. Link

* Zhou, Z., Li, H., Srinivasan, D., Abdulkadir, A., Nasrallah, I.M., Wen, J., Doshi, J., Erus, G., Mamourian, E., Bryan, N.R. and Wolk, D.A., 2023. Multiscale functional connectivity patterns of the aging brain learned from harmonized rsfMRI data of the multi-cohort iSTAGING study, 269, p.119911. NeuroImage. Link

* Wang, R., Bashyam, V., Yang, Z., Yu, F., Tassopoulou, V., Chintapalli, S.S., Skampardoni, I., Sreepada, L.P., Sahoo, D., Nikita, K. and Abdulkadir, A., Wen, J., Davatzikos, C., 2023. Applications of generative adversarial networks in neuroimaging and clinical neuroscience, 269, p.119898. NeuroImage. Link

* Wang, Z., Chen, J., Yang, W., Gara, S., Xu, F.H., Wen, J., Davatzikos, C. and Shen, L., 2023, April. Shape analysis of amygdala atrophy using SPHARM-OT (Vol. 12464, pp. 24-33). SPIE. Link

* Wen, J., Fu, C.H., Tosun, D., Veturi, Y., Yang, Z., Abdulkadir, A., Mamourian, E., Srinivasan, D., Skampardoni, I., Singh, A. and Nawani, H., 2022. Characterizing heterogeneity in neuroimaging, cognition, clinical symptoms, and genetics among patients with late-life depression. 79(5), pp.464-474. JAMA Psychiatry, 79(5), pp.464-474. Link

* Wen, J., Varol, E., Sotiras, A., Yang, Z., Chand, G.B., Erus, G., Shou, H., Abdulkadir, A., Hwang, G., Dwyer, D.B. and Pigoni, A., 2022. Multi-scale semi-supervised clustering of brain images: Deriving disease subtypes, 75, p.102304.. Medical Image Analysis, 75, p.102304. Link

* Yang, Z., Wen, J., and Davatzikos, C., (2022). Surreal-GAN: Semi-Supervised Representation Learning via GAN for uncovering heterogeneous disease-related imaging patterns. ICLR. Link

* Lalousis, P.A., Schmaal, L., Wood, S.J., Reniers, R.L., Barnes, N.M., Chisholm, K., Griffiths, S.L., Stainton, A., Wen, J., Hwang, G. and Davatzikos, C., 2022. Neurobiologically based stratification of recent-onset depression and psychosis: identification of two distinct transdiagnostic phenotypes, 92(7), pp.552-562. Biological psychiatry. Link

* Chand, G.B., Singhal, P., Dwyer, D.B., Wen, J., Erus, G., Doshi, J., Srinivasan, D., Mamourian, E., Varol, E., Sotiras, A. and Hwang, G., 2022. Schizophrenia imaging signatures and their associations with cognition, psychopathology, and genetics in the general population, 179(9), pp.650-660. American Journal of Psychiatry. Link

* Sha, J., Bao, J., Liu, K., Yang, S., Wen, Z., Cui, Y., Wen, J., Davatzikos, C., Moore, J.H., Saykin, A.J. and Long, Q., 2022, December. Preference matrix guided sparse canonical correlation analysis for genetic study of quantitative traits in alzheimer’s disease, 2022, (pp. 541-548). BIBM, IEEE. Link

* Wen, J., Samper-González, J., Bottani, S., Routier, A., Burgos, N., Jacquemont, T., Fontanella, S., Durrleman, S., Epelbaum, S., Bertrand, A. and Colliot, O., 2021. Reproducible evaluation of diffusion MRI features for automatic classification of patients with Alzheimer’s disease, 19, pp.57-78.. Neuroinformatics, 19(1), pp.57-78. Link

* Yang, Z., Nasrallah, I.M., Shou, H., Wen, J., Doshi, J., Habes, M., Erus, G., Abdulkadir, A., Resnick, S.M., Albert, M.S. and Maruff, P., 2021. A deep learning framework identifies dimensional representations of Alzheimer’s Disease from brain structure. 12(1), p.7065.. Nature Communications, pp.1-15. Link

* Yue, L., Hu, D., Zhang, H., Wen, J., Wu, Y., Li, W., Sun, L., Li, X., Wang, J., Li, G. and Wang, T., 2021. Prediction of 7‐year's conversion from subjective cognitive decline to mild cognitive impairment, 42(1), pp.192-203. Human Brain Mapping. Link

* Routier, A., Burgos, N., Díaz, M., Bacci, M., Bottani, S., El-Rifai, O., Fontanella, S., Gori, P., Guillon, J., Guyot, A. Wen, J., and Hassanaly, R., 2021. Clinica: An open-source software platform for reproducible clinical neuroscience studies, 15, p.689675. Frontiers in neuroinformatics. Link

* Ansart, M., Epelbaum, S., Bassignana, G., Bône, A., Bottani, S., Cattai, T., Couronné, R., Faouzi, J., Koval, I., Louis, M. Wen, J., and Thibeau-Sutre, E., 2021. Predicting the progression of mild cognitive impairment using machine learning: A systematic, quantitative and critical review, 67, p.101848. Medical Image Analysis. Link

* Wen, J., Thibeau-Sutre, E., Diaz-Melo, M., Samper-González, J., Routier, A., Bottani, S., Dormont, D., Durrleman, S., Burgos, N., Colliot, O. and Alzheimer's Disease Neuroimaging Initiative, 2020. Convolutional neural networks for classification of Alzheimer's disease: Overview and reproducible evaluation, 63, p.101694. Medical image analysis, 63, p.101694. Link

* Wen, J., Varol, E., Chand, G., Sotiras, A. and Davatzikos, C., 2020. MAGIC: Multi-scale heterogeneity analysis and clustering for brain diseases. 2020, pp. 678-687. MICCAI. Springer, Cham. Link

* Bertrand, A., Wen, J. (co-first), Rinaldi, D., Houot, M., Sayah, S., Camuzat, A., Fournier, C., Fontanella, S., Routier, A., Couratier, P. and Pasquier, F., 2018. Early cognitive, structural, and microstructural changes in presymptomatic C9orf72 carriers younger than 40 years. 75(2), pp.236-245. JAMA neurology, 75(2), pp.236-245. Link

* Wen, J., Zhang, H., Alexander, D.C., Durrleman, S., Routier, A., Rinaldi, D., Houot, M., Couratier, P., Hannequin, D., Pasquier, F. and Zhang, J., 2019. Neurite density is reduced in the presymptomatic phase of C9orf72 disease, 90(4), pp.387-394.. Journal of Neurology, Neurosurgery & Psychiatry 90(4), pp.387-394. Link

* Samper-González, J., Burgos, N., Bottani, S., Fontanella, S., Lu, P., Marcoux, A., Routier, A., Guillon, J., Bacci, M., Wen, J., and Bertrand, A., 2018. Reproducible evaluation of classification methods in Alzheimer's disease: Framework and application to MRI and PET data, 183, pp.504-521. NeuroImage. Link

* Marcoux, A., Burgos, N., Bertrand, A., Teichmann, M., Routier, A., Wen, J., Samper-González, J., Bottani, S., Durrleman, S., Habert, M.O. and Colliot, O., 2018. An automated pipeline for the analysis of PET data on the cortical surface, 12, p.94. Frontiers in Neuroinformatics. Link