Author

Michael Rhodes

Nanostring Technologies (United States)

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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Genomics· 4 Cancer Biology· 1 Cell Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 6 Organism:human· 6 Assay:spatial transcriptomics· 6 Research Focus:cell type annotation· 4 Research Focus:cell-cell communication· 3 Research Focus:spatial domain detection· 3 Assay:proteomics· 2 Assay:bulk RNA-seq· 1

Frequent Co-Authors

Joseph BeechemiD· 6 shared Erin PiazzaiD· 3 shared Margaret L. HoangiD· 3 shared Alecksandr J. Kutchma· 2 shared Andrew Klock· 2 shared Derek L. Buhr· 2 shared Dwayne L. Dunaway· 2 shared Jeffrey S. Nelson· 2 shared

Activity by Year

2021-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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6 shared papersGenomics

Joseph BeechemORCID

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Author profile →

6 papers

Recent·Most cited

Integrated spatial morpho-transcriptomics predicts functional traits in pancreatic cancer

Dennis H. Gong, Rachel Liu, Yi Cui, Michael Rhodes, Jung Woo Bae, Joseph Beechem, William L. Hwang

The paper integrates spatial morpho-transcriptomics to identify morphological subtypes in pancreatic cancer cell lines and tissues, linking them to gene expression, drug resistance, and metastatic potential.

Science Advances · Oct 17, 2025Peer-reviewedCancer Biology

SPACE: multimodal spatial CRISPR screening with whole-transcriptome readout at subcellular resolution in 3D models

Mengwei Hu, Yi Cui, Qianhui Huang, Khoi Chu, Sierra Mckinzie, Michael J. Patrick, Sharanya Iyengar, Maerjianghan Abuduli, Marianne L. Spatz, Nandita Joshi, Brendan Miller, Shamsudheen Karuthedath Vellarikkal, Timothy Riordan, Danny A. Bitton, Jan Lubojacky, , Vanessa M. Peterson

SPACE enables spatial CRISPR screening with whole-transcriptome and protein readouts at subcellular resolution, revealing novel regulatory mechanisms in tumor microenvironments.

bioRxiv · Sep 14, 2025 · PreprintCell Biology

Sub-cellular Imaging of the Entire Protein-Coding Human Transcriptome (18933-plex) on FFPE Tissue Using Spatial Molecular Imaging

Rustem Khafizov, Erin Piazza, Yi Cui, Michael J. Patrick, Evelyn Metzger, Daniel McGuire, Dwayne L. Dunaway, Patrick J. Danaher, Margaret L. Hoang, Andrew Grootsky, Megan E. Grout, Shanshan He, Rachel Liu, Michael McKean, Michael Rhodes, Joseph Beechem

This paper introduces a high-plex spatial molecular imaging technique capable of sub-cellular transcriptome analysis of FFPE tissues, achieving whole transcriptome coverage with high resolution and minimal dissociation bias.

bioRxiv · Nov 27, 2024 · PreprintGenomics

High-plex Multiomic Analysis in FFPE at Subcellular Level by Spatial Molecular Imaging

Shanshan He, Ruchir Bhatt, Carl Brown, Emily A. Brown, Derek L. Buhr, Kan Chantranuvatana, Patrick J. Danaher, Dwayne L. Dunaway, Ryan G. Garrison, Gary K. Geiss, Mark Gregory, Margaret L. Hoang, Rustem Khafizov, Emily E. Killingbeck, Dae Joon Kim, , Joseph Beechem

An automated in-situ imaging platform reads 980 RNAs and 108 proteins in FFPE tissue at subcellular resolution, with 0.0092 false calls per cell; 800,000-plus cells released publicly.

bioRxiv · Nov 3, 2021 · PreprintGenomics

Spatially resolved whole transcriptome profiling in human and mouse tissue using Digital Spatial Profiling

Stephanie M. Zimmerman, Robin Fropf, Bridget R. Kulasekara, Maddy Griswold, Oliver K. Appelbe, Arya J. Bahrami, Rich Boykin, Derek L. Buhr, Kit A. Fuhrman, Margaret L. Hoang, Quoc Huynh, Lesley Isgur, Andrew Klock, Alecksandr J. Kutchma, Alexa E Lasley, , Joseph Beechem

Multiplexed in situ hybridization pools against every protein-coding gene let Digital Spatial Profiling read whole transcriptomes from regions of ~10-500 cells in human and mouse tissue.

bioRxiv · Sep 29, 2021 · PreprintGenomics

Transcriptome-wide spatial RNA profiling maps the cellular architecture of the developing human neocortex

Kenny Roberts, Alexander Aivazidis, Vitalii Kleshchevnikov, Tong Li, Robin Fropf, Michael Rhodes, Joseph Beechem, Martin Hemberg, Omer Ali Bayraktar

This paper introduces a new spatial transcriptomic technology, WTA, and applies it to map the cellular architecture of the developing human neocortex, showing spatial enrichment of autism-related genes.

bioRxiv · Mar 20, 2021 · PreprintGenomics