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  • Li Shen
2020

A multi-model deep convolutional neural network for automatic hippocampus segmentation and classification in Alzheimer's disease

Liu, M., Li, F., Yan, H., Wang, K., Ma, Y., Shen, L. & Xu, M., Mar 2020, In : NeuroImage. 208, 116459.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

A super-combo-drug test to detect adverse drug events and drug interactions from electronic health records in the era of polypharmacy

Zhu, A., Zeng, D., Shen, L., Ning, X., Li, L. & Zhang, P., May 15 2020, In : Statistics in Medicine. 39, 10, p. 1458-1472 15 p.

Research output: Contribution to journalArticle

Brain Imaging Genomics: Integrated Analysis and Machine Learning

Shen, L. & Thompson, P. M., Jan 2020, In : Proceedings of the IEEE. 108, 1, p. 125-162 38 p., 8886705.

Research output: Contribution to journalArticle

Brain-wide structural connectivity alterations under the control of Alzheimer risk genes

Yan, J., Vinesh Raja, V., Huang, Z., Amico, E., Nho, K., Fang, S., Sporns, O., Wu, Y. C., Saykin, A., Goñi, J. & Shen, L., 2020, In : International Journal of Computational Biology and Drug Design. 13, 1, p. 58-70 13 p.

Research output: Contribution to journalArticle

Deep Network-Based Feature Selection for Imaging Genetics: Application to Identifying Biomarkers for Parkinson's Disease

Kim, M., Won, J. H., Hong, J., Kwon, J., Park, H. & Shen, L., Apr 2020, ISBI 2020 - 2020 IEEE International Symposium on Biomedical Imaging. IEEE Computer Society, p. 1920-1923 4 p. 9098471. (Proceedings - International Symposium on Biomedical Imaging; vol. 2020-April).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Detecting genetic associations with brain imaging phenotypes in Alzheimer's disease via a novel structured SCCA approach

Du, L., Liu, K., Yao, X., Risacher, S. L., Han, J., Saykin, A. J., Guo, L. & Shen, L., Apr 2020, In : Medical Image Analysis. 61, 101656.

Research output: Contribution to journalArticle

1 Scopus citations

Drug-drug interaction prediction based on co-medication patterns and graph matching

Chiang, W. H., Shen, L., Li, L. & Ning, X., 2020, In : International Journal of Computational Biology and Drug Design. 13, 1, p. 36-57 22 p.

Research output: Contribution to journalArticle

FAM222A encodes a protein which accumulates in plaques in Alzheimer’s disease

The Alzheimer Disease Neuroimaging Initiative, Dec 1 2020, In : Nature communications. 11, 1, 411.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Functional brain architecture is associated with the rate of tau accumulation in Alzheimer’s disease

Alzheimer’s Disease Neuroimaging Initiative (ADNI), Dec 1 2020, In : Nature communications. 11, 1, 347.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Hierarchical Structured Sparse Learning for Schizophrenia Identification

Wang, M., Hao, X., Huang, J., Wang, K., Shen, L., Xu, X., Zhang, D. & Liu, M., Jan 1 2020, In : Neuroinformatics. 18, 1, p. 43-57 15 p.

Research output: Contribution to journalArticle

Ideas for how informaticians can get involved with COVID-19 research

Moore, J. H., Barnett, I., Boland, M. R., Chen, Y., Demiris, G., Gonzalez-Hernandez, G., Herman, D. S., Himes, B. E., Hubbard, R. A., Kim, D., Morris, J. S., Mowery, D. L., Ritchie, M. D., Shen, L., Urbanowicz, R. & Holmes, J. H., May 12 2020, In : BioData Mining. 13, 1, 3.

Research output: Contribution to journalReview article

Open Access

Identifying diagnosis-specific genotype-phenotype associations via joint multitask sparse canonical correlation analysis and classification

Alzheimer’s Disease Neuroimaging Initiative, Jul 1 2020, In : Bioinformatics (Oxford, England). 36, 1, p. i371-i379

Research output: Contribution to journalArticle

Open Access

Joint Multi-Modal Longitudinal Regression and Classification for Alzheimer's Disease Prediction

Brand, L., Nichols, K., Wang, H., Shen, L. & Huang, H., Jun 2020, In : IEEE Transactions on Medical Imaging. 39, 6, p. 1845-1855 11 p., 8932589.

