Author

John Philip Ray

University of Washington

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· 1

Signature Assays, Organisms & Methods

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Assay:ChIP-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Assay:DNA methylation· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Research Focus:variant effect prediction· 1

Frequent Co-Authors

Ching‐Huang HoiD· 1 shared Clifford A. MeyeriD· 1 shared David Reed Hall· 1 shared Deepa BishtiD· 1 shared Harinder SinghiD· 1 shared Jing‐Yu FaniD· 1 shared Jishnu DasiD· 1 shared Nicholas A. PeaseiD· 1 shared

Activity by Year

2025-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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1 shared paperGenomics

Ching‐Huang HoORCID

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1 paper

Recent·Most cited

Expanding the DNA Motif Lexicon of the Transcriptional Regulatory Code

Jing‐Yu Fan, Virendra K. Chaudhri, Deepa Bisht, Nicholas A. Pease, Swapnil Keshari, Peter Gerges, David Reed Hall, Vivian Fang Yi, Susan Kales, Ching‐Huang Ho, Jishnu Das, John Philip Ray, Ryan Tewhey, Clifford A. Meyer, Nidhi Sahni, Harinder Singh

The paper expands the DNA motif lexicon of transcriptional regulatory code by identifying composite elements and using a deep learning model to predict their activity and impact of variants.

bioRxiv · Jul 9, 2025 · PreprintGenomics