Journal: Reproduction (Cambridge, England)

Article Title: Single cell transcriptome research in human placenta

doi: 10.1530/REP-20-0231

Figure Lengend Snippet: Single cell RNA-sequencing on placenta cells. The heterogeneity of placenta gene expression can be revealed by single cell RNA-sequencing (scRNA-seq) technology. The placenta tissue is first dissociated into a single cell suspension and cells are then individually encapsulated into a water-in-oil droplet, followed by the cDNA synthesis via reverse transcription, during which the cell barcode and the unique molecular identifiers (UMI) are incorporated into the cDNA molecule. The cDNAs from individual cells are amplified for library preparation, followed by next-generation sequencing. The sequences are then mapped by alignment algorithms and counted for those mapped to the reference transcriptome. The cell origin of the mapped reads can be identified by the cell barcode within them. As a result, a sequence read count matrix is generated over thousands of genes (rows) and thousands of single cells (columns). This count matrix is then subject to preprocessing and downstream bioinformatics analysis, such as clustering and pseudo-time reconstruction among single cells, as shown in the figure. EVT, extravillous trophoblast; F, fibroblast; H, Hofbauer cell; SCT, syncytiotrophoblast; VCT, villous cytotrophoblast.

Article Snippet: Single cell gene expression analysis of the first- and third-trimester VCT cells indicates the continuous process of VCT to EVT differentiation throughout the pregnancy ( Tsang et al. 2017 , Suryawanshi et al. 2018 ).

Techniques: RNA Sequencing, Gene Expression, Suspension, cDNA Synthesis, Reverse Transcription, Amplification, Next-Generation Sequencing, Sequencing, Generated

Journal: Reproduction (Cambridge, England)

Article Title: Single cell transcriptome research in human placenta

doi: 10.1530/REP-20-0231

Figure Lengend Snippet: A list of platforms for single cell RNA-seq analysis.

Article Snippet: Single cell gene expression analysis of the first- and third-trimester VCT cells indicates the continuous process of VCT to EVT differentiation throughout the pregnancy ( Tsang et al. 2017 , Suryawanshi et al. 2018 ).

Techniques: Single-cell Analysis, Control, RNA Sequencing

Journal: Frontiers in Immunology

Article Title: Single-Cell Sequencing Reveals the Novel Role of Ezh2 in NK Cell Maturation and Function

doi: 10.3389/fimmu.2021.724276

Figure Lengend Snippet: Enriched pathway network of DEGs between WT and Ezh2-/-NK cells. (A) Overlap between gene lists, where purple curves link identical genes. (B) Heatmap of enriched terms across input gene lists colored by p-values. (C) Network of enriched terms colored by cluster ID, where nodes sharing the same cluster ID are typically close to each other. (D) Gene lists of indicated pathways and processes.

Article Snippet: To determine the role of Ezh2 in NK cell maturation, we sorted NK cells from the spleens of Ezh2 fl/fl and Ezh2 ΔNK mice to study the developmental heterogeneity of NK cells at the single-cell level using the BD Rhapsody single-cell gene expression system.

Techniques:

Journal: Frontiers in Immunology

Article Title: Single-Cell Sequencing Reveals the Novel Role of Ezh2 in NK Cell Maturation and Function

doi: 10.3389/fimmu.2021.724276

Figure Lengend Snippet: The heterogeneity of relative maturity between WT and Ezh2 ΔNK mice. (A) The relative maturity along the developmental trajectory is displayed across pseudotime. (B) Distribution of five developmental states defined by monocle along the pseudotime trajectory. (C) Distribution of all conditions along the pseudotime trajectory. (D) Distribution of all NK stages along the pseudotime trajectory. (E) Heatmap of normalized cell numbers of each NK stage in the pseudotime trajectory states. (F) The compositions of WT and Ezh2 -/- NK cells in five states. (G) Heatmap showing clustering genes by pseudotemporal expression pattern.

Article Snippet: To determine the role of Ezh2 in NK cell maturation, we sorted NK cells from the spleens of Ezh2 fl/fl and Ezh2 ΔNK mice to study the developmental heterogeneity of NK cells at the single-cell level using the BD Rhapsody single-cell gene expression system.

Techniques: Expressing

Journal: Frontiers in Immunology

Article Title: Single-Cell Sequencing Reveals the Novel Role of Ezh2 in NK Cell Maturation and Function

doi: 10.3389/fimmu.2021.724276

Figure Lengend Snippet: The potential mechanism by which Ezh2 regulates the expression of the indicated genes. (A) Components identified by the MCODE algorithm of Metascape analysis. (B) Boxplot of the indicated genes at different stages under the two conditions. (C) Distribution of PWM generated by the meme suite across promoters of the indicated genes. (D) The transcription factors predicted by TOMTOM.

Article Snippet: To determine the role of Ezh2 in NK cell maturation, we sorted NK cells from the spleens of Ezh2 fl/fl and Ezh2 ΔNK mice to study the developmental heterogeneity of NK cells at the single-cell level using the BD Rhapsody single-cell gene expression system.

Techniques: Expressing, Generated