Author

Ian Whaling

Stanford MedicineORCID 0000-0002-2683-9299Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:ChIP-seq· 2 Organism:human· 2 Approach:statistical model· 2 Assay:ATAC-seq· 1 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:database / resource· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Benjamin C. HitziD· 2 shared J. Michael CherryiD· 2 shared Meenakshi S. KagdaiD· 2 shared Paul SudiD· 2 shared Abdul Rahman DiabiD· 1 shared Alexander DobiniD· 1 shared Ali MortazaviiD· 1 shared Alyssa BlackburniD· 1 shared

Activity by Year

2023-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 40 mutual co-author links

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2 shared papersGenomics

Benjamin C. HitzORCID

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2 papers

Recent·Most cited

Integrative chromatin state annotation of 234 human ENCODE4 cell types using Segway reveals disease drivers

Marjan Farahbod, Abdul Rahman Diab, Paul Sud, Meenakshi S. Kagda, Ian Whaling, Mehdi Foroozandeh Shahraki, Ishan Goel, Habib Daneshpajouh, Benjamin C. Hitz, J. Michael Cherry, Maxwell W. Libbrecht

The paper presents ENCODE4 Segway annotations for 234 human cell types, improving sensitivity in capturing regulatory patterns relevant to disease and traits.

bioRxiv · Oct 26, 2023 · PreprintGenomics

The ENCODE Uniform Analysis Pipelines

Benjamin C. Hitz, Jin-Wook Lee, Otto Jolanki, Meenakshi S. Kagda, Keenan Graham, Paul Sud, Idan Gabdank, J. Seth Strattan, Cricket Alicia Sloan, Timothy R. Dreszer, Laurence D. Rowe, Nikhil R. Podduturi, Venkat S. Malladi, Esther T. Chan, Jean M. Davidson, , J. Michael Cherry

ENCODE's containerised Workflow Description Language pipelines for ChIP-seq, ATAC-seq, DNase-seq, RNA-seq variants, Hi-C and bisulfite sequencing run on cloud or local clusters, with documented compute costs and provenance.

bioRxiv · Apr 4, 2023 · PreprintBioinformatics✦ In-depth digest