Question: distribution of abundances
0
gravatar for Mozart
2.2 years ago by
Mozart140
Mozart140 wrote:

Hi everyone, I have this final result from my pipeline. this is a distribution of abundances from 2 different samples (ko in red; wt in green). So, if I got it correctly...basically the two samples are almost similar except for the highest peak at the very beginning but can you please help me to clarify a bit better this distribution?

enter image description here

rna-seq • 548 views
ADD COMMENTlink modified 2.2 years ago by Kevin Blighe53k • written 2.2 years ago by Mozart140
1

What is the aim of your study, aka what do you want to show by your experiment?

ADD REPLYlink written 2.2 years ago by ATpoint28k
1

Hi Heisenberg,

If an answer was helpful you should upvote it, if the answer resolved your question you should mark it as accepted. Please also do this for your previous questions.
Upvote|Bookmark|Accept

ADD REPLYlink modified 2.2 years ago • written 2.2 years ago by WouterDeCoster42k
3
gravatar for Kevin Blighe
2.2 years ago by
Kevin Blighe53k
Kevin Blighe53k wrote:

Based on your tag, this is RNA-seq data.

I wouldn't worry about this distribution - this looks good to me. This close similarity in count abundance profiles across your 2 conditions is expected and doesn't imply that the individual expression of the same transcripts across these conditions will also be the same, i.e., there are still likely statistically significantly differentially expressed transcripts between both of these, but you'll have to do the differential expression analysis to find out.

Both conditions exhibit higher counts than the other at two parts: KO at around 0.5; WT at around 1.75-2.25.

One more thing: this is a negative binomial distribution, which again is expected given this type of data. The 1 is added so as to shift the entire dataset and avoid problems when logging values that are virtually or are nil/zero.

ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by Kevin Blighe53k
1

Thank you so much! Very very helpful...

ADD REPLYlink written 2.2 years ago by Mozart140
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