Author

Joseph Kim

Genentech

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

Same name, identified by ORCID

Biology Disciplines

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Biophysics· 1 Molecular Biology· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Research Focus:cell type annotation· 2 Approach:experimental assay· 2 Approach:statistical model· 2 Research Focus:cell signaling & trafficking· 1 Research Focus:cell-cell communication· 1 Research Focus:development & morphogenesis· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Alisha Saboowala· 1 shared Amit Kumar SinghiD· 1 shared Ana Carolina LeoteiD· 1 shared Andre LevchenkoiD· 1 shared Andrew J Ewald· 1 shared Andrew Mugler· 1 shared Aviv RegeviD· 1 shared Avtar SinghiD· 1 shared

Activity by Year

2015-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 13 mutual co-author links

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1 shared paperSystems Biology

Alisha Saboowala

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Author profile →

3 papers

Recent·Most cited

Archetype analysis of multiplexed antibody imaging reveals interpretable morphological programs in optical pooled screens

Paula Pinto Coelho, Ana Carolina Leote, Heming Yao, Ping Wu, Takamasa Kudo, Hanchen Wang, Ermakov Vladimir, Alisha Saboowala, Taro Makino, Russell Littman, Romain Lopez, Joseph Kim, Tonia Hafner, Orit Rozenblatt–Rosen, David Richmond, , Aviv Regev

The paper introduces CellMAPP and CHART to analyze multiplexed antibody imaging data, revealing modular morphological programs in response to genetic perturbations.

bioRxiv · Oct 9, 2026 · PreprintSystems Biology

Pulmonary Matrix Derived Hydrogels from Patients with Idiopathic Pulmonary Fibrosis Induce a Proinflammatory State in Lung Fibroblasts In Vitro

Jorge G. Fernandez Davila, DW Moore, Joseph Kim, JA Khan, Amit Kumar Singh, Merte Lemma, CS King, S.D. Nathan, L. Raposo Rodríguez, G. Grant, Jeffrey Lawrence Moran

This study uses patient-derived hydrogels to show IPF fibroblasts exhibit increased inflammation and altered contractility in 3D culture compared to 2D.

bioRxiv · May 3, 2023 · PreprintMolecular Biology

Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis

David Ellison, Andrew Mugler, Matthew Brennan, Sung Hoon Lee, Robert Huebner, Eliah Shamir, Laura A Woo, Joseph Kim, Patrick Amar, Ilya Nemenman, Andrew J Ewald, Andre Levchenko

The paper shows that cell-cell communication improves the ability of cell groups to detect weak chemical gradients, but this benefit is limited by signaling noise.

bioRxiv · Aug 23, 2015Biophysics