Publications by authors named "Stephen Quake"

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Altered immune and metabolic molecular pathways drive islet cell dysfunction in human type 1 diabetes.
Theodore Dos Santos, Xiao-Qing Dai, Robert C Jones, Aliya F Spigelman, Hannah M Mummey, Stephen R Quake

J Clin Invest· December 2025

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Cell type inference in cell-free nucleic acid liquid biopsy.
Sevahn K Vorperian, Lucas M Dennis, Anna Hupalowska, Jennifer E Rood, Stephen R Quake

Nat Biotechnol· December 2025

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CRATER tumor niches facilitate CD8 T cell engagement and correspond with immunotherapy success.
Aya Ludin, Georgia L Stirtz, Asaf Tal, Ajit J Nirmal, Kathleen L Pfaff, Stephen R Quake

Cell· November 2025

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Spatial and single-cell transcriptomics reveal the reorganization of cerebellar microglia with aging.
Andy P Tsai, Douglas E Henze, Eduardo Ramirez Lopez, James Haberberger, Chuanpeng Dong, Stephen R Quake

Cell Rep· November 2025

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Benchmarking cell type and gene set annotation by large language models with AnnDictionary.
George Crowley, , Stephen R Quake

Nat Commun· October 2025

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Nitrogen fixation in Pampinifervens, a new species-rich genus of Aquificaceae that inhabits a wide pH range in terrestrial hot springs.
Marike Palmer, Nancy O Nou, Lara A Turello, Carolyn E Power, John C Ong, Stephen R Quake

Syst Appl Microbiol· September 2025

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Transcriptome profiling of cerebrospinal fluid in Alzheimer's disease reveals molecular dysregulations associated with disease.
Rhys E De Sota, Bojk A Berghuis, Samantha J Khoury, Jiali Zhuang, Robert A Rissman, Stephen R Quake

Alzheimers Dement (N Y)· September 2025

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Scalable single-cell total RNA-seq reveals non-coding programs in immunity, infection, and brain development.
Alina Isakova, Stephen Quake, Daniel Liu, Ivana Cvijovic, Rahul Sinha

Res Sq· September 2025

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Mouse lemur cell atlas informs primate genes, physiology and disease.
Camille Ezran, Shixuan Liu, Stephen Chang, Jingsi Ming, Lisbeth A Guethlein, Stephen R Quake

Nature· August 2025

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A molecular cell atlas of mouse lemur, an emerging model primate.

Nature· August 2025

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Author Correction: Persistent transcriptional programmes are associated with remote memory.
Michelle B Chen, Xian Jiang, Stephen R Quake, Thomas C Südhof

Nature· August 2025

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An inflatable "finger-lock" for stabilizing nailfold capillary videos and modulating blood flow velocities.
Marcus L Forst, Gabriela Rincon, Juliette H Levy, David N Cornfield, Stephen R Quake

Rev Sci Instrum· August 2025

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Tabula Sapiens reveals transcription factor expression, senescence effects, and sex-specific features in cell types from 28 human organs and tissues.

bioRxiv· August 2025

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Reply to: False positives in study of memory-related gene expression.
Wenfei Sun, Zhihui Liu, Xian Jiang, Michelle B Chen, Hua Dong, Stephen R Quake

Nature· June 2025

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The Environment-Dependent Regulatory Landscape of the Genome.
Tom Röschinger, Heun Jin Lee, Rosalind Wenshan Pan, Grace Solini, Kian Faizi, Stephen Quake

bioRxiv· May 2025

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The Environment-Dependent Regulatory Landscape of the Genome.
Tom Röschinger, Heun Jin Lee, Rosalind Wenshan Pan, Grace Solini, Kian Faizi, Stephen Quake

ArXiv· May 2025

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Molecular subtyping of hypertensive disorders of pregnancy.
Michal A Elovitz, Elaine P S Gee, Nathaniel Delaney-Busch, Alison B Moe, Mitsu Reddy, Stephen R Quake

Nat Commun· April 2025

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Long-term B cell memory emerges at uniform relative rates in the human immune response.
Ivana Cvijović, Michael Swift, Stephen R Quake

Proc Natl Acad Sci U S A· March 2025

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How to build the virtual cell with artificial intelligence: Priorities and opportunities.
Charlotte Bunne, Yusuf Roohani, Yanay Rosen, Ankit Gupta, Xikun Zhang, Stephen R Quake

Cell· December 2024

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Deconvolution of Human Urine across the Transcriptome and Metabolome.
Sevahn K Vorperian, Brian C DeFelice, Joseph A Buonomo, Hagop J Chinchinian, Ira J Gray, Stephen R Quake

Clin Chem· November 2024

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The cellular dogma.
Stephen R Quake

Cell· November 2024

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How to Build the Virtual Cell with Artificial Intelligence: Priorities and Opportunities.
Charlotte Bunne, Yusuf Roohani, Yanay Rosen, Ankit Gupta, Xikun Zhang, Stephen R Quake

ArXiv· October 2024

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Craters on the melanoma surface facilitate tumor-immune interactions and demonstrate pathologic response to checkpoint blockade in humans.
Aya Ludin, Georgia L Stirtz, Asaf Tal, Ajit J Nirmal, Naomi Besson, Stephen R Quake

bioRxiv· September 2024

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The cortical amygdala consolidates a socially transmitted long-term memory.
Zhihui Liu, Wenfei Sun, Yi Han Ng, Hua Dong, Stephen R Quake

Nature· August 2024

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Coordinated wound responses in a regenerative animal-algal holobiont.
Dania Nanes Sarfati, Yuan Xue, Eun Sun Song, Ashley Byrne, Daniel Le, Stephen R Quake

Nat Commun· May 2024

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