Author

Gayatri Arun

Cold Spring Harbor LaboratoryORCID 0000-0002-7261-5296Unclaimed 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· 3 Research Focus:differential expression· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1

Frequent Co-Authors

David L. SpectoriD· 2 shared Karen M. Kostroff· 2 shared Kendall L. AndersoniD· 2 shared Martin AkermaniD· 2 shared Melissa KrameriD· 2 shared Sonam BhatiaiD· 2 shared William Richard McCombieiD· 2 shared Adam Geier· 1 shared

Activity by Year

2020-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersCancer Biology

David L. SpectorORCID

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3 papers

Recent·Most cited

Patient-derived organoid xenografts reveal the multifaceted role of the lncRNA MALAT1 in breast cancer progression

Disha Aggarwal, Suzanne Russo, Kendall L. Anderson, Taylor Floyd, Raditya Utama, James A. Rouse, Payal K. Naik, Sara A Pawlak, Shruti V. Iyer, Melissa Kramer, Shuchismita R. Satpathy, John Erby Wilkinson, Qing Gao, Sonam Bhatia, Gayatri Arun, , David L. Spector

This study evaluates MALAT1-targeting ASOs in breast cancer using patient-derived organoid models, showing MALAT1's role in alternative splicing, metastasis, and tumor-stroma interactions.

bioRxiv · Jun 27, 2026 · PreprintCancer Biology

Development and validation of an AI/ML platform for the discovery of splice-switching oligonucleotide targets

Alyssa D Fronk, Miguel Ángel Manzanares, Paulina Zheng, Adam Geier, Kendall L. Anderson, Vanessa Frederick, Shaleigh A. Smith, Sakshi Gera, Robin Munch, Mahati Are, Priyanka Dhingra, Gayatri Arun, Martin Akerman

This paper develops SpliceLearn, an AI/ML tool for identifying splice-switching oligonucleotide targets, and validates its effectiveness in predicting therapeutic targets in triple negative breast cancer.

bioRxiv · Oct 14, 2022 · PreprintBioinformatics

Comprehensive analysis of structural variants in breast cancer genomes using single molecule sequencing

Sergey S. Aganezov, Sara Goodwin, Rachel M. Sherman, Fritz Joachim Sedlazeck, Gayatri Arun, Sonam Bhatia, Isac Lee, Melanie Kirsche, Robert L. Wappel, Melissa Kramer, Karen M. Kostroff, David L. Spector, Winston Timp, William Richard McCombie, Michael C. Schatz

This study uses long-read sequencing to identify structural variants in breast cancer genomes, showing high accuracy and sensitivity compared to short-read methods.

Genome Research · Sep 1, 2020Peer-reviewedBioinformatics