User: jyshiningsoul

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Posts by jyshiningsoul

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Comment: C: How to generate a reference with several tissues?
... Thank you for your reply. Actually, I am studying on a non-model organism. I have generated two assemblies to test which assembly is better: (1) assembly1: I pooled samples of three tissues together, (2)assembly2,3,4: reads from three tissues were generated according to tissues, then I got three as ...
written 6 months ago by jyshiningsoul0
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Comment: C: How to generate a reference with several tissues?
... Yes, the specie I am studying is a non-model organism, and now I have RNA-seq data of its three tissues. ...
written 6 months ago by jyshiningsoul0
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How to generate a reference with several tissues?
... Hi, in my experiment design, I have RNA-seq data of three different tissues, and I want to take a look at the expression pattern of three tissues. But I have a question: how to generate a reference for my experiment design? Should I put the reads of three tissues together to get a assembly or genera ...
trinity rna-seq assembly written 6 months ago by jyshiningsoul0 • updated 6 months ago by Vijay Lakhujani4.1k
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Comment: C: How to remove batch effects when i have different organs?
... Thank you for your reply. In my experimental design, I want to test whether the phylogenetic trees constructed from gene expression of organs of subspecies will be in accordance with real phylogenetic tree or not. But the different platform and inconsistent sex of individuals may have effect. For ex ...
written 7 months ago by jyshiningsoul0
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Comment: C: How to remove batch effects when i have different organs?
... Thank you for your reply, and I am sorry to reply to you so late. Each library construction (average insert size = 300 bp), and sequencing on an Illumina HiSeq 4000 sequencer (150 bp paired-end) were conducted by different companies. But the platform didn't dominate the distribution of the plots, ju ...
written 7 months ago by jyshiningsoul0
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How to remove batch effects when i have different organs?
... Hello, I focus on three subspecies of bat, individuals of three subspecies were sequenced by different platforms and have inconsistent sex. l have a RNA-seq counts matrix containing the counts of three organs per individuals, when PCA analysis for three organs separately, the plots cluster together ...
rna-seq written 7 months ago by jyshiningsoul0

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