2
$\begingroup$

The number of amino acids in a protein is important to predict their size. I used coding DNA sequence (CDs) to predict the average of the protein size of E.coli k12 from a sample provided by the seqinr R package. The size of each sequence is stored in variable x. I used two histograms to fit the distribution of this variable and their logarithm.

enter image description here enter image description here

I suggest that the log linear distribution is more reasonable.The average E can be calculated then:

E1=mean(x)/3

E2=exp(mean(log(x)))/3
  • Which average do I have to use?
  • Is there a correlation between the base composition and the predicted average?
$\endgroup$

closed as unclear what you're asking by Remi.b, MattDMo, rg255, AliceD, Chris May 10 '16 at 21:40

Please clarify your specific problem or add additional details to highlight exactly what you need. As it's currently written, it’s hard to tell exactly what you're asking. See the How to Ask page for help clarifying this question. If this question can be reworded to fit the rules in the help center, please edit the question.

  • 1
    $\begingroup$ You seem to have two questions but I don't really understand them. Here is my try to rephrase your questions. 1) What standard theoretical distribution best fit the observed distribution? This is a question of statistics, not biology. 2) Is there a correlation between GC skew and protein length? This question has little to do with the rest of the post. $\endgroup$ – Remi.b May 10 '16 at 20:07
  • 1
    $\begingroup$ Which average do I have to use? They are both the same, since you're using the exact same data. It's only the presentation that's different, as you're comparing a linear plot to a log plot. $\endgroup$ – MattDMo May 10 '16 at 21:12
  • 1
    $\begingroup$ @MattDMo Not necessarily. OP might want average log weight which is not the same as log of average weight. $\endgroup$ – Memming May 10 '16 at 21:40
  • 2
    $\begingroup$ Can you elaborate your question? I am having a hard time understanding what you are exactly asking for. $\endgroup$ – Memming May 10 '16 at 21:41