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Transcriptional Reference Map of Human Natural Killler Cells

ABSTRACT: Transcriptional Reference Map of Human Natural Killler Cells

PROVIDER: PRJNA1029577 | ENA |

REPOSITORIES: ENA

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Transcriptional Reference Map of Human Natural Killler Cells

Project description:The functional diversity of NK cell repertoires stems from differentiation, homeostatic receptor-ligand interactions, and adaptive-like responses to viral infections. Here we performed single-cell RNA sequencing of both bulk NK and sorted NK subsets to establish a transcriptional reference map of human natural killer cells based on single-cell RNA sequencing profiles from 72,129 cells obtained from bulk (12 donors) and sorted phenotypically-defined NK cell subsets (2 donors) and tissue-resident NK cells (TrNK, 136 donors). Our own data is included here.

2023-10-27 | GSE245690 | GEO

Transcriptional reference map of hormone responses in wheat spikes

Project description:Phytohormones are key regulators of plant growth, development, and signalling networks involved in responses to diverse biotic and abiotic stresses. Transcriptional reference maps of hormone responses have been reported for several model plant species such as Arabidopsis thaliana, Oryza sativa, and Brachypodium distachyon. However, because of species differences and the complexity of the wheat genome, these transcriptome data are not appropriate reference material for wheat studies. We comprehensively analysed the transcriptomic responses in wheat spikes to seven phytohormones, including indole acetic acid (IAA), gibberellic acid (GA), abscisic acid (ABA), ethylene (ET), cytokinin (CK), salicylic acid (SA), and methyl jasmonic acid (MeJA). A total of 3386 genes were differentially expressed at 24 h after the hormone treatments. Furthermore, 22.7% of these genes exhibited overlapping transcriptional responses for at least two hormones, implying there is crosstalk among phytohormones. We subsequently identified genes with expression levels that were significantly and differentially induced by a specific phytohormone (i.e., hormone-specific responses). The data for these hormone-responsive genes were then compared with the transcriptome data for wheat spikes exposed to biotic (Fusarium head blight) and abiotic (water deficit) stresses. Our data were used to develop a transcriptional reference map of hormone responses in wheat spikes.

2017-09-05 | GSE103430 | GEO

Bradyrhizobium japonicum proteomic reference map, and Vigna mungo leaf proteome map

Project description:DISCLAIMER: This project actually contains two separate and independent assays by mistake. They should be not be considered together.</br></br>Assay 9769 - Bradyrhizobium japonicum proteomic reference map PMID : 20806226</br>Assay 15318 - Vigna mungo leaf proteome map PMID : 23587433

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A single cell reference map for human blood and tissue T cell activation

Project description:A single cell reference map for human blood and tissue T cell activation

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A reference map of cardiac transcription factor chromatin occupancy identifies dynamic and conserved transcriptional enhancers

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A single cell reference map for human blood and tissue T cell activation

Project description:Human T cells coordinate adaptive immunity by localization in diverse tissue sites, though blood T cells are the most readily studied. We investigated the functional responses of T cells isolated from human lungs (LG), lymph nodes (LN), bone marrow (BM), and blood to TCR-stimulation using single-cell RNA-seq. We defined cellular states for resting T cells including signatures that differentiate tissue and blood T cells and employed new factorization methods to identify activation states conserved across tissues, including an IFN-response activation state in CD4+T cells and distinct effector states specific to CD8+T cells. We demonstrate how this high-resolution map can be used to assess the origin and functional state of T cells in disease by projecting scRNAseq profiles of tumor-associated T cells from multiple cancers, revealing CD8 T cells that co-express markers of exhaustion, activation, and proliferation, and a lack of activated CD4 T cells. Our results establish a high-dimensional reference for human T cell homeostasis and function in multiple sites, from which to probe T cell dysfunction in disease.

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Single-cell reference cell state map of early mouse development

Project description:Ontogeny describes the orchestrated assembly of a complex multicellular organism from a single totipotent zygote. As the embryo grows, proliferating cells become restricted in their fate to realize one of many encoded phenotypes, which are subsequently maintained through the combined action of cell-type specific transcription factors and broadly expressed regulatory machinery. Here, we provide a reference map of mouse development through gastrulation and early organogenesis, which can be used to explore the partitioning of early lineages and discrete cell states.

2019-05-13 | GSE122187 | GEO

Deep transcriptional sequencing analysis of human prostate adenocarcinoma and reference samples

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Single-cell reference cell state map of early mouse development

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