Author

Samar Khalil

Brigham and Women's Hospital

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Neuroscience· 2

Signature Assays, Organisms & Methods

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Assay:imaging· 2 Approach:statistical model· 2 Research Focus:batch correction / integration· 1 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:dimensionality reduction· 1 Organism:human· 1

Frequent Co-Authors

Anna L. DuValiD· 2 shared Blake E. DeweyiD· 2 shared Daniel S. ReichiD· 2 shared Govind NairiD· 2 shared Kelly A. ClarkiD· 2 shared Nicole PellegriniiD· 2 shared Peter A. CalabresiiD· 2 shared Rohit BakshiiD· 2 shared

Activity by Year

2022-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersNeuroscience

Anna L. DuValORCID

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2 papers

Recent·Most cited

Deconfounded Dimension Reduction via Partial Embeddings

Andrew A. Chen, Kelly A. Clark, Blake E. Dewey, Anna L. DuVal, Nicole Pellegrini, Govind Nair, Youmna Jalkh, Samar Khalil, Jon Zurawski, Peter A. Calabresi, Daniel S. Reich, Rohit Bakshi, Haochang Shou, Russell Taki Shinohara, the Alzheimer’s Disease Neuroimaging Initiative, the North American Imaging in Multiple Sclerosis Cooperative

The paper introduces the PARE framework to remove confounders from dimension reduction methods, showing it can eliminate batch effects in single-cell data and separate clinical from technical variability in neuroimaging.

bioRxiv · Jan 10, 2023 · PreprintNeuroscience

Inter-scanner brain MRI volumetric biases persist even in a harmonized multi-subject study of multiple sclerosis

Kelly A. Clark, Carly M. O’Donnell, Mark A. Elliott, Shahamat Tauhid, Blake E. Dewey, Renxin Chu, Samar Khalil, Govind Nair, Pascal Sati, Anna L. DuVal, Nicole Pellegrini, Amit Bar‐Or, Clyde Markowitz, Matthew K. Schindler, Jonathan D. Zurawski, , the NAIMS Cooperative

This study shows that brain MRI volumetric biases persist across different scanners in a harmonized MS study, with site explaining over 50% of volume variation.

bioRxiv · May 5, 2022 · PreprintNeuroscience