Research output: Contribution to journalArticle

Mining and visualizing high-order directional drug interaction effects using the FAERS database

Yao, X., Tsang, T., Sun, Q., Quinney, S., Zhang, P., Ning, X., Li, L. & Shen, L., Mar 18 2020, In : BMC medical informatics and decision making. 20, 50.

Research output: Contribution to journalArticle

Open Access

Multi-modal neuroimaging feature selection with consistent metric constraint for diagnosis of Alzheimer's disease

for the Alzheimer's Disease Neuroimaging Initiative, Feb 2020, In : Medical Image Analysis. 60, 101625.

Research output: Contribution to journalArticle

6 Scopus citations

Predicting Longitudinal Outcomes of Alzheimer's Disease via a Tensor-Based Joint Classification and Regression Model

Alzheimer’s Disease Neuroimaging Initiative, Jan 1 2020, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 25, p. 7-18 12 p.

Research output: Contribution to journalArticle

1 Scopus citations

Regional imaging genetic enrichment analysis

Yao, X., Cong, S., Yan, J., Risacher, S. L., Saykin, A. J., Moore, J. H. & Shen, L., Apr 15 2020, In : Bioinformatics. 36, 8, p. 2554-2560 7 p.

Research output: Contribution to journalArticle

1 Scopus citations

The genetic architecture of the human cerebral cortex

Enhancing NeuroImaging Genetics through Meta-Analysis Consortium (ENIGMA)-Genetics working group, Mar 20 2020, In : Science. 367, 6484, aay6690.

Research output: Contribution to journalArticle

34 Scopus citations

Volumetric GWAS of medial temporal lobe structures identifies an ERC1 locus using ADNI high-resolution T2-weighted MRI data

UK Brain Expression Consortium & Alzheimer's Disease Neuroimaging Initiative, Nov 2020, In : Neurobiology of Aging. 95, p. 81-93 13 p.

Research output: Contribution to journalArticle

Open Access
2018

A Network-Based Framework for Mining High-Level Imaging Genetic Associations

Liang, H., Meng, X., Chen, F., Zhang, Q., Yan, J., Yao, X., Kim, S., Wang, L., Feng, W., Saykin, A. J., Li, J. & Shen, L., Jan 1 2018, Imaging Genetics. Elsevier Inc., p. 119-134 16 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

A novel SCCA approach via truncated â.," 1-norm and truncated group lasso for brain imaging genetics

Du, L., Liu, K., Zhang, T., Yao, X., Yan, J., Risacher, S. L., Han, J., Guo, L., Saykin, A. J. & Shen, L., Jan 15 2018, In : Bioinformatics. 34, 2, p. 278-285 8 p.

Research output: Contribution to journalArticle

11 Scopus citations

A Review of Statistical-learning Imaging Genetics

Hao, X. K., Li, C. X., Yan, J. W., Shen, L. & Zhang, D. Q., Jan 2018, In : Zidonghua Xuebao/Acta Automatica Sinica. 44, 1, p. 13-24 12 p.

Research output: Contribution to journalReview article

Bootstrapped Sparse Canonical Correlation Analysis: Mining Stable Imaging and Genetic Associations With Implicit Structure Learning. Mining Stable Imaging and Genetic Associations With Implicit Structure Learning.

Yan, J., Du, L., Kim, S., Risacher, S. L., Huang, H., Inlow, M., Moore, J. H., Saykin, A. J. & Shen, L., Jan 1 2018, Imaging Genetics. Elsevier Inc., p. 101-117 17 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Characteristic patterns of inter- and intra-hemispheric metabolic connectivity in patients with stable and progressive mild cognitive impairment and Alzheimer’s disease

for the Alzheimer’s Disease Neuroimaging Initiative, Dec 1 2018, In : Scientific reports. 8, 1, 13807.

