Author

Maddy P. Zamecnik

University of MichiganORCID 0009-0003-9612-666XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Organism:E. coli· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Assay:long-read sequencing· 1 Assay:proteomics· 1 Organism:yeast· 1

Frequent Co-Authors

Kristin S. KoutmouiD· 2 shared David M. GarciaiD· 1 shared James W. ReinschiD· 1 shared Kaley M. SimcoxiD· 1 shared Margaret L. BarryiD· 1 shared Miten JainiD· 1 shared Neda Ghohabi EsfahaniiD· 1 shared Pooria Daneshvar KakhakiiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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2 shared papersGenomics

Kristin S. KoutmouORCID

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2 papers

Recent·Most cited

GenomicsbioRxivPreprintJun 9, 2026

tRNA isodecoder analysis using Nanopore ionic current signals and deep learning

Stuart Akeson, Pooria Daneshvar Kakhaki, Neda Ghohabi Esfahani…·Miten Jain

The paper introduces tRNAZAP, a deep learning method using nanopore ionic current signals to classify tRNA isodecoders, achieving better alignment results than BWA-MEM in E. coli and S. cerevisiae.

3 citations

E. coliyeast

𝕏 PostBluesky

BiochemistrybioRxivPreprintMay 25, 2026

RNase 4 improves bottom-up modification mapping of E. coli total tRNAs using HILIC-MS/MS

Kaley M. Simcox, Maddy P. Zamecnik, Robert T. Kennedy, Kristin S. Koutmou

This paper introduces a method using RNase 4 and HILIC-MS/MS to map tRNA modifications in E. coli with high coverage and without ion-pairing reagents.

DOI 10.64898/2026.05.23.727428

E. coliproteomics

𝕏 PostBluesky