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Results Found: 242
  • Transcriptional and epigenetic regulation of adaptive NK cell responses [ChIP-Seq]

    Alternate Title(s)
    Regulation of natural killer cells during MCMV infection
    Authors
    Lau, Colleen M.
    Sun, Joseph C.
    Description

    Natural killer (NK) cells are innate lymphocytes that possess features of adaptive immunity such as clonal expansion and generation of long-lived memory. Interleukin (IL)-12 signaling through its downstream transcription factor STAT4 is required for the generation of memory NK cells following expansion, while type I interferon through STAT1 is important for NK cell expansion. Here, we identify gene...

    Subject
    Interferon Regulatory Factors
    Interleukin-12
    Killer Cells, Natural
    Transcription Factors
    Access Rights
    Free to All
  • Epigenetic control of innate and adaptive immune memory [ATAC-Seq]

    Alternate Title(s)
    Regulation of natural killer cells during MCMV infection
    Authors
    Lau, Colleen M.
    Sun, Joseph C.
    Description

    Clonal expansion and immunological memory are hallmark features of the mammalian adaptive immune response and essential for prolonged host control of pathogens. Recent work demonstrated that natural killer (NK) cells of the innate immune system also exhibit these adaptive traits during infection. Here we demonstrate that differentiating and ‘memory’ NK cells possess distinct chromatin accessibility...

    Subject
    Epigenetics
    Killer Cells, Natural
    T-Lymphocytes, Cytotoxic
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    Free to All
  • Transcriptional regulation of adaptive NK and CD8 T cell responses [RNA-Seq]

    Alternate Title(s)
    Regulation of natural killer cells during MCMV infection
    Authors
    Lau, Colleen M.
    Sun, Joseph C.
    Description

    Natural killer (NK) cells are innate lymphocytes that possess features of adaptive immunity such as clonal expansion and generation of long-lived memory. Here we look at transcriptional profiles of NK cells throughout several time points during MCMV infection, ex-vivo cytokine stimulation, and/or deficiency of key transcription factors such as STAT4, STAT1, and Runx1. In addition, we profile parallel...

    Subject
    Killer Cells, Natural
    Mouse Cytomegalovirus
    T-Lymphocytes, Cytotoxic
    Transcription Factors
    Viral Infections
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    Free to All
  • Tumor cell-intrinsic RIG-I in murine melanoma promotes checkpoint inhibitor-mediated anticancer immunity

    Description

    Durable clinical responses to immune checkpoint inhibitors (ICB) remain limited to a minority of patients, and the molecular pathways that modulate ICB efficacy remain incompletely defined. Here we demonstrate that immunotherapy with anti-CTLA-4 and its combination with anti-PD-1 rely on melanoma cell-intrinsic activation of the cytosolic RNA receptor RIG-I. Mechanistically, tumor cell-intrinsic RIG-I...

    Subject
    Immunotherapy
    RNA Helicases
    Access Rights
    Free to All
  • Transcription factor IRF8 orchestrates the adaptive natural killer cell response

    Authors
    Lau, Colleen M.
    Sun, Joseph C.
    Description

    RNA-seq performed on NK cells harvested during in-vivo infection. Natural killer (NK) cells are innate lymphocytes that have been recently appreciated to display features of adaptive immunity in response to viral infection. Biallelic mutations in the IRF8 gene have been reported to cause familial NK cell deficiency and susceptibility to severe viral infection in humans; however, the precise role...

    Subject
    Interferon Regulatory Factors
    Killer Cells, Natural
    Mouse Cytomegalovirus
    Viral Infections
    Access Rights
    Free to All
  • High frequency intestinal microbiota sampling in allogeneic bone marrow transplant patients

    Description

    NCBI BioProject collection containing SRA Experiment data and BioSamples resulting from "high frequency intestinal microbiota sampling in allogeneic bone marrow transplant patients, part of a larger systems biology project examining factors that influence antibiotic resistance, with a focus on the pathogens Vancomycin-Resistant Enterococcus and Klebsiella pneumoniae".

    Subject
    Drug Resistance, Microbial
    Gastrointestinal Tract
    Microbiota
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    Free to All
  • Nodal signaling maintains H3K18ac landscape to promote mesendodermal differentiation through TRIM33

    Authors
    Luo, Maoguo
    Bai, Jianbo
    Liu, Bofeng
    Yan, Peiqiang
    13 more author(s)...
    Description

    ATAC-seq, RNA-seq, and ChIP-seq datasets supporting the article "H3K18ac Primes Mesendodermal Differentiation upon Nodal Signaling". From GEO authors' summary: "The epigenome of a cell is established and maintained by chromatin modifiers and remodelers, which are recruited to the chromatin by specific transcription factors. In this report, we show that nodal cross-talks with the epigenome through...

    Subject
    Gene Expression Profiling
    Transcription Factors
    Access Rights
    Free to All
  • Organ-specific in situ transcriptomics of MDA231 cells identified by Flura-seq

    Alternate Title(s)
    Flura-seq identifies organ-specific adaptations in metastasis-initiating cells
    Authors
    Basnet, Harihar
    Tian, Lin
    Massagué, Joan
    Description

    Summary from the GEO: "Metastasis-initiating cells dynamically adapt to the distinct microenvironments of different organs, but these early adaptations are poorly understood due to the limited sensitivity of in situ transcriptomics. We developed fluorouracil-labeled RNA sequencing (Flura-seq) for in situ analysis with unprecedented sensitivity. Flura-seq utilizes cytosine deaminase (CD) to convert...

    Subject
    Brain Neoplasms
    Breast Neoplasms
    Gene Expression Profiling
    Lung Neoplasms
    Transcriptome
    Access Rights
    Free to All
  • Flura-Seq Identifies In Situ Transcriptomes of Micrometastases

    Authors
    Basnet, Harihar
    Macalinao, Danilo Reynaldo Galindez
    Massagué, Joan
    Description

    Summary from the GEO: "Understanding the biology of rare cell populations in the context of their microenvironment requires an accurate analysis of the transcriptomes of these cells as expressed in situ. We developed fluorouracil-tagged RNA sequencing (Flura-seq) to characterize the transcriptomes of small cell subpopulations from a whole organ in model systems. The method utilizes cytosine deaminase...

    Subject
    Brain Neoplasms
    Breast Neoplasms
    Gene Expression Profiling
    Lung Neoplasms
    Transcriptome
    Transforming Growth Factor beta
    Access Rights
    Free to All
  • Figure 1 accompanying the article "Spinocerebellar ataxia type 11-associated alleles of Ttbk2 dominantly interfere with ciliogenesis and cilium stability"

    Authors
    Bowie, Emily
    Norris, Ryan Michael
    Anderson, Kathryn V.
    Goetz, Sarah C.
    Description

    Series of images showing comparison between wild type, Ttbk2null/null, and Ttbk2sca11/sca11 E10.5 embryos, transverse sections, and mesenchymal cells. Author description of title: "The phenotype of Ttbk2sca11/sca11 embryos is identical to that of the null allele."

    Subject
    Protein-Serine-Threonine Kinases
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    Free to All