Project description:We thus isolated amygdala from rhesus macaques and performed single-cell RNA-sequencing analysis. The scRNA-Seq libraries were generated using the 10X Genomics Chromium Controller Instrument and Chromium Single Cell 3’ V2 Reagent Kits (10X Genomics, Pleasanton, USA). Briefly, cells nuclei were concentrated to 1000 nuclei/μL and approximately 15000 nuclei were loaded into each channel to generate single-cell Gel Bead-In-Emulsions (GEMs), which results into expected mRNA barcoding of 9000 single nucleus for each sample.
Project description:We thus isolated hippocampus from rhesus macaques and performed single-cell RNA-sequencing analysis. The scRNA-Seq libraries were generated using the 10X Genomics Chromium Controller Instrument and Chromium Single Cell 3’ V2 Reagent Kits (10X Genomics, Pleasanton, USA).
Project description:We thus isolated Anterior cingulate cortex (ACC) and Retro splenial cortex (RSC) from rhesus macaques and mice and performed single-cell RNA-sequencing analysis.The scRNA-Seq libraries were generated using the 10X Genomics Chromium Controller Instrument and Chromium Single Cell 3’ V2 Reagent Kits (10X Genomics, Pleasanton, USA).
Project description:The cochlear stria vascularis (SV) maintains the endocochlear potential and relies on specialized vascular endothelial cells and pericytes. To characterize the transcriptional profiles of these vascular populations at single-cell resolution, we performed single-cell RNA sequencing (scRNA-seq) on SV tissue from reporter mice. SV was microdissected from temporal bones of 1–3 month-old Tie2-GFP (endothelial reporter) and NG2-DsRed (pericyte reporter) mice, enzymatically dissociated to obtain single-cell suspensions, and, when applicable, subjected to FACS enrichment for Tie2-GFP–positive endothelial cells or NG2-DsRed–positive pericytes. Viable cells were loaded onto the 10x Genomics Chromium platform for single-cell capture and 3′ barcoded library preparation. This dataset contains two independent batches corresponding to SV endothelial cell–enriched and pericyte-enriched preparations and enables analysis of vascular heterogeneity within the mouse stria vascularis.
Project description:We performed Visium CytAssist (10X), GeoMx DSP (Nanostring) and Chromium Flex (10X Genomics) full transcriptome profiling on Breast Cancer (BC), Lung Cancer (LC) and diffuse large B cell lymphoma (DLBCL) samples from archival FFPE blocks. We explore the data quality across blocks with different storage times and DV200 values for all the three methods. We compared the cell type signature purity between ST methods Visium and GeoMx by utilising pathology annotations and scRNAseq. For the Visium and Chromium methods with a large number of data points we explored the heterogeneity between tissues. Finally, we demonstrate the discovery of patient-specific tumor-TME interactions across all three methods.
Project description:We performed Visium CytAssist (10X), GeoMx DSP (Nanostring) and Chromium Flex (10X Genomics) full transcriptome profiling on Breast Cancer (BC), Lung Cancer (LC) and diffuse large B cell lymphoma (DLBCL) samples from archival FFPE blocks. We explore the data quality across blocks with different storage times and DV200 values for all the three methods. We compared the cell type signature purity between ST methods Visium and GeoMx by utilising pathology annotations and scRNAseq. For the Visium and Chromium methods with a large number of data points we explored the heterogeneity between tissues. Finally, we demonstrate the discovery of patient-specific tumor-TME interactions across all three methods.
