Immune cell signaling responses to a panel of 15 stimuli were measured using CyTOF mass cytometry to read out universal signaling and phenotyping panels. We found numerous instances of different immune signaling events occurring between species with likely effects on evaluation of therapeutics. We frame...
Identifying cellular identities is a key use case in single-cell transcriptomics. While machine learning has been leveraged to automate cell annotation predictions for some time, there has been little progress in scaling neural networks to large data set
we first adjusted for age at visit, sex, immune cell-type proportions (for B lymphocytes, natural killer cells, CD4 + T lymphocytes, CD8 + T lymphocytes, monocytes, neutrophils), and batch effects in both DNA methylation and gene expression levels separately ...
In particular, scRNA-seq has revolutionised our understanding of immune cell heterogeneity by providing in-depth snapshots of individual cell activity (Giladi and Amit, 2018; Stubbington et al., 2017). These technologies have been exploited to generate accessible atlases of the mouse (The Tabula Mur...
(C) t-SNE analysis of 88,013 single cells from dairy cattle, with 10 tissue types labeled in different colors. (D) Proportions of the 55 major cell types in the tissues. AUC: area under the curve. For each immune cell type, we found that cells from different tissues clustered together...
In each prediction task, we held out all cells in a cell type or tissue in the target species as the test set, to mimic the actual use case where we would like to predict cellular profiles in an unseen context. This set of cells was not seen by the model during training and was use...
[50,51,52], which are the primary immune cells in the brain involved in neuroinflammation and tissue repair. These cells are crucial in reproductive and neural systems, respectively. These critical populations are often prone to over-integration with majority cell types in other method like sc...
This is particularly evident in the case of critical minority populations like Extravillous trophoblasts [47–49]-key cells in placental development and function-and Microglia [50–52], which are the primary immune cells in the brain involved in neuroinflammation and tissue repair. These cells are...
When applying StemSC to tumor tissue cells, we found that the stem-like tumor cells had fewer connections with immune cells. The deeper investigations of this phenomenon may reveal new mechanisms of immune cell regulation and provide a new direction for immunotherapy....
tissue between the erythema- and papulation-skewed AD patients. In both skin samples, intense infiltration of immune cells including CD4+T cell (Fig.2c), macrophage (CD206+), myeloid dendritic cell (CD11c+, DC-LAMP+) and Langerhans cell (CD1a+), along with epidermal hyperplasia and ...