Author

Joseph Estabrook

Oregon Health & Science UniversityORCID 0000-0002-1027-3315Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Organism:human· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1

Frequent Co-Authors

Emek DemiriD· 2 shared Aaron Reid DoeiD· 1 shared Breeshey Roskams-HieteriD· 1 shared C. Ward KirschbaumiD· 1 shared Elias SpiliotopoulosiD· 1 shared Florian Goncalves· 1 shared Gordon Brent MillsiD· 1 shared Hannah D. HollyiD· 1 shared

Activity by Year

2022-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersGenomics

Emek DemirORCID

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2 papers

Recent·Most cited

Selective enrichment of plasma cell-free messenger RNA in cancer-associated extracellular vesicles

Hyun Ji Kim, Matthew J. Rames, Florian Goncalves, C. Ward Kirschbaum, Breeshey Roskams-Hieter, Elias Spiliotopoulos, Joséphine Briand, Aaron Reid Doe, Joseph Estabrook, Josiah T. Wagner, Emek Demir, Gordon Brent Mills, Thuy T. M. Ngo

The paper analyzes cf-mRNA in EVs and non-vesicular carriers from cancer patients and healthy donors, finding EVs selectively enrich cf-mRNA associated with specific biological pathways.

Communications Biology · Aug 29, 2023Peer-reviewedGenomics

Predicting transcription factor activity using prior biological information

Joseph Estabrook, William M. Yashar, Hannah D. Holly, Julia Somers, Olga H. Nikolova, Özgün Barbur, Theodore P. Braun, Emek Demir

This paper introduces Priori, a method to predict transcription factor activity from RNA sequencing data, showing it outperforms existing methods in detecting aberrant activity and identifying disease-related factors.

bioRxiv · Dec 16, 2022 · PreprintBioinformatics