Author

Alessandra Castaldi

University of California San DiegoORCID 0000-0002-6616-6519Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Cell Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 3 Assay:bulk RNA-seq· 2 Research Focus:cell type annotation· 2 Approach:experimental assay· 2 Organism:mouse· 2 Approach:statistical model· 2 Assay:ATAC-seq· 1 Research Focus:chromatin & epigenetic regulation· 1

Frequent Co-Authors

Beiyun ZhouiD· 3 shared Crystal N. MarconettiD· 3 shared Zea BorokiD· 3 shared Hua Min SheniD· 2 shared Jonathan Castillo· 2 shared Masafumi HorieiD· 2 shared Per FlodbyiD· 2 shared Yanbin Ji· 2 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 43 mutual co-author links

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3 shared papersCell Biology

Beiyun ZhouORCID

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3 papers

Recent·Most cited

Cell BiologybioRxivPreprintOct 1, 2025

Loss of tight junction protein claudin 18 uncovers alveolar epithelial stem cell plasticity and emergence of non-fibrogenic transitional progenitors

Alessandra Castaldi, J. Chin, B Ma…·Zea Borok

The paper identifies regeneration-associated transitional progenitors (RATPs) in Cldn18 knockout mice, showing they are less fibrogenic and contribute to lung repair rather than fibrosis.

DOI 10.1101/2025.10.01.679859

mousebulk RNA-seq

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BioinformaticsbioRxivPreprintApr 5, 2024

Integrated multiomic analysis identifies TRIP13 as a mediator of alveolar epithelial type II cell dysfunction in idiopathic pulmonary fibrosis

Laurence St. Pierre, Asres Berhan, Eun Kyu Sung…·Zea Borok

The paper identifies TRIP13 as a mediator of AT2 cell dysfunction in IPF through integrated transcriptomic and epigenomic analysis and shows TRIP13 inhibition prevents mesenchymal gene signature acquisition.

DOI 10.1101/2024.04.05.588292

humanbulk RNA-seq

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Cell BiologybioRxivPreprintOct 17, 2023

GRAMD2+ alveolar type I cell plasticity facilitates cell state transitions in organoid culture

Hua Min Shen, Weimou Chen, Yixin Liu…·Zea Borok

The paper identifies GRAMD2+ alveolar type I cells as plastic and capable of transitioning through multiple lung epithelial cell states in organoid culture.

1 citation

mousescRNA-seq

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