Research output: Contribution to journalArticle

4 Scopus citations

GPU Accelerated Browser for Neuroimaging Genomics

Alzheimer’s Disease Neuroimaging Initiative, Oct 1 2018, In : Neuroinformatics. 16, 3-4, p. 393-402 10 p.

Research output: Contribution to journalArticle

Heritability estimation of reliable connectomic features

Xie, L., Amico, E., Salama, P., Wu, Y. C., Fang, S., Sporns, O., Saykin, A. J., Goñi, J., Yan, J. & Shen, L., Jan 1 2018, Connectomics in NeuroImaging - 2nd International Workshop, CNI 2018, Held in Conjunction with MICCAI 2018, Proceedings. Wu, G., Schirmer, M. D., Chung, A. W., Rekik, I. & Munsell, B. (eds.). Springer Verlag, p. 58-66 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11083 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Image Registration and Predictive Modeling: Learning the Metric on the Space of Diffeomorphisms

Mussabayeva, A., Kroshnin, A., Kurmukov, A., Denisova, Y., Shen, L., Cong, S., Wang, L. & Gutman, B. A., Jan 1 2018, Shape in Medical Imaging - International Workshop, ShapeMI 2018, Held in Conjunction with MICCAI 2018, Proceedings. Lombaert, H., Paniagua, B., Egger, B., Lüthi, M., Reuter, M. & Wachinger, C. (eds.). Springer Verlag, p. 160-168 9 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11167 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Imaging genomics

Huang, H., Shen, L., Thompson, P. M., Huang, K., Huang, J. & Yang, L., 2018, In : Pacific Symposium on Biocomputing. 0, 212669, p. 304-306 3 p.

Research output: Contribution to journalConference article

2 Scopus citations

Joint exploration and mining of memory-relevant brain anatomic and connectomic patterns via a three-way association model

Yan, J., Liu, K., Lv, H., Amico, E., Risacher, S. L., Wu, Y. C., Fang, S., Sporns, O., Saykin, A. J., Goni, J. & Shen, L., May 23 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018. IEEE Computer Society, p. 6-9 4 p. (Proceedings - International Symposium on Biomedical Imaging; vol. 2018-April).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Joint high-order multi-task feature learning to predict the progression of Alzheimer’s disease

ADNI, Jan 1 2018, Medical Image Computing and Computer Assisted Intervention – MICCAI 2018 - 21st International Conference, 2018, Proceedings. Schnabel, J. A., Davatzikos, C., Alberola-López, C., Fichtinger, G. & Frangi, A. F. (eds.). Springer Verlag, p. 555-562 8 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11070 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Scopus citations

Longitudinal genotype-phenotype association study through temporal structure auto-learning predictive model

Wang, X., Yan, J., Yao, X., Kim, S., Nho, K., Risacher, S. L., Saykin, A. J., Shen, L. & Huang, H., Jul 2018, In : Journal of Computational Biology. 25, 7, p. 809-824 16 p.

Research output: Contribution to journalArticle

2 Scopus citations

Mixture drug-count response model for the high-dimensional drug combinatory effect on myopathy

Wang, X., Zhang, P., Chiang, C. W., Wu, H., Shen, L., Ning, X., Zeng, D., Wang, L., Quinney, S. K., Feng, W. & Li, L., Feb 20 2018, In : Statistics in Medicine. 37, 4, p. 673-686 14 p.

Research output: Contribution to journalArticle

4 Scopus citations

Multiple incomplete views clustering via non-negative matrix factorization with its application in Alzheimer's disease analysis

Liu, K., Wang, H., Risacher, S., Saykin, A. & Shen, L., May 23 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018. IEEE Computer Society, Vol. 2018-April. p. 1402-1405 4 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Scopus citations

Pattern Discovery from High-Order Drug-Drug Interaction Relations

Chiang, W. H., Schleyer, T., Shen, L., Li, L. & Ning, X., Sep 1 2018, In : Journal of Healthcare Informatics Research. 2, 3, p. 272-304 33 p.

