Author

Amy E Cullen

University of CambridgeORCID 0000-0002-5015-1355Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 4 Approach:statistical model· 4 Assay:whole-genome sequencing· 3 Research Focus:variant calling· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Assay:ChIP-seq· 1 Research Focus:chromatin & epigenetic regulation· 1

Frequent Co-Authors

Florian M. MarkowetziD· 4 shared James D. BrentoniD· 3 shared Anna PiskorziD· 2 shared Geoff MacintyreiD· 2 shared Michael P SchneideriD· 2 shared Akane Ota· 1 shared Alice CádiziD· 1 shared Andrew N. HoldingiD· 1 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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4 shared papersCancer Biology

Florian M. MarkowetzORCID

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4 papers

Recent·Most cited

scUnique: Measuring Ongoing Chromosomal Instability

Michael P Schneider, Shadi Darvish Shafighi, Amy E Cullen, Akane Ota, Thomas Bradley, Dominique‐Laurent Couturier, Philip S. Smith, Anna Piskorz, James D. Brenton, Florian M. Markowetz

scUnique measures ongoing chromosomal instability from single-cell whole genome sequencing data by identifying recent copy number aberrations in phylogenetic trees.

bioRxiv · Apr 30, 2026 · PreprintCancer Biology

WNT-driven chromosomal instability as a biomarker for PORCN inhibition

Diego Garcia-Lopez, Azedine Zoufir, Bárbara Hernando, Patricia G. Santamarı́a, Alice Cádiz, Hector De Galard Terraube, Laura Madrid, Amy E Cullen, Simon A. Woodcock, Ania Piskorz, Nicola Wallis, Jackie M. Walling, James D. Brenton, Florian M. Markowetz, Jason Yip, , Geoff Macintyre

This paper identifies a chromosomal instability (CIN) biomarker that predicts response to PORCN inhibitors in cancers, validated through in vitro models, cell lines, and patient data.

bioRxiv · Apr 15, 2026 · PreprintCancer Biology

scAbsolute: Measuring single-cell ploidy and replication status

Michael P Schneider, Amy E Cullen, Justina Pangonyte, Jason Skelton, Harvey Major, Elke Van Oudenhove, María J. García, Blas Chaves-Urbano, Anna Piskorz, James D. Brenton, Geoff Macintyre, Florian M. Markowetz

scAbsolute measures single-cell ploidy and replication status using single-cell DNA sequencing without prior knowledge of cell cycle phase.

bioRxiv · Nov 14, 2022 · PreprintGenomics

Novel Quantitative ChIP-seq Methods Measure Absolute Fold-Change in ER Binding Upon Fulvestrant Treatment

Michael J. Guertin, Amy E Cullen, Florian M. Markowetz, Andrew N. Holding

The paper introduces a novel normalization strategy for ChIP-seq to measure absolute fold-change in ER binding, validated using fulvestrant treatment and other experimental conditions.

Nucleic Acids Research · Mar 28, 2018Peer-reviewedGenomics