Author

William Bowie

Baylor College of Medicine

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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Bioinformatics· 2 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Organism:mouse· 2 Assay:spatial transcriptomics· 2 Assay:bulk RNA-seq· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell-cell communication· 1 Approach:deep learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Qian ZhuiD· 3 shared Benjamin Strope· 2 shared Alex J. SmithiD· 1 shared C. Zhang· 1 shared Charles M. PerouiD· 1 shared Constanze V. OehleriD· 1 shared Dana Varghese· 1 shared Diego A. PedrozaiD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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3 shared papersBioinformatics

Qian ZhuORCID

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3 papers

Recent·Most cited

CancerSTFormer enables multi-scale analysis of spot-resolution spatial transcriptomes and dissects the gene and immune regulatory responses of targeted therapies

Benjamin Strope, Dana Varghese, William Bowie, Stacy Wang, Qian Zhu

CancerSTFormer analyzes spatial transcriptomes to study cancer niches and therapy responses at multiple scales.

bioRxiv · Mar 3, 2026 · PreprintBioinformatics

Anti-CSF-1R therapy with combined immuno- chemotherapy coordinate an adaptive immune response to eliminate macrophage enriched Triple Negative Breast Cancers

Diego A. Pedroza, Xueying Yuan, Fengshuo Liu, Hilda L. Chan, C. Zhang, William Bowie, Alex J. Smith, Sebastian J. Calderon, Nadia Lieu, Weiguo Wu, Paul Porter, Poonam Sarkar, Na Zhao, Constanze V. Oehler, Ondrej Peller, , Jeffrey M. Rosen

The paper shows that combining anti-CSF-1R therapy with chemotherapy and anti-PD-1 improves immune response in metastatic TNBC by reducing macrophages and increasing T/B cell infiltration.

Nature Communications · Jan 3, 2026Peer-reviewedCancer Biology

Xenomake: a pipeline for processing and sorting xenograft reads from spatial transcriptomic experiments

Benjamin Strope, Katherine E. Pendleton, William Bowie, Gloria Vittone Echeverria, Qian Zhu

Xenomake processes and sorts xenograft reads from spatial transcriptomic experiments, improving data quality and compatibility with downstream analysis.

Bioinformatics · Oct 10, 2024Peer-reviewedBioinformatics