Author

Nicholas Keener

Pennsylvania State University

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Genomics· 2

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Approach:experimental assay· 2 Research Focus:software / tool· 2 Research Focus:cell type annotation· 1 Research Focus:database / resource· 1 Assay:spatial transcriptomics· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Andrew J. LonieiD· 1 shared Anton NekrutenkoiD· 1 shared Benedict PateniD· 1 shared Björn Andreas GrüningiD· 1 shared Cecilia CisariD· 1 shared Daniel J BlankenbergiD· 1 shared Dannon BakeriD· 1 shared Dave BouvieriD· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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1 shared paperGenomics

Andrew J. LonieORCID

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2 papers

Recent·Most cited

A Unified Pipeline for FISH Spatial Transcriptomics

Cecilia Cisar, Nicholas Keener, Mathew Ruffalo, Benedict Paten

The paper introduces PIPEFISH, a semi-automated pipeline for transcript annotation in FISH-based spatial transcriptomics, validated on MERFISH, seqFISH, and ISS datasets.

Cell Genomics · Aug 21, 2023Peer-reviewedGenomics

No more business as usual: agile and effective responses to emerging pathogen threats require open data and open analytics

Dannon Baker, Marius van den Beek, Daniel J Blankenberg, Dave Bouvier, John M. Chilton, Nate Coraor, Frederik Coppens, Ignacio Eguinoa, Simon L. Gladman, Björn Andreas Grüning, Nicholas Keener, Delphine Larivière, Andrew J. Lonie, Sergei L. Kosakovsky Pond, Wolfgang Maier, , Steven Weaver

The paper highlights the importance of open data and analytics in responding to public health emergencies, using COVID-19 genomic data to demonstrate the effectiveness of community-driven software tools and infrastructure.

PLoS Pathogens · Aug 13, 2020Peer-reviewedGenomics