User: sandKings

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sandKings10
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Posts by sandKings

<prev • 18 results • page 1 of 2 • next >
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Inferring Inter-individual variation using only merged raw read counts of the individual genes ?
... Hi all! I need some help to look at inter-individual gene variation in an RNA-Seq dataset of 20 patients. I am interested in variation in 5 genes. The only raw data I have is the merged raw read counts of the individual genes for all the 20 samples. 8 samples are from T1, 6 samples from T2 and 6 ...
rna-seq written 29 days ago by sandKings10
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Comment: C: What can you learn about your samples just by looking at normalized read counts?
... Thank you so much! This was very helpful. ...
written 29 days ago by sandKings10
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Comment: C: What can you learn about your samples just by looking at normalized read counts?
... That's what I want to do but I don't understand their assumption that normalized read counts of a gene should tell me if my cells are 'pure'. Wouldn't qRTPCR be more appropriate to establish the purity. ...
written 7 weeks ago by sandKings10
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What can you learn about your samples just by looking at normalized read counts?
... Hi everyone, My study involves multiple cell lineages which were isolated from the mammary gland and sorted based on surface markers. The FACS data 100% agrees with published literature and what we expected to see post-treatment. I isolated RNA from all these cell lineages and treatment groups and ...
rna-seq written 7 weeks ago by sandKings10 • updated 7 weeks ago by Kevin Blighe26k
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GSEA Leading edge analysis error
... hi all! I'm trying to run a leading edge analysis on my RNASeq data. Hi everyone! I'm trying to run a leading edge analysis on my RNASeq data using GSEA I first create a ranked gene set file and run GSEA Prerank analysis. I use the GMT file from http://download.baderlab.org/EM_Genesets/curren ...
rnaseq gsea written 5 months ago by sandKings10
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Comment: C: Sanger Sequencing showing too much background noise?
... Hi Michael, thanks so much for the feedback. I know she's using nanodrop but am not sure if it's before or after purification. I'll confirm ...
written 5 months ago by sandKings10
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Comment: C: Sanger Sequencing showing too much background noise?
... Thanks C. She is using her own oligos and she said she'd make a fresh batch as well as try purifying the DNA. ...
written 5 months ago by sandKings10
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Comment: C: Sanger Sequencing showing too much background noise?
... Right! Sorry about that. ...
written 5 months ago by sandKings10
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Sanger Sequencing showing too much background noise?
... One of my colleagues is trying to do Sanger Sequencing. In her words: "I am isolating DNA from tissues, amplifying the gene of interest, purifying it and sending it for sequencing. However, I get high-intensity peaks with lots of background: ![see peaks][1] https://imgur.com/a/R1mwp Do you have ...
sanger sequencing written 5 months ago by sandKings10 • updated 5 months ago by Michael Kosicki80
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Comment: C: Error in ggbiplot
... Thanks, Kevin! Let me try this and see. ...
written 6 months ago by sandKings10

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