Author

Karla E. Helvie

Dana-Farber Cancer InstituteORCID 0000-0002-3514-0332Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Cancer Biology· 2 Bioinformatics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 4 Organism:human· 4 Research Focus:differential expression· 3 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Research Focus:spatial domain detection· 2 Assay:spatial transcriptomics· 2 Approach:statistical model· 2

Frequent Co-Authors

Ana LakoiD· 3 shared Aviv RegeviD· 3 shared Fei CheniD· 3 shared Judit Jané‐ValbuenaiD· 3 shared Julia WaldmaniD· 3 shared Michal SlyperiD· 3 shared Orit Rozenblatt–RoseniD· 3 shared Scott J. RodigiD· 3 shared

Activity by Year

2021-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioinformatics

Ana LakoORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Cancer BiologyScience AdvancesPeer-reviewedFeb 20, 2026

Single-cell epigenetic profiling reveals an interferon response-high program associated with BAP1 deficiency in kidney cancer

Sabrina Yvonne Camp, Meng Xiao He, Michael S. Cuoco…·Eliezer M. Van Allen

The paper identifies an IFN response-high epigenetic program linked to BAP1 deficiency in kidney cancer using single nucleus ATAC sequencing across multiple cohorts.

8 citationstop 1%

humanscATAC-seq

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BioinformaticsGenome biologyPeer-reviewedMay 2, 2025

SlideCNA: Spatial copy number alteration detection from Slide-seq-like spatial transcriptomics data

Diane Zhang, Åsa Segerstolpe, Michal Slyper…·Johanna Klughammer

SlideCNA detects spatial copy number alterations from Slide-seq data to identify sub-clones in metastatic breast cancer.

4 citations

humanspatial transcriptomics

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Cancer BiologybioRxivPreprintJan 7, 2024

A spatial cell atlas of neuroblastoma reveals developmental, epigenetic and spatial axis of tumor heterogeneity

Anand G. Patel, Orr Ashenberg, Natalie Bucheimer Collins…·Michael A. Dyer

This paper creates a spatial cell atlas of neuroblastoma, revealing tumor heterogeneity through multi-omics data and identifying spatial compartmentalization and signaling patterns.

39 citations

humanscRNA-seq

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GenomicsSciencePeer-reviewedJan 28, 2021

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

Shahar Alon, Daniel Goodwin, Anubhav Sinha…·Kirsty Sawicka

ExSeq enables multiplexed RNA mapping at nanoscale resolution by expanding biological specimens for in situ sequencing.

421 citationstop 1%

mousehuman

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