Author

Joel Armstrong

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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Bioinformatics· 1 Evolutionary Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Approach:statistical model· 2 Research Focus:batch correction / integration· 1 Assay:bulk RNA-seq· 1 Research Focus:chromatin & epigenetic regulation· 1 Research Focus:development & morphogenesis· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Benedict PateniD· 3 shared David Haussler· 2 shared Adam Novak· 1 shared Alden D. Deran· 1 shared Alden Deran· 1 shared Anthony D. JosephiD· 1 shared Arjun Rao· 1 shared Audrey Musselman-Brown· 1 shared

Activity by Year

2016-2018 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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3 shared papersEvolutionary Biology

Benedict PatenORCID

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Author profile →

3 papers

Recent·Most cited

KRAB Zinc Finger Proteins coordinate across evolutionary time scales to battle retroelements

Jason D Fernandes, Maximilian Haeussler, Joel Armstrong, Kristof Tigyi, Joshua Gu, Natalie Filippi, Jessica Pierce, Tiffany Thisner, Paola Angulo, Sol Katzman, Benedict Paten, David Haussler, Sofie R Salama

The paper examines the evolutionary arms race between KRAB Zinc Finger Proteins (KZNFs) and retrotransposable elements (RTEs), showing how KZNFs adapt to suppress RTEs over time.

bioRxiv · Sep 27, 2018 · PreprintEvolutionary Biology

Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling

Edward Stallknecht Rice, Satomi Kohno, John St. John, Son Pham, Jonathan Howard, Liana Lareau, Brendan O'Connell, Glenn Hickey, Joel Armstrong, Alden Deran, Ian Fiddes, Roy N. Platt, Cathy Gresham, Fiona McCarthy, Colin Kern, , Richard E Green

The paper improves the American alligator genome assembly and identifies estrogen-responsive regions linked to female-biased gene expression in post-temperature-sensitive gonads.

Genome Research · Jan 30, 2017Peer-reviewedGenomics

Rapid and efficient analysis of 20,000 RNA-seq samples with Toil

John Vivian, Arjun Rao, Frank Austin Nothaft, Christopher Ketchum, Joel Armstrong, Adam Novak, Jacob Pfeil, Jake Narkizian, Alden D. Deran, Audrey Musselman-Brown, Hannes Schmidt, Peter Amstutz, Brian Craft, Mary Goldman, Kate Rosenbloom, , Benedict Paten

The paper demonstrates Toil's ability to efficiently process 20,000 RNA-seq samples to create a batch-effect-free meta-analysis across five datasets.

bioRxiv · Jul 7, 2016Bioinformatics