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Rishaan Kenkre on Muck Rack

Rishaan Kenkre

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Articles

AmpliconSuite: an end-to-end workflow for analyzing focal amplifications in cancer genomes

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By Jens Luebeck, Ted Liefeld, Edwin Huang, Forrest Kim, Bhargavi Dameracharla, Michael Chan, Kyra Fetter, Dhruv Khatri, Kaiyuan Zhu, Thorin Tabor, Daniel Schreyer, Gino Prasad, Aditi Gnanasekar, Siavash Raeisi Dehkordi, Simone Spandau, Rishaan Kenkre, Soyeon Kim, Hoon Kim, Peter Bailey, Roel G. W. Verhaak, Viraj Deshpande, Michael Reich, Paul S. Mischel, Jill P. Mesirov, Vineet Bafna, Rohil Ahuja, Michał Adamaszek, Tushar Agashe, Devika Torvi
| Nature Verified
Abstract Here we present AmpliconSuite, a toolkit for focal amplification analysis from cancer whole-genome sequencing that identifies extrachromosomal DNA (ecDNA), breakage–fusion–bridges and other amplification modes. Its ecContext module categorizes ecDNA structures to understand formation mechanisms. Validation across 175 metaphase fluorescence in situ hybridization-probed genes in 72 models demonstrated accurate predictions.
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