Author

Jillian A. Phallen

Johns Hopkins UniversityORCID 0000-0002-5492-9013Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Research Focus:cell-cell communication· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Approach:simulation· 1 Research Focus:variant calling· 1

Frequent Co-Authors

Noushin NiknafsiD· 2 shared Victor E. VelculescuiD· 2 shared Adrianna L. BartolomucciiD· 1 shared Akshaya Vijaya AnnapragadaiD· 1 shared Akul GoeliD· 1 shared Alessandro LealiD· 1 shared Ali Hussainy ZaidiiD· 1 shared Alice C. EastmaniD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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2 shared papersGenomics

Noushin NiknafsORCID

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2 papers

Recent·Most cited

Structural variation in repeat elements is widespread in normal human tissues and in tumorigenesis

Akshaya Vijaya Annapragada, James White, Hope Orjuela, Adrianna L. Bartolomucci, Alice C. Eastman, Shashikant Koul, Kauí Patrício Lebarbenchon, Daniel C. Bruhm, Sarah Short, Keerti Boyapati, Noushin Niknafs, Carter Norton, Vishruth Girish, Nicholas A. Vulpescu, Sofia Velculescu, , Victor E. Velculescu

The paper identifies widespread mosaic structural variants in normal human tissues and tumors, with repeat-mediated variants impacting functional elements and enabling noninvasive tumor monitoring through cell-free DNA.

bioRxiv · Sep 28, 2026 · PreprintGenomics

Elucidating the heterogeneity of immunotherapy response and immune-related toxicities by longitudinal ctDNA and immune cell compartment tracking in lung cancer

Joseph Christopher Murray, Lavanya Sivapalan, Karlijn Hummelink, Archana Balan, James Robert White, Noushin Niknafs, Lamia Rhymee, Gavin Pereira, Nisha Rao, Benny Weksler, Nathan Bahary, Jillian A. Phallen, Alessandro Leal, David L. Bartlett, Kristen Ashley Marrone, , Valsamo Anagnostou

This study tracks ctDNA and immune cell changes in lung cancer patients on immunotherapy to identify molecular responses and immune-related toxicities.

Clinical Cancer Research · Nov 8, 2023Peer-reviewedGenomics