Variable name | Description |
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| Posterior cumulative distribution function for the values of the property Ω at position i, given the previously known group of n amino acids present in the multiple alignment at such position |
C DF (Ω1,Ω2), n | Cumulative distribution function of the absolute difference between the variances of any two properties Ω1 and Ω2 for a random combination of n amino acids |
CDF Ω, n | Cumulative distribution function for a random combination of n amino acids and a given property Ω |
H 0 | Null hypothesis in the hypothesis test for differences |
H 1 | Alternative hypothesis in the hypothesis test for differences |
i | Position number in the multiple alignment |
IDP | Invariable determinant position |
j or k | Amino acid numbering sub-index |
L | Total number of physicochemical properties considered in the MOSST analysis |
M | Number of possible pairwise combinations (subsets having two elements) of properties
|
n | Number of amino acids in a multiple alignment position (without taking gaps into account) |
N | Total number of positions in the multiple alignment |
N(μ,σ) | Normal distribution function with unknown parameters μ(mean) and σ (variance) |
n i | Number of amino acids in position i of the multiple alignment (without taking gaps into account) |
nsSNP | Non-synonymous single nucleotide polymorphism |
p' i,(Ω1,Ω2), n | = 1 - p i,(Ω1,Ω2), n Level of significance of the null hypothesis H 0 for the difference of the variances of the properties Ω1 and Ω2 at position i of a multiple alignment containing n amino acids |
p' i,(Ωr,Ωs), n | = 1 - p i,(Ωr,Ωs),n Level of significance of the null hypothesis H 0 for the difference of the variances of the properties Ωr and Ωs at position i of a multiple alignment containing n amino acids |
p' m | Value of the mth level of significance, obtained from the set of M levels of significance of the differences between variances for all the possible pairwise combinations of properties, sorted in ascending order, for a given position i of a multiple alignment |
p (Ω1,Ω2) | Probability of getting a certain value or less for the absolute difference Δσ (Ω1,Ω2) between the variances of any two properties Ω1 and Ω2 |
| Posterior probability distribution function for the values of the property Ω at position i, given the previously known group of n amino acids present in the multiple alignment at such position |
P i | Global probability of the null hypothesis being true considering all the properties together at position i , i.e. probability of all the variances being equal at position i of a multiple alignment |
p i,(Ω1,Ω2),n | Probability of getting a certain value or less for the absolute difference Δσ (Ω1,Ω2) between the variances of any two properties Ω1 and Ω2 at position i of a multiple alignment containing n amino acids |
p i,(Ωr,Ωs),n | Probability of getting a certain value or less for the absolute difference Δσ (Ωr,Ωs) between the variances of any two properties Ωr and Ωs at position i of a multiple alignment containing n amino acids |
p i,Ω,n | Cumulative probability of getting a certain value or less for the variance (σi,Ω,n) for a given property Ω in position i of a multiple alignment containing n amino acids |
PMF Ω, n | Discrete probability mass function for a random combination of n amino acids and any given property Ω |
p Ω | Cumulative probability of getting a certain value or less for the variance for a given property Ω |
Q j,i | Global probability for the occurrence of the amino acid j considering all properties together at position i in the multiple alignment, i.e. probability of the amino acid j satisfying all the physicochemical requirements at position i |
q j,i ,Ω,n+1or | Probability of the amino acid j (any of the 20 natural amino acids) to be present at position i (containing n amino acids in the multiple alignment analyzed) in a new protein not included in the multiple alignment, according to property Ω or Ω r |
r or s | Property numbering sub-index |
VDP | Variable determinant position |
VIP | Variable irrelevant position |
x | Unknown quantity or variable |
Xi,Ω,j or | Measure, value or score of the physicochemical property Ω or Ω r for the amino acid j at position i of a multiple alignment |
X Ω, j | Measure, value or score of the physicochemical property Ω for the amino acid j |
Δσ (Ω1,Ω2) | Absolute difference between the variances of any two properties Ω1 and Ω2 |
Δσ i,(Ω1,Ω2),n | Absolute difference between the variances of any two properties Ω1 and Ω2 at position i of a multiple alignment containing n amino acids |
Δσ i,(Ωr,Ωs),n | Absolute difference between the variances of any two properties Ωr and Ωs at position i of a multiple alignment containing n amino acids |
μ | Mean (of a normal distribution) |
μ i,Ω,n | Arithmetical average of the physicochemical property Ω in position i of the multiple alignment containing a number of n amino acids |
μ Ω | Arithmetical average of the physicochemical property Ω |
σ | Variance (of a normal distribution) |
σ i,Ω,n | Sample variance estimator (standard deviation) of the physicochemical property Ω in position i of the multiple alignment containing a number of n amino acids |
σ Ω | Sample variance estimator (standard deviation) of the physicochemical property Ω |
τ i,Ω,n+1 | Test statistic for the (n +1)th amino acid at position i of a multiple alignment containing n amino acids |
Ω | Generic physicochemical property |
Ω1, Ω2, Ω3 | Physicochemical properties 1, 2 and 3 |
Ωr, Ωs or Ω r , Ω s | Physicochemical properties r and s |