Tag: SmartSeq

Absolute Scaling of Single-Cell Transcriptomes Reveals Pervasive Hypertranscription in Adult Stem and Progenitor Cells

Introduction Single cell RNA-seq (scRNA-seq) is a powerful tool to measure gene expression in individual cells. While relative gene expression differences are currently analyzed with great interest in single cell data, differences in total transcript levels were mainly considered technical artefacts and removed during normalization, assuming that single cells contain…

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eli5 RNA Spike-ins : explainlikeimfive

I’m a data scientist trying to branch out into more bioinformatics/genetics. My tutorial is counting spike-ins, but his explanation was over my head: 1 – AnnData and Preprocessing spike-ins | Kaggle ” Because this is smartseq2 data, we may have spike-ins. An RNA spike-in is an RNA transcript of known…

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Re-analysis of multiple scRNAseq data as a combined new one

Re-analysis of multiple scRNAseq data as a combined new one 0 Hi all, There are so many regions in brain.The cortex itself is of many types.I found many single cell RNA seq studies which focus on different regions eg- gse … somatosensory cortex dropseq year 2015 gse….. primary visual cortex…

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Differences between SMART-seq2, SMART-seq3, and 10x

Forum:Differences between SMART-seq2, SMART-seq3, and 10x 0 Hi everyone, I’ve recently started analyzing single-cell RNA-seq data (with FASTQ files as a starting point) and so far I have used 10x genomics data from their website. Now, I’m interested in using data generated by other protocols, specifically SMART, because it is…

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SmartSeq vs SmartSeq2

SmartSeq vs SmartSeq2 0 My data is SmartSeq data, and I would like to run the velocyto command for SmartSeq2 to carry out the initial conversion step for RNA velocity analysis. My question is quite simple: what is the difference between smartseq and smartseq2? Is this difference large enough to…

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