Research output: Contribution to journalArticle

Predicting progressions of cognitive outcomes via high-order multi-modal multi-task feature learning

Lu, L., Wang, H., Yao, X., Risacher, S., Saykin, A. & Shen, L., May 23 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging, ISBI 2018. IEEE Computer Society, Vol. 2018-April. p. 545-548 4 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Scopus citations

Quantitative trait loci identification for brain endophenotypes via new additive model with random networks

Wang, X., Chen, H., Yan, J., Nho, K., Risacher, S. L., Saykin, A. J., Shen, L. & Huang, H., Sep 1 2018, In : Bioinformatics. 34, 17, p. i866-i874

Research output: Contribution to journalArticle

1 Scopus citations

Translational High-Dimensional Drug Interaction Discovery and Validation Using Health Record Databases and Pharmacokinetics Models

Chiang, C. W., Zhang, P., Wang, X., Wang, L., Zhang, S., Ning, X., Shen, L., Quinney, S. K. & Li, L., Feb 2018, In : Clinical Pharmacology and Therapeutics. 103, 2, p. 287-295 9 p.

Research output: Contribution to journalArticle

13 Scopus citations

Uncovering the heterogeneity and temporal complexity of neurodegenerative diseases with Subtype and Stage Inference

The Genetic FTD Initiative (GENFI) & The Alzheimer’s Disease Neuroimaging Initiative (ADNI), Dec 1 2018, In : Nature communications. 9, 1, 4273.

Research output: Contribution to journalArticle

33 Scopus citations

Volumetric comparison of hippocampal subfields extracted from 4-minute accelerated vs. 8-minute high-resolution T2-weighted 3T MRI scans

Cong, S., Risacher, S. L., West, J. D., Wu, Y. C., Apostolova, L. G., Tallman, E., Rizkalla, M., Salama, P., Saykin, A. J. & Shen, L., Dec 1 2018, In : Brain Imaging and Behavior. 12, 6, p. 1583-1595 13 p.

Research output: Contribution to journalArticle

3 Scopus citations
2017

A fast SCCA algorithm for big data analysis in brain imaging genetics

Alzheimer’s Disease Neuroimaging Initiative, 2017, Graphs in Biomedical Image Analysis, Computational Anatomy and Imaging Genetics - 1st International Workshop, GRAIL 2017 6th International Workshop, MFCA 2017 and 3rd International Workshop, MICGen 2017 Held in Conjunction with MICCAI 2017, Proceedings. Springer Verlag, Vol. 10551 LNCS. p. 210-219 10 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 10551 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Scopus citations

Association analysis of rare variants near the APOE region with CSF and neuroimaging biomarkers of Alzheimer’s disease

Nho, K., Kim, S., Horgusluoglu, E., Risacher, S. L., Shen, L., Kim, D., Lee, S., Foroud, T., Shaw, L. M., Trojanowski, J. Q., Aisen, P. S., Petersen, R. C., Jack, C. R., Weiner, M. W., Green, R. C., Toga, A. W. & Saykin, A. J., May 24 2017, In : BMC Medical Genomics. 10, 29.

Research output: Contribution to journalArticle

9 Scopus citations

Association of plasma neurofilament light with neurodegeneration in patients with Alzheimer disease

Alzheimer's Disease Neuroimaging Initiative, May 2017, In : JAMA Neurology. 74, 5, p. 557-566 10 p.

Research output: Contribution to journalArticle

214 Scopus citations

BECA: A Software Tool for Integrated Visualization of Human Brain Data

Li, H., Fang, S., Zigon, B., Sporns, O., Saykin, A. J., Goñi, J. & Shen, L., Jan 1 2017, Brain Informatics - International Conference, BI 2017, Proceedings. Zeng, Y., Xu, B., Martone, M., He, Y., Peng, H., Luo, Q. & Kotaleski, J. H. (eds.). Springer Verlag, p. 285-291 7 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 10654 LNAI).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Brain explorer for connectomic analysis

for the Alzheimer’s Disease Neuroimaging Initiative, Dec 1 2017, In : Brain Informatics. 4, 4, p. 253-269 17 p.

