Author

Maddy Yeh

ORCID 0009-0002-5597-8914Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:proteomics· 3 Research Focus:benchmarking· 2 Approach:experimental assay· 2 Research Focus:deconvolution· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1 Organism:human· 1

Frequent Co-Authors

Harrison SpechtiD· 3 shared Kevin A. McDonnelliD· 3 shared Nikolai SlavoviD· 3 shared Jason DerksiD· 2 shared Nathan T. WamsleyiD· 2 shared Sarah N. SipeiD· 2 shared Ahmet YeşilçimeniD· 1 shared Andrew LeduciD· 1 shared

Activity by Year

2025-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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3 shared papersBioengineering

Harrison SpechtORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

JMod: Joint modeling of mass spectra for empowering multiplexed DIA proteomics

Kevin A. McDonnell, Daniel Geiszler, Nathan T. Wamsley, Jason Derks, Sarah N. Sipe, Zachary A. Cohen, Lina K. Warinner, Maddy Yeh, Eunice Koo, Andrew Leduc, Theodore J. Zwang, Harrison Specht, Nikolai Slavov

JMod improves sequence identification and quantification in multiplexed DIA proteomics by jointly modeling overlapping mass spectra, enabling higher throughput with maintained accuracy.

bioRxiv · May 22, 2025 · PreprintBioinformatics

timePlex: Increasing mass spectrometry throughput using time-encoded sample multiplexing

Jason Derks, Kevin A. McDonnell, Nathan T. Wamsley, Peyton Stewart, Maddy Yeh, Harrison Specht, Nikolai Slavov

timePlex increases LC-MS throughput by multiplexing samples in the time domain, achieving combinatorial scaling and enabling high-throughput proteomics.

bioRxiv · May 22, 2025 · PreprintBioengineering

PSMtags improve peptide sequencing and throughput in sensitive proteomics

Harrison Specht, Sarah N. Sipe, Mei‐Yin Yeh, David Barnes‐Seeman, Mark E. Adamo, Kevin A. McDonnell, Michael P. Agius, Corinna Friedrich, Helena Rittenhouse, Joshua J Abbott, Wai Kit Pang, Yanchang Huang, Kalyani Raju, Wayne Vuong, Michael A. Lee, , Nikolai Slavov

PSMtags enhance peptide detection and sequence identification in proteomics, enabling 9-plexDIA and significantly increasing sample throughput.

bioRxiv · May 22, 2025 · PreprintBioengineering