Author

S. Quake

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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Microbiology· 3 Cell Biology· 2 Immunology· 2

Signature Assays, Organisms & Methods

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Approach:experimental assay· 6 Research Focus:cell type annotation· 5 Organism:human· 5 Assay:scRNA-seq· 5 Research Focus:differential expression· 4 Research Focus:cell-cell communication· 2 Research Focus:cancer & tumor microenvironment· 1 Research Focus:chromatin & epigenetic regulation· 1

Frequent Co-Authors

F. B. Yu· 2 shared A. Aranda-Diaz· 1 shared A. C. Trotman-Grant· 1 shared A. M. Sanz· 1 shared B. A. Berghuis· 1 shared B. A. Pinsky· 1 shared B. H. Good· 1 shared C. Garcia· 1 shared

Activity by Year

2018-2022 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 8 mutual co-author links

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Curved chords = mutual co-authorship

2 shared papersMicrobiology

F. B. Yu

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

Single Cell Transcriptomics Reveals the Hidden Microbiomes of Human Tissues

G. mahmoudabadi, S. Crasta, Tabula Sapiens Consortium, S. Quake

The paper uses single-cell transcriptomics to map the human tissue microbiome across multiple organs and cell types, revealing microbial presence in internal tissues and tumor associations.

bioRxiv · Oct 11, 2022 · PreprintMicrobiology

Fate Bias and Transcriptional Memory of human B cells

M. Swift, F. Horns, S. Quake

This study uses single-cell transcriptomics and lineage tracing to show that human B cell subtypes have intrinsic proliferative and fate biases, with transcriptional memory persisting in genes related to fate determination.

bioRxiv · Jul 14, 2022Immunology

Quantifying the interplay between rapid bacterial evolution within the mouse intestine and transmission between hosts

K. S. Vasquez, L. Willis, N. Cira, K. M. Ng, M. F. Pedro, A. Aranda-Diaz, M. Rajendram, F. B. Yu, S. K. Higginbottom, N. Neff, G. Sherlock, K. B. Xavier, S. Quake, J. Sonnenburg, B. H. Good, K. C. Huang

The paper tracks bacterial evolution and transmission in mice using barcoded E. coli strains, showing rapid selection and migration effects on microbiota composition.

bioRxiv · Dec 4, 2020Microbiology

Tuning TPO-R signaling to influence hematopoietic stem cell differentiation and inhibit essential thrombocythemia

L. Cui, I. Moraga, T. Lerbs, C. V. Neste, S. Wilmes, N. Tsutsumi, A. C. Trotman-Grant, M. Gakovic, S. Andrews, J. Gotlib, S. Darmanis, M. Enge, S. Quake, I. S. Hitchcock, J. Piehler, , G. Wernig

This study develops diabody ligands that modulate TPO-R signaling, showing partial agonists preserve HSCs and inhibit ET oncogenesis.

bioRxiv · Sep 23, 2020Cell Biology

Single-cell RNA Expression of SARS-CoV-2 Cell Entry Factors in Human Endometrium during Preconception

F. Vilella Mitjana, W. Wang, I. Moreno Gimeno, S. Quake, C. Simon

The paper examines SARS-CoV-2 entry factor expression in human endometrial cells using single-cell RNA sequencing, finding high CTSB and CTSL expression but low ACE2 and TMPRSS2, suggesting limited infection risk pre-implantation.

bioRxiv · Sep 14, 2020 · PreprintCell Biology

Hydrogenotrophic methanogenesis in archaeal phylum Verstraetearchaeota reveals the shared ancestry of all methanogens

B. A. Berghuis, F. B. Yu, F. Schulz, P. C. Blainey, T. Woyke, S. Quake

The paper discovers a hydrogenotrophic methanogenesis pathway in Verstraetearchaeota and the Wood-Ljungdahl pathway in Desulfurococcales, suggesting an ancient origin of hydrogenotrophic methanogenesis and a later adaptation to methylotrophic methanogenesis.

bioRxiv · Aug 14, 2018Microbiology

Virus-inclusive single cell RNA sequencing reveals molecular signature predictive of progression to severe dengue infection

F. Zanini, M. Robinson, D. Croote, M. K. Sahoo, A. M. Sanz, E. Ortiz-Lasso, L. L. Albornoz, F. R. Suarez, J. G. Montoya, B. A. Pinsky, S. Quake, S. Einav

This study uses single-cell RNA sequencing to identify molecular signatures predictive of severe dengue infection by analyzing PBMCs from dengue patients and healthy controls.

bioRxiv · Aug 9, 2018Immunology