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  1. Article

    Open Access

    Publisher Correction: Live cell tagging tracking and isolation for spatial transcriptomics using photoactivatable cell dyes

    Alex S. Genshaft, Carly G. K. Ziegler, Constantine N. Tzouanas in Nature Communications (2021)

  2. Article

    Open Access

    Live cell tagging tracking and isolation for spatial transcriptomics using photoactivatable cell dyes

    A cell’s phenotype and function are influenced by dynamic interactions with its microenvironment. To examine cellular spatiotemporal activity, we developed SPACECAT—Spatially PhotoActivatable Color Encoded Cel...

    Alex S Genshaft, Carly G. K. Ziegler, Constantine N. Tzouanas in Nature Communications (2021)

  3. Article

    COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets

    COVID-19, which is caused by SARS-CoV-2, can result in acute respiratory distress syndrome and multiple organ failure14, but little is known about its pathophysiology. Here we generated single-cell atlases of 24...

    Toni M. Delorey, Carly G. K. Ziegler, Graham Heimberg, Rachelly Normand in Nature (2021)

  4. Article

    Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics

    Angiotensin-converting enzyme 2 (ACE2) and accessory proteases (TMPRSS2 and CTSL) are needed for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) cellular entry, and their expression may shed light...

    Christoph Muus, Malte D. Luecken, Gökcen Eraslan, Lisa Sikkema in Nature Medicine (2021)

  5. Article

    Open Access

    Integrated single-cell analysis of multicellular immune dynamics during hyperacute HIV-1 infection

    Cellular immunity is critical for controlling intracellular pathogens, but individual cellular dynamics and cell–cell cooperativity in evolving human immune responses remain poorly understood. Single-cell RNA-...

    Samuel W. Kazer, Toby P. Aicher, Daniel M. Muema, Shaina L. Carroll in Nature Medicine (2020)

  6. Article

    Open Access

    Selective expansion of myeloid and NK cells in humanized mice yields human-like vaccine responses

    Mice engrafted with components of a human immune system have become widely-used models for studying aspects of human immunity and disease. However, a defined methodology to objectively measure and compare the ...

    Florian Douam, Carly G. K. Ziegler, Gabriela Hrebikova, Bruno Fant in Nature Communications (2018)

  7. Article

    Open Access

    Multiplexed, targeted profiling of single-cell proteomes and transcriptomes in a single reaction

    We present a scalable, integrated strategy for coupled protein and RNA detection from single cells. Our approach leverages the DNA polymerase activity of reverse transcriptase to simultaneously perform proximi...

    Alex S Genshaft, Shuqiang Li, Caroline J. Gallant, Spyros Darmanis in Genome Biology (2016)

  8. No Access

    Article

    Histone deacetylase 3 coordinates commensal-bacteria-dependent intestinal homeostasis

    This work identifies a role for intestinal epithelial cell (IEC)-intrinsic expression of histone deacetylase 3 in regulating commensal-bacteria-dependent gene expression and intestinal homeostasis; IEC-specifi...

    Theresa Alenghat, Lisa C. Osborne, Steven A. Saenz, Dmytro Kobuley in Nature (2013)

  9. No Access

    Article

    Innate lymphoid cells regulate CD4+ T-cell responses to intestinal commensal bacteria

    Group 3 innate lymphoid cells are shown to process and present antigen and to control CD4+ T-cell responses to intestinal commensal bacteria through an MHC-class-II-dependent mechanism.

    Matthew R. Hepworth, Laurel A. Monticelli, Thomas C. Fung, Carly G. K. Ziegler in Nature (2013)

  10. Article

    Innate lymphoid cells promote lung-tissue homeostasis after infection with influenza virus

    Cytokine-producing innate lymphoid cells are found at mucosal surfaces. Artis and Wherry and their colleagues show that innate 'nuocyte-like' cells accumulate in virus-infected lungs and contribute to the repa...

    Laurel A Monticelli, Gregory F Sonnenberg, Michael C Abt in Nature Immunology (2011)