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Forum: Bioinformatics 09-28-2018, 03:26 AM
Replies: 0
Views: 817
Posted By Bidfudge
Deal with RNA spike-in in single cell analysis

Hi everyone,

I'm working with single cell RNAsequencing data obtained with the fluidigm technology. In the protocol, we chose the 96 well-plate which allows us to get full length mRNAseq from the...
Forum: Bioinformatics 06-05-2018, 11:55 AM
Replies: 15
Views: 10,400
Posted By Bidfudge
Feedback on these experiments

Hi Travelk,

Did you published the paper related to the data generated with the C1? I'm facing the same thing, I will have full length RNAseq data from the C1 soon and we used the Spike from Ambion...
Forum: Illumina/Solexa 11-29-2017, 04:49 AM
Replies: 3
Views: 1,521
Posted By Bidfudge
Hello, thanks for the answer, yeah I will...

Hello,

thanks for the answer, yeah I will use dual index on my sample, but as I am suppose to pass 384 cells on the same flow cells, I will be in the same position as this paper...
Forum: Illumina/Solexa 11-29-2017, 12:34 AM
Replies: 3
Views: 1,521
Posted By Bidfudge
Index hopping Hiseq4000 and single cell

Hi everyone,

We are currently working on single cell experiment with the C1 platform from fluidigm. We plan to sequence 384 single cells with the "SMART-Seq® v4 Ultra® Low Input RNA Kit for the...
Forum: Bioinformatics 07-25-2016, 02:32 AM
Replies: 3
Views: 2,227
Posted By Bidfudge
Oh damn, i'm stupid :))) Thanks for the...

Oh damn, i'm stupid :)))

Thanks for the help, i was wrong for the correction, i used BH

thks again for the help :)
Forum: Bioinformatics 07-25-2016, 01:55 AM
Replies: 3
Views: 2,227
Posted By Bidfudge
p-value and log fold change

Hi everyone,

I was using DEseq2 to analyse my data from RNAsequencing.
Basically, i have 2 conditions and i would like to evaluate which gene are differentially expressed between these both...
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