Author

Benjamin Strope

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 Genomics· 2

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Assay:spatial transcriptomics· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Research Focus:cell-cell communication· 1 Approach:deep learning· 1

Frequent Co-Authors

Pranoti V. Sahasrabhojane· 2 shared Qian ZhuiD· 2 shared Samuel L AitkeniD· 2 shared William Bowie· 2 shared William C. ShropshireiD· 2 shared Xiaowei ZhaniD· 2 shared Anna KonovalovaiD· 1 shared Blake HansoniD· 1 shared

Activity by Year

2022-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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2 shared papersGenomics

Pranoti V. Sahasrabhojane

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Author profile →

4 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

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

Genetic Determinants Underlying the Progressive Phenotype of Beta-lactam/Beta-lactamase Inhibitor Resistance in Escherichia coli

William C. Shropshire, Hatim Amiji, Jordan Bremer, Selvalakshmi Selvaraj Anand, Benjamin Strope, Pranoti V. Sahasrabhojane, Marc Gohel, Samuel L Aitken, Sarah L. Spitznogle, Xiaowei Zhan, Jiwoong Kim, David E. Greenberg, Samuel A. Shelburne

The paper analyzes WGS data of E. coli isolates to show that blaTEM gene amplification correlates with resistance to AMC and TZP but not SAM, highlighting the need for comprehensive analysis of genetic determinants in BL/BLI resistance.

Microbiology Spectrum · Oct 6, 2023Peer-reviewedGenomics

Systematic Analysis of Mobile Genetic Elements Mediating β-lactamase Gene Amplification in Non-Carbapenemase-Producing Carbapenem Resistant Enterobacterales Bloodstream Infections

William C. Shropshire, Anna Konovalova, Patrick M. McDaneld, M Gohel, Benjamin Strope, Pranoti V. Sahasrabhojane, CN Tran, David Greenberg, J Kim, Xiaowei Zhan, Samuel L Aitken, Micah M. Bhatti, TC Savidge, Todd J. Treangen, Blake Hanson, , SA Shelburne

This study identifies mobile genetic elements driving β-lactamase gene amplification in non-CP-CRE bloodstream infections through genomic analysis.

bioRxiv · May 20, 2022 · PreprintGenomics