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Dive into the research topics where Ben Raphael is active. These topic labels come from the works of this person. Together they form a unique fingerprint.
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Collaborations and top research areas from the last five years
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Comprehensive and Robust Tools for Analysis of Tumor Heterogeneity and Evolution
Raphael, B. (PI)
9/24/20 → 8/31/25
Project: Research project
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CAREER: Algorithms for Next-Generation Genomics
Raphael, B. (PI)
NSF - National Science Foundation
9/1/16 → 12/31/19
Project: Research project
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Computational Characterization of Genetic Heterogeneity
Raphael, B. (PI)
9/1/16 → 8/31/19
Project: Research project
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DeST-OT: Alignment of spatiotemporal transcriptomics data
Halmos, P., Liu, X., Gold, J., Chen, F., Ding, L. & Raphael, B. J., Feb 19 2025, In: Cell Systems. 16, 2, 101160.Research output: Contribution to journal › Article › peer-review
Open Access -
Mapping the topography of spatial gene expression with interpretable deep learning
Chitra, U., Arnold, B. J., Sarkar, H., Sanno, K., Ma, C., Lopez-Darwin, S. & Raphael, B. J., Feb 2025, In: Nature Methods. 22, 2, p. 298-309 12 p., 8353.Research output: Contribution to journal › Article › peer-review
Open Access -
Resolving discrepancies between chimeric and multiplicative measures of higher-order epistasis
Chitra, U., Arnold, B. & Raphael, B. J., Dec 2025, In: Nature communications. 16, 1, 1711.Research output: Contribution to journal › Article › peer-review
Open Access -
The Evolutionary Forest of Pancreatic Cancer
Mullen, K. M., Hong, J., Attiyeh, M. A., Hayashi, A., Sakamoto, H., Kohutek, Z. A., McIntyre, C. A., Zhang, H., Makohon-Moore, A. P., Zucker, A., Wood, L. D., Myers, M. A., Arnold, B. J., Zaccaria, S., Chou, J. F., Capanu, M., Socci, N. D., Raphael, B. J. & Iacobuzio-Donahue, C. A., Feb 1 2025, In: Cancer Discovery. 15, 2, p. 329-345 17 p.Research output: Contribution to journal › Article › peer-review
Open Access -
A count-based model for delineating cell-cell interactions in spatial transcriptomics data
Sarkar, H., Chitra, U., Gold, J. & Raphael, B. J., Jul 1 2024, In: Bioinformatics. 40, p. i481-i489Research output: Contribution to journal › Article › peer-review
Open Access