Author

Naomi C. F. Yamada

Pennsylvania State UniversityORCID 0000-0003-2524-1153Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:ChIP-seq· 2 Approach:statistical model· 2 Research Focus:differential expression· 1 Organism:Drosophila· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Organism:yeast· 1

Frequent Co-Authors

B. Franklin PughiD· 2 shared Nina P. FarrelliD· 2 shared Shaun MahonyiD· 2 shared Matthew J. RossiiD· 1 shared William LaiiD· 1 shared

Activity by Year

2018-2020 · peak 1/yr

Co-Author Collaboration Network

5 top collaborators · 9 mutual co-author links

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2 shared papersBioinformatics

B. Franklin PughORCID

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2 papers

Recent·Most cited

BioinformaticsNucleic Acids ResearchPeer-reviewedJul 13, 2020

Alignment and quantification of ChIP-exo crosslinking patterns reveal the spatial organization of protein-DNA complexes

Naomi C. F. Yamada, Matthew J. Rossi, Nina P. Farrell…·Shaun Mahony

The paper presents a computational framework to align and quantify ChIP-exo crosslinking patterns, enabling inference of spatial organization within protein-DNA complexes.

5 citations

yeastDrosophila

𝕏 PostBluesky

BioinformaticsBioinformaticsPeer-reviewedAug 23, 2018

Characterizing protein-DNA binding event subtypes in ChIP-exo data

Naomi C. F. Yamada, William Lai, Nina P. Farrell…·Shaun Mahony

The paper introduces ChExMix, a method to detect and classify distinct protein-DNA binding subtypes in ChIP-exo data using probabilistic modeling of tag distributions and DNA motifs.

38 citations

humanChIP-seq

𝕏 PostBluesky