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Forum: Introductions 05-26-2020, 07:28 AM
Replies: 0
Views: 843
Posted By CharlesG
Does cell type affect possibility for multiplets during GEM formation?

Hi. Do the cell types to be sequenced by single cell RNA sequencing have a possibility to influence the occurance of doublets during the creation of GEMS in a 10X genomics platform?
Forum: Illumina/Solexa 04-20-2020, 09:07 AM
Replies: 6
Views: 1,339
Posted By CharlesG
Thank you very much.

Thank you very much.
Forum: Illumina/Solexa 04-20-2020, 08:14 AM
Replies: 6
Views: 1,339
Posted By CharlesG
Thanks a lot for helping. We submitted...

Thanks a lot for helping. We submitted approximately 10000 (ten thousand cells) per condition (before and after treatment).
Forum: Illumina/Solexa 04-20-2020, 07:32 AM
Replies: 6
Views: 1,339
Posted By CharlesG
Thank you very much for the very helpful...

Thank you very much for the very helpful suggestion. However I still wish to know how much data output in Giga bases should I specify to Novogene for a 90% sequencing saturation level and 30000 reads...
Forum: Illumina/Solexa 04-20-2020, 06:44 AM
Replies: 6
Views: 1,339
Posted By CharlesG
Advice on how much data output to specify for single Cell RNA seq of human PBMCs?

Hi everyone, I am a novice in to single cell RNA seq and my colleagues and I have sent PBMCs of one patient (before and after treatment) to Novogene for paired-end single cell RNA sequencing. We are...
Forum: Bioinformatics 03-19-2020, 10:47 PM
Replies: 0
Views: 799
Posted By CharlesG
How do I differentiate outliers from in-group variations in a DESeq2 PCA plot?

I have a PCA plot (please see below) from DESeq2's plotPCA(vsd, intgroup=c("conditions"))
function. I have 9 samples distributed in to 3 groups of 3 biological replicates each. My reason for trying...
Forum: Introductions 07-10-2019, 12:47 AM
Replies: 1
Views: 1,066
Posted By CharlesG
Can I use different cell lines of the same cell type from the same tissue?

Hi everyone,

I am an absolute novice to chip-seq and I have to plan a chip-seq experimnent involving the overexpression of a tanscription factor in microvascular endothelial cells from the skin...
Forum: Introductions 07-10-2019, 12:33 AM
Replies: 0
Views: 939
Posted By CharlesG
Greetings

Hi everyone!

I'm a new PhD student working on a Chip-seq-based project. I am a novice to Chip-seq. My goal is to discover the reason behind the differential behaviour of various cells when they...
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