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Hi,
Can PHLAT (HLA genotyping) be used with single cell RNA-seq (e.g. 10x platform)?
Thanks and good day.
Can PHLAT (HLA genotyping) be used with single cell RNA-seq (e.g. 10x platform)?
Thanks and good day.
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malonzm1 you should be able to do this. I thought I saw a pre-print on something like this. I can't remember if it's this one (https://www.biorxiv.org/content/10.1...06.09.495569v1) or not. Maybe I can dig it up if this doesn't look right to you. -
Hi @GenomicSeq,
Thanks! Would you know if it requires first demultiplexing the 10x fastq files?Comment
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What about smart-seq2 and fluidigm C1?Comment
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malonzm1 sorry for the late response. I just realized you replied. But yeah you would have to demultiplex them. Although I'm not super familiar with the Fluidigm C1. What specifically is your question with that?Comment
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...Yesterday, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM -
With the launch of new single-cell sequencing platforms in 2026, the field stands at an exciting inflection point. This article surveys the most impactful advances in the field and discusses how they’re reshaping research in cancer, immunology, and beyond.
Introduction
Single-cell sequencing technologies have undergone remarkable advances over the past decade, transitioning from low-throughput experimental approaches to highly scalable platforms capable of...05-22-2026, 06:42 AM
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