Research output: Contribution to journalArticle

1 Scopus citations

ENIGMA and the individual: Predicting factors that affect the brain in 35 countries worldwide

Thompson, P. M., Dennis, E. L., Gutman, B. A., Hibar, D. P., Jahanshad, N., Kelly, S., Stein, J. L., Whelan, C. D., Andreassen, O. A., Arias-Vasquez, A., Bearden, C. E., Boedhoe, P. S., van den Heuvel, O. L., Veltman, D. J., Brouwer, R. M., de Reus, M. A., Pol, H. E. H., van den Heuvel, M. P., Buckner, R. L., Buitelaar, J. K. & 51 others, Fisher, S. E., Francks, C., Franke, B., Hoogman, M., van Rooij, D., Bulayeva, K. B., Cannon, D. M., McDonald, C., Cohen, R. A., Conrod, P. J., Dale, A. M., Holland, D., Deary, I. J., Wardlaw, J. M., Desrivieres, S., Schumann, G., Dima, D., Frangou, S., Donohoe, G., Guadalupe, T., Fouche, J. P., Stein, D. J., Ganjgahi, H., Garavan, H., Glahn, D. C., Grabe, H. J., Hashimoto, R., Hosten, N., Kochunov, P., Kremen, W. S., Lee, P. H., Mackey, S., Mazoyer, B., Martin, N. G., Medland, S. E., Morey, R. A., Nichols, T. E., Paus, T., Pausova, Z., Shen, L., Sisodiya, S. M., Smit, D. J. A., Smoller, J. W., Toro, R., Turner, J. A., Schmaal, L., van Erp, T. G. M., Walter, H., Wang, Y., Wright, M. J. & Ye, J., Jan 15 2017, In : NeuroImage. 145, p. 389-408 20 p.

Research output: Contribution to journalArticle

84 Scopus citations

Genome-wide association and interaction studies of CSF T-tau/Aβ42 ratio in ADNI cohort

Li, J., Zhang, Q., Chen, F., Meng, X., Liu, W., Chen, D., Yan, J., Kim, S., Wang, L., Feng, W., Saykin, A. J., Liang, H. & Shen, L., Sep 2017, In : Neurobiology of Aging. 57, p. 247.e1-247.e8

Research output: Contribution to journalArticle

12 Scopus citations

Genome-wide network-based pathway analysis of CSF t-tau/Aβ1-42 ratio in the ADNI cohort

for the Alzheimer's Disease Neuroimaging Initiative, May 30 2017, In : BMC genomics. 18, 1, 421.

Research output: Contribution to journalArticle

6 Scopus citations

Identification of associations between genotypes and longitudinal phenotypes via temporally-constrained group sparse canonical correlation analysis

Hao, X., Li, C., Yan, J., Yao, X., Risacher, S. L., Saykin, A. J., Shen, L. & Zhang, D., Jul 15 2017, In : Bioinformatics. 33, 14, p. i341-i349

Research output: Contribution to journalArticle

10 Scopus citations

Identification of discriminative imaging proteomics associations in Alzheimer’s disease via a novel sparse correlation model

Alzheimer's Disease Neuroimaging Initiative, 2017, In : Pacific Symposium on Biocomputing. 0, 212679, p. 94-104 11 p.

Research output: Contribution to journalConference article

Open Access
5 Scopus citations

Identifying associations between brain imaging phenotypes and genetic factors via a novel structured SCCA approach

Du, L., Zhang, T., Liu, K., Yan, J., Yao, X., Risacher, S. L., Saykin, A., Han, J., Guo, L. & Shen, L., 2017, Information Processing in Medical Imaging - 25th International Conference, IPMI 2017, Proceedings. Springer Verlag, Vol. 10265 LNCS. p. 543-555 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 10265 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

5 Scopus citations