Sampling-Based Analysis of a Spatially Distributed Model for Liver Metabolism at Steady State. - Daniela Calvetti; Amy Kuceyeski; Erkki Somersalo (Multiscale Model. Simul., 2008)

The generation and validation of white matter connectivity importance maps. - Amy Kuceyeski; Jun Maruta; Sumit N. Niogi; Jamshid Ghajar; Ashish Raj (NeuroImage, 2011)

Linking white matter integrity loss to associated cortical regions using structural connectivity information in Alzheimer's disease and fronto-temporal dementia: The Loss in Connectivity (LoCo) score. - Amy Kuceyeski; Yu Zhang; Ashish Raj (NeuroImage, 2012)

The Network Modification (NeMo) Tool: Elucidating the Effect of White Matter Integrity Changes on Cortical and Subcortical Structural Connectivity. - Amy Kuceyeski; Jun Maruta; Norman Relkin; Ashish Raj (Brain Connect., 2013)

Reduced glucose uptake and Aβ in brain regions with hyperintensities in connected white matter. - Lidia Glodzik; Amy Kuceyeski; Henry Rusinek; Wai Tsui; L. Mosconi; Y. Li; R. S. Osorio; S. Williams; C. Randall; N. Spector; P. McHugh; John Murray; et al. (NeuroImage, 2014)

Brainography: An Atlas-Independent Surface and Network Rendering Tool for Neural Connectivity Visualization. - Eve LoCastro; Amy Kuceyeski; A. Raj (Neuroinformatics, 2014)

A Mathematical Simulation to Assess Variability in Lung Nodule Size Measurement Associated With Nodule-Slice Position. - Krishna Juluru; Noor Al Khori; Sha He; Amy Kuceyeski; John Eng (J. Digit. Imaging, 2015)

3D Convolutional Neural Networks for Classification of Functional Connectomes. - Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (DLMIA/ML-CDS@MICCAI, 2018)

Ensemble learning with 3D convolutional neural networks for connectome-based prediction. - Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (CoRR, 2018)

Machine learning in resting-state fMRI analysis. - Meenakshi Khosla; Keith Jamison; Gia H. Ngo; Amy Kuceyeski; Mert R. Sabuncu (CoRR, 2018)

Detecting Abnormalities in Resting-State Dynamics: An Unsupervised Learning Approach. - Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (MLMI@MICCAI, 2019)

NeuroMeasure: A Software Package for Quantification of Cortical Motor Maps Using Frameless Stereotaxic Transcranial Magnetic Stimulation. - Michael B. Gerber; Alasdair C. McLean; Samuel J. Stephen; Alex G. Chalco; Usman M. Arshad; Gary W. Thickbroom; Josh Silverstein; K. Zoe Tsagaris; Amy Kuceyeski; Kathleen Friel; Taiza E. G. Santos; Dylan J. Edwards (Frontiers Neuroinformatics, 2019)

Ensemble learning with 3D convolutional neural networks for functional connectome-based prediction. - Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (NeuroImage, 2019)

A Shared Neural Encoding Model for the Prediction of Subject-Specific fMRI Response. - Meenakshi Khosla; Gia H. Ngo; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (MICCAI (7), 2020)

From Connectomic to Task-Evoked Fingerprints: Individualized Prediction of Task Contrasts from Resting-State Functional Connectivity. - Gia H. Ngo; Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (MICCAI (7), 2020)

Neural encoding with visual attention. - Meenakshi Khosla; Gia H. Ngo; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (NeurIPS, 2020)

NeuroGen: activation optimized image synthesis for discovery neuroscience. - Zijin Gu; Keith Jamison; Meenakshi Khosla; Emily J. Allen; Yihan Wu; Thomas Naselaris; Kendrick N. Kay; Mert R. Sabuncu; Amy Kuceyeski (CoRR, 2021)

Functional connectome reorganization relates to post-stroke motor recovery and structural and functional disconnection. - Emily R. Olafson; Keith Jamison; Elizabeth M. Sweeney; Hesheng Liu; Danhong Wang; Joel Bruss; Aaron D. Boes; Amy Kuceyeski (NeuroImage, 2021)

Estimation of Multiple Sclerosis lesion age on magnetic resonance imaging. - Elizabeth M. Sweeney; Thanh D. Nguyen; Amy Kuceyeski; Sarah M. Ryan; Shun Zhang; Lily Zexter; Yi Wang 028; Susan A. Gauthier (NeuroImage, 2021)

Characterizing the Ventral Visual Stream with Response-Optimized Neural Encoding Models. - Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (NeurIPS, 2022)

Personalized visual encoding model construction with small data. - Zijin Gu; Keith Jamison; Mert R. Sabuncu; Amy Kuceyeski (CoRR, 2022)

NeuroGen: Activation optimized image synthesis for discovery neuroscience. - Zijin Gu; Keith Jamison; Meenakshi Khosla; Emily J. Allen; Yihan Wu; Ghislain St-Yves; Thomas Naselaris; Kendrick N. Kay; Mert R. Sabuncu; Amy Kuceyeski (NeuroImage, 2022)

Predicting individual task contrasts from resting-state functional connectivity using a surface-based convolutional network. - Gia H. Ngo; Meenakshi Khosla; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (NeuroImage, 2022)

Decoding natural image stimuli from fMRI data with a surface-based convolutional network. - Zijin Gu; Keith Jamison; Amy Kuceyeski; Mert R. Sabuncu (MIDL, 2023)

Computational modelling in disorders of consciousness: Closing the gap towards personalised models for restoring consciousness. - Andrea I. Luppi; Joana Cabral; Rodrigo Cofré; Pedro A. M. Mediano; Fernando E. Rosas; Abid Y. Qureshi; Amy Kuceyeski; Enzo Tagliazucchi; Federico Raimondo; Gustavo Deco; James M. Shine; Morten L. Kringelbach; et al. (NeuroImage, 2023)

Comparisons of electrophysiological markers of impaired executive attention after traumatic brain injury and in healthy aging. - Nayoung Kim; Keith Jamison; Abhishek Jaywant; Jacob Garetti; Emily Blunt; Arindam Roychoudhury; Tracy Butler; Kristen Dams-O'Connor; Shahenda Khedr; Chun-Cheng Chen; Teena Shetty; Robert J. Winchell; et al. (NeuroImage, 2023)