Author

Marie Bleakley

Fred Hutch Cancer CenterORCID 0000-0002-7018-8702Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Signature Assays, Organisms & Methods

Click to filter · or open tag

Research Focus:differential expression· 2 Organism:human· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1 Assay:long-read sequencing· 1

Frequent Co-Authors

Ashley GrayiD· 1 shared Bo YuiD· 1 shared Carla A. Jaeger-RuckstuhliD· 1 shared Everett Fan· 1 shared Jason G. Underwood· 1 shared Jeffrey Stevens· 1 shared Monica S. ThakariD· 1 shared Philip H BradleyiD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

1 shared paperMolecular Biology

Ashley GrayORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Characterization of Cancer-Reactive T Cells and Neoantigen-specific T Cell Receptors

Wei Sun, Si Liu, Bo Yu, Zhehao Zhang, Philip H Bradley, Marie Bleakley

The paper develops computational tools to identify cancer-reactive T cells and neoantigen-specific TCRs, showing their variability across cancer types and predictive value for immunotherapy response.

bioRxiv · Oct 29, 2025 · PreprintCancer Biology

Quantifying HLA transcripts by genotype in chimeric mixtures at single-cell resolution

Sami B. Kanaan, Jason G. Underwood, Rula Green Gladden, Everett Fan, Shruti S. Bhise, Monica S. Thakar, Carla A. Jaeger-Ruckstuhl, Jeffrey Stevens, Ashley Gray, Stanley R. Riddell, Marie Bleakley, Soheil Meshinchi, Scott N. Furlan

This paper introduces scrHLA-typing, a method to quantify HLA transcripts in single cells using long-read sequencing, showing its ability to detect allele-specific expression in post-transplant relapse samples.

bioRxiv · Sep 12, 2025 · PreprintMolecular Biology