Author

Anthony D. Joseph

University of California, BerkeleyORCID 0000-0002-6798-9664Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Research Focus:batch correction / integration· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Alyssa MorrowiD· 2 shared Frank Austin NothaftiD· 2 shared Nir YosefiD· 2 shared Adam Novak· 1 shared Alden D. Deran· 1 shared Arjun Rao· 1 shared Audrey Musselman-Brown· 1 shared Benedict PateniD· 1 shared

Activity by Year

2016-2021 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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2 shared papersBioinformatics

Alyssa MorrowORCID

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3 papers

Recent·Most cited

Epitome: Predicting epigenetic events in novel cell types with multi-cell deep ensemble learning

Alyssa Morrow, John Weston Hughes, Jahnavi Singh, Anthony D. Joseph, Nir Yosef

Epitome predicts epigenetic events in new cell types by learning chromatin similarities and transferring signals from reference cell types.

Nucleic Acids Research · Jul 25, 2021Peer-reviewedBioinformatics

Mango: Distributed Visualization for Genomic Analysis

Alyssa Morrow, George Zhixuan He, Frank Austin Nothaft, Eric Tongching Tu, Justin E. Paschall, Nir Yosef, Anthony D. Joseph

Mango enables interactive genomic analysis of large sequencing datasets by leveraging cloud-based multi-node clusters, overcoming scalability and staticity limitations of existing tools.

bioRxiv · Jul 3, 2018 · PreprintBioinformatics

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