In comparison: the previous 10x Genomics instrument, the Chromium Controller, can run low-throughput (100–1000 cells) and moderate-throughput (1,000–10,000 cells) assays. It offers the highest throughput (> 100,000 cells and more) per run and is compatible with the newest single-cell assays. The most advanced generation of 10x Chromium instruments is the Chromium X Series. Read on to learn about the various Chromium series, how the platform works, and what its features are. 10x Chromium is compatible with the droplet-based scRNA-seq methods of 10x Genomics. Also, it can operate at a scale of hundreds to ten thousands of cells per run. It enables the analysis of gene expression profiles at single-cell resolution. Home > 10x Chromium: how does it work and what are its features?ġ0x Chromium is a machine, or platform, that researchers use for high-throughput single-cell RNA sequencing (scRNA-seq). Support Sample requirements, shipping, and more.Getting started All the steps for starting your project.Blog Thought-leadership, knowledge, and updates.Resource Library Webinars, our selection tool, and more.Case studies Detailed insights into past projects.Publications From our clients and project work.Data analysis Options beyond the included exploratory analysis.Our approach An inside look at SCD’s White-Glove approach.Research Areas Find out how single-cell sequencing is advancing disease understanding and drug development in your research area of interest.Applications Overview From fundamental biology to translational research and drug development, single-cell sequencing applications are revolutionizing science.Research & Development Our expert team drives innovation and versatility.Bulk RNA sequencing Detect transcriptome profiles in populations.VASA-seq Full-length total-RNA sequencing.10x Genomics High-throughput single-cell solutions.SORT-seq Plate-based single-cell transcriptomics.Services Overview Explore multiple single-cell, spatial and bulk RNA sequencing platforms to best suit your biological question.Interestingly, the eosinophily in the second sample received an activating treatment and probably contained even more or more active RNAses. Unfortunately, they also destroy mRNA in single cell experiments. Why were there many reads without insert in this experiment and why are some samples more heavily affected than others? As I mentioned, this were eosinophil granulozytes and these fellas contain many proteases, DNAses and RNAses to destroy invading pathogens. But without any insert the fragmentation does not work and many reads still have this technical sequence. Actually the TSO should not be present in the final read after addition of Illumina adapters. In the second sample there are many cases with no insert and the TSO is followed by the poly A sequence. This is a simplified illustration from the 10x manual:Īs you can see the cDNA insert should be between the polyA capture probe and the TSO. The over-represented sequence is the template switching oligo (TSO) that is used for the synthesis of the second strand (the example is for the v2 chemistry but the principle is the same for v3 and later). I actually figured out what was going on some time ago:
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