Author

Nicole DeGroat

Memorial Sloan Kettering Cancer Center

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· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 2 Research Focus:variant calling· 2 Assay:whole-exome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Approach:experimental assay· 1 Approach:statistical model· 1

Frequent Co-Authors

Ahmet ZehiriD· 2 shared Chad VanderbiltiD· 2 shared Gowtham JayakumaraniD· 2 shared Jaclyn Frances HechtmaniD· 2 shared Marc LadanyiiD· 2 shared Michael F. BergeriD· 2 shared Ryan N. PtashkiniD· 2 shared Ryma BenayediD· 2 shared

Activity by Year

2020-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersBioinformatics

Ahmet ZehirORCID

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2 papers

Recent·Most cited

MiMSI - a deep multiple instance learning framework improves microsatellite instability detection from tumor next-generation sequencing

John Ziegler, Jaclyn Frances Hechtman, Ryan N. Ptashkin, Gowtham Jayakumaran, Sumit Middha, Shweta S. Chavan, Chad Vanderbilt, Deborah F. DeLair, Jacklyn Casanova, Jinru Shia, Nicole DeGroat, Ryma Benayed, Marc Ladanyi, Michael F. Berger, Thomas J. Fuchs, Ahmet Zehir

MiMSI improves MSI detection in low tumor purity samples using deep learning and multiple instance learning, achieving higher sensitivity and auROC than existing methods.

bioRxiv · Sep 16, 2020 · PreprintBioinformatics

Enhanced specificity of high sensitivity somatic variant profiling in cell-free DNA via paired normal sequencing: design, validation, and clinical experience of the MSK-ACCESS liquid biopsy assay

Angela Rose Brannon, Gowtham Jayakumaran, Monica S. Diosdado, Juber Patel, Разумова Анна Ивановна, Yu Hu, Fanli Meng, Mohammad Haque, Justyna Sadowska, Brian J. Murphy, Tessara Baldi, Ian Johnson, Ryan N. Ptashkin, Maysun Hasan, Preethi Srinivasan, , Ryma Benayed

The paper describes the development and clinical application of MSK-ACCESS, a liquid biopsy assay that improves the specificity of somatic variant detection in cell-free DNA by using paired normal sequencing.

bioRxiv · Jun 27, 2020 · PreprintGenomics