Performing single-cell quality control is a vital step in the data analysis pipeline. Setting QC parameters can significantly affect downstream analysis: too permissive QC filtering makes the dataset too noisy to read, and too stringent QC thresholds may remove important information. In this article, let’s discuss the art of setting […]
From Single-cell RNA-sequencing to Spatial RNA-sequencing Since its invention, single-cell RNA-sequencing has become one of the most popular genomic tools. Despite its power in dissecting the transcriptome at individual cell resolution, single-cell RNA-sequencing stil faces several limitations. One of them is the lack of critical spatial information. Adding spatial context […]
Did you know that by the end of 2021, the number of tools for single-cell RNA-sequencing (scRNA-seq) data analysis has passed 1,000? (Zappia and Theis, 2021) This massive resource accelerates the exploration of single-cell data. At the same time, the plethora of options poses several challenges for researchers, such as: […]
Spatial Transcriptomics Brain Data Is In Demand The spatial gene expression contributes significantly to brain morphology, physiology, and connectivity. However, obtaining spatial transcriptomics brain data has long been a technical challenge. Recently, with continuous breakthroughs in spatial transcriptomics sequencing technique and data analysis tools, spatial human brain single cell RNA-Seq […]
Single-cell RNA sequencing technologies have enabled many exciting discoveries of novel cell types and sub-types, such as the rosehip neurons (Boldog et al., 2018), disease-associated microglia (Keren-Shaul et al., 2017) and lipid-associated macrophages (Jaitin, Adlung, Thaiss, Weiner and Li et al., 2019). While sub-clustering cell populations is essential to find […]
Single-cell sequencing technologies have brought up an unprecedented level of resolution to omics studies with extremely detailed views into individual cells’ expression patterns. With the emergence of drop-based sequencing methods, the resolution now even comes with scale and efficiency. In a single experiment, scientists can now profile hundreds of thousands […]
Single-cell RNA-seq technologies have opened up a completely new era for transcriptomic studies. For the first time ever, scientists can look at individual transcriptomic profiles of millions of cells, and better understand how each cell functions in a tissue. Yet science is confronting bigger challenges analyzing these massive amounts of […]
