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Finding differentially expressed genes from scRNA-seq Kaizen Bioinformatics 1 10-24-2016 10:50 PM

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Old 12-10-2016, 08:23 AM   #1
seqgirl123
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Default scRNA-Seq

Does anyone have a workflow or knows of a kit that allows for whole transcript single cell RNA Seq with reverse transcriptase barcoding of each cDNA, and also UMI labeling? We are currently interested to perform this in our lab but most vendors are cutting down to 5' or 3' ends for scRNA-Seq analysis and we still want the whole transcript.
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Old 12-12-2016, 03:46 PM   #2
dwong
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NuGEN has a kit that has all the abovementioned features, the Ovation SoLo RNA-Seq Kit.
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Old 12-12-2016, 04:57 PM   #3
nucacidhunter
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Quote:
Originally Posted by dwong View Post
NuGEN has a kit that has all the abovementioned features, the Ovation SoLo RNA-Seq Kit.
I do not think this kit adds barcodes and UMIs to individual cDNA during RT as methods such as Drop-Seq does. Index (called barcode by NuGEN) and UMIs are added through adapter to amplified cDNA so it only identifies PCR duplicates generated during adapted library amplification. While Drop-Seq or 10X genomics single cell marks the 1st strand cDNA enabling identification of reads resulting from a single transcript.
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