D
David Van Valen
Researcher at California Institute of Technology
Publications - 32
Citations - 2803
David Van Valen is an academic researcher from California Institute of Technology. The author has contributed to research in topics: Biology & Medicine. The author has an hindex of 12, co-authored 20 publications receiving 1510 citations. Previous affiliations of David Van Valen include Stanford University.
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Journal ArticleDOI
Deep learning for cellular image analysis
TL;DR: The intersection between deep learning and cellular image analysis is reviewed and an overview of both the mathematical mechanics and the programming frameworks of deep learning that are pertinent to life scientists are provided.
Journal ArticleDOI
A Structured Tumor-Immune Microenvironment in Triple Negative Breast Cancer Revealed by Multiplexed Ion Beam Imaging
Leeat Keren,Marc Bosse,Diana M. Marquez,Roshan Angoshtari,Samir Jain,Sushama Varma,Soo-Ryum Yang,Allison W. Kurian,David Van Valen,Robert B. West,Sean C. Bendall,Michael Angelo +11 more
TL;DR: Organization in the tumor-immune microenvironment that is structured in cellular composition, spatial arrangement, and regulatory-protein expression is demonstrated and provided a framework to apply multiplexed imaging to immune oncology.
Journal ArticleDOI
Deep Learning Automates the Quantitative Analysis of Individual Cells in Live-Cell Imaging Experiments.
David Van Valen,Takamasa Kudo,Keara Michelle Lane,Derek N. Macklin,Nicolas Quach,Mialy M. DeFelice,Inbal Maayan,Yu Tanouchi,Euan A. Ashley,Markus W. Covert +9 more
TL;DR: Deep convolutional neural networks are an accurate method that require less curation time, are generalizable to a multiplicity of cell types, from bacteria to mammalian cells, and expand live-cell imaging capabilities to include multi-cell type systems.
Journal ArticleDOI
Whole-cell segmentation of tissue images with human-level performance using large-scale data annotation and deep learning.
Noah F. Greenwald,Geneva Miller,Erick Moen,Alex Kong,Adam Kagel,Thomas Dougherty,Christine Camacho Fullaway,Brianna J. McIntosh,Ke Xuan Leow,Morgan Schwartz,Cole Pavelchek,Cole Pavelchek,Sunny Cui,Sunny Cui,Isabella Camplisson,Omer Bar-Tal,Jaiveer Singh,Mara Fong,Mara Fong,Gautam Chaudhry,Zion Abraham,Jackson Moseley,Shiri Warshawsky,Erin Soon,Shirley Greenbaum,Tyler Risom,Travis J. Hollmann,Sean C. Bendall,Leeat Keren,William Graf,Michael Angelo,David Van Valen +31 more
TL;DR: TissueNet as mentioned in this paper is a dataset for training segmentation models that contains more than 1 million manually labeled cells, an order of magnitude more than all previously published segmentation training datasets.
Journal ArticleDOI
Single-cell metabolic profiling of human cytotoxic T cells
Felix J. Hartmann,Dunja Mrdjen,Erin McCaffrey,David R. Glass,Noah F. Greenwald,Anusha Bharadwaj,Zumana Khair,Sanne G.S. Verberk,Alex Baranski,Reema Baskar,William Graf,David Van Valen,Jan Van den Bossche,Michael Angelo,Sean C. Bendall +14 more
TL;DR: An antibody-based method enables profiling of metabolic protein expression and regulation in single cells using mass spectrometry and uncovered the spatial organization of metabolic programs in human tissues, which indicated exclusion of metabolically repressed immune cells from the tumor–immune boundary.