Author

John O’Toole

Cleveland Clinic

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Genomics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Approach:experimental assay· 2 Assay:scRNA-seq· 2 Assay:spatial transcriptomics· 2 Assay:ATAC-seq· 1 Approach:benchmark study· 1

Frequent Co-Authors

Daria BarwinskaiD· 3 shared Katherine J. KellyiD· 3 shared Krzysztof KirylukiD· 3 shared Michael J. FerkowicziD· 3 shared Ricardo Melo FerreiraiD· 3 shared Seth WinfreeiD· 3 shared Sushrut S. WaikariD· 3 shared Sylvia E. RosasiD· 3 shared

Activity by Year

2023-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioinformatics

Daria BarwinskaORCID

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Author profile →

3 papers

Recent·Most cited

Integration of spatial multiplexed protein imaging and transcriptomics in the human kidney tracks the regenerative potential timeline of proximal tubules

Mahla Asghari, Angela R. Sabo, Daria Barwinska, Ricardo Melo Ferreira, Michael J. Ferkowicz, William S. Bowen, Ying‐Hua Cheng, Debora L. Gisch, Connor J. Gulbronson, Carrie L. Phillips, Katherine J. Kelly, Timothy A. Sutton, James C. Williams, Miguel A. Vazquez, John O’Toole, , Pierre C. Dagher

bioRxiv · Nov 26, 2024 · PreprintBioinformatics

The chromatin landscape of healthy and injured cell types in the human kidney

Debora L. Gisch, Michelle Brennan, Blue B. Lake, Jeannine M. Basta, Mark S. Keller, Ricardo Melo Ferreira, Shreeram Akilesh, Reetika R. Ghag, Charles Lu, Ying‐Hua Cheng, Kimberly S. Collins, Samir V. Parikh, Brad H. Rovin, Lynn Robbins, Lisa Stout, , Joana P. Gonçalves

The paper defines the chromatin landscape of healthy and injured kidney cells using multi-omics data, identifying regulatory elements and transcription factor networks involved in injury response.

Nature Communications · Jan 10, 2024Peer-reviewedMolecular Biology

An atlas of healthy and injured cell states and niches in the human kidney

Blue B. Lake, Rajasree Menon, Seth Winfree, Qiwen Hu, Ricardo Melo Ferreira, Kian Kalhor, Daria Barwinska, Edgar A. Otto, Michael J. Ferkowicz, Dinh H. Diep, Nongluk Plongthongkum, Amanda L. Knoten, Sarah M. Urata, Laura H. Mariani, Abhijit S. Naik, , Ljiljana Paša‐Tolić

The paper creates a high-resolution cellular atlas of healthy and injured kidney cell states and niches using single-cell and spatial technologies, identifying molecular signatures and pathways related to kidney injury.

Nature · Jul 19, 2023Peer-reviewedGenomics