Multiscale Analysis of fMRI Data with Mixture of Gaussian Densities. - François G. Meyer; Xilin Shen (ISBI, 2004)

Analysis of Event-Related fMRI Data Using Diffusion Maps. - Xilin Shen; François G. Meyer (IPMI, 2005)

Nonlinear Dimension Reduction and Activation Detection for fMRI Dataset. - Xilin Shen; François G. Meyer (CVPR Workshops, 2006)

Low-dimensional embedding of fMRI datasets. - Xilin Shen; François G. Meyer (NeuroImage, 2008)

Detection and Segmentation of Concealed Objects in Terahertz Images. - Xilin Shen; Charles R. Dietlein; Erich Grossman; Zoya Popovic; François G. Meyer (IEEE Trans. Image Process., 2008)

Classification of fMRI Time Series in a Low-Dimensional Subspace With a Spatial Prior. - François G. Meyer; Xilin Shen (IEEE Trans. Medical Imaging, 2008)

Graph-theory based parcellation of functional subunits in the brain from resting-state fMRI data. - Xilin Shen; Xenophon Papademetris; R. Todd Constable (NeuroImage, 2010)

A whole-brain voxel based measure of intrinsic connectivity contrast reveals local changes in tissue connectivity with anesthetic without a priori assumptions on thresholds or regions of interest. - Roberto Martuzzi; Ramachandran Ramani; MaoLin Qiu; Xilin Shen; Xenophon Papademetris; R. Todd Constable (NeuroImage, 2011)

Perturbation of the Eigenvectors of the Graph Laplacian: Application to Image Denoising - François G. Meyer; Xilin Shen (CoRR, 2012)

Coupled Intrinsic Connectivity: A Principled Method for Exploratory Analysis of Paired Data. - Dustin Scheinost; Xilin Shen; Emily S. Finn; Rajita Sinha; R. Todd Constable; Xenophon Papademetris (CDMRI/MMBC@MICCAI, 2013)

Groupwise whole-brain parcellation from resting-state fMRI data for network node identification. - Xilin Shen; Fuyuze Tokoglu; Xenios Papademetris; R. Todd Constable (NeuroImage, 2013)

The (in)stability of functional brain network measures across thresholds. - Kathleen A. Garrison; Dustin Scheinost; Emily S. Finn; Xilin Shen; R. Todd Constable (NeuroImage, 2015)

Fluctuations in Global Brain Activity Are Associated With Changes in Whole-Brain Connectivity of Functional Networks. - Dustin Scheinost; Fuyuze Tokoglu; Xilin Shen; Emily S. Finn; Stephanie Noble; Xenophon Papademetris; R. Todd Constable (IEEE Trans. Biomed. Eng., 2016)

Can brain state be manipulated to emphasize individual differences in functional connectivity? - Emily S. Finn; Dustin Scheinost; Daniel M. Finn; Xilin Shen; Xenophon Papademetris; R. Todd Constable (NeuroImage, 2017)

Multisite reliability of MR-based functional connectivity. - Stephanie Noble; Dustin Scheinost; Emily S. Finn; Xilin Shen; Xenophon Papademetris; Sarah C. McEwen; Carrie E. Bearden; Jean Addington; Bradley G. Goodyear; Kristin S. Cadenhead; Heline Mirzakhanian; Barbara A. Cornblatt; et al. (NeuroImage, 2017)

Considering factors affecting the connectome-based identification process: Comment on Waller et al. - Corey Horien; Stephanie Noble; Emily S. Finn; Xilin Shen; Dustin Scheinost; R. Todd Constable (NeuroImage, 2018)

An exemplar-based approach to individualized parcellation reveals the need for sex specific functional networks. - Mehraveh Salehi; Amin Karbasi; Xilin Shen; Dustin Scheinost; R. Todd Constable (NeuroImage, 2018)

Combining Multiple Behavioral Measures and Multiple Connectomes via Multipath Canonical Correlation Analysis. - Siyuan Gao; Xilin Shen; R. Todd Constable; Dustin Scheinost (MICCAI (3), 2019)

The individual functional connectome is unique and stable over months to years. - Corey Horien; Xilin Shen; Dustin Scheinost; R. Todd Constable (NeuroImage, 2019)

Ten simple rules for predictive modeling of individual differences in neuroimaging. - Dustin Scheinost; Stephanie Noble; Corey Horien; Abigail S. Greene; Evelyn M. R. Lake; Mehraveh Salehi; Siyuan Gao; Xilin Shen; David O'Connor; Daniel S. Barron; Sarah W. Yip; Monica D. Rosenberg; et al. (NeuroImage, 2019)

There is no single functional atlas even for a single individual: Functional parcel definitions change with task. - Mehraveh Salehi; Abigail S. Greene; Amin Karbasi; Xilin Shen; Dustin Scheinost; R. Todd Constable (NeuroImage, 2020)

Functional Connectivity during Encoding Predicts Individual Differences in Long-Term Memory. - Qi Lin; Kwangsun Yoo; Xilin Shen; Robert Todd Constable; Marvin M. Chun (J. Cogn. Neurosci., 2021)

A universal approach for integrating super large-scale single-cell transcriptomes by exploring gene rankings. - Hongru Shen; Xilin Shen; Mengyao Feng; Dan Wu; Chao Zhang; Yichen Yang 004; Meng Yang; Jiani Hu; Jilei Liu; Wei Wang; Yang Li; Qiang Zhang; et al. (Briefings Bioinform., 2022)

Scalable batch-correction approach for integrating large-scale single-cell transcriptomes. - Xilin Shen; Hongru Shen; Dan Wu; Mengyao Feng; Jiani Hu; Jilei Liu; Yichen Yang 004; Meng Yang; Yang Li; Lei Shi; Kexin Chen; Xiangchun Li (Briefings Bioinform., 2022)

Functional network properties derived from wide-field calcium imaging differ with wakefulness and across cell type. - David O'Connor; Francesca Mandino; Xilin Shen; Corey Horien; X. Ge; Peter Herman; Fahmeed Hyder; M. Crair; Xenophon Papademetris; EMR Lake; R. Todd Constable (NeuroImage, 2022)

A deep learning model for characterizing protein-RNA interactions from sequences at single-base resolution. - Xilin Shen; Yayan Hou; Xueer Wang; Chunyong Zhang; Jilei Liu; Hongru Shen; Wei Wang; Yichen Yang 004; Meng Yang; Yang Li; Jin Zhang; Yan Sun; et al. (Patterns, 2025)