Questions tagged [population-genetics]

Questions related to the study of the distributions and changes of allele frequency in a population.

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About lack of selective pressure

In [1] it is stated that: the frequency of comutations in FGFR3 and KRAS or PIK3CA and KRAS was lower than predicted by chance, suggesting ... a lack of selective pressure for both mutations to ...
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29 views

What does the MAF/MinorAlleleCount mean?

I'm not sure why reporting the second most frequent allele is helpful? what is the Major allele?
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2answers
52 views

Equation relating probability of fixation and number of generations

I am trying to find an equation that relates the variables of probability of fixation and generations. Or, how does number of generations affect the probability a gene will fix, if population size ...
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55 views

What is the population limit that makes consanguinity an issue?

A recent incident brought in the news one of the last uncontacted people - the Sentinelese: the Sentinelese appear to have consistently refused any interaction with the outside world. ...
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149 views

Question on the concept of mitochondrial Eve [closed]

My question is about the very definition of this common ancestor. Why shouldn't be the mother of mitocondrial Eve the real Eva m (and so on to grand grand ...mother)? All I know on the subject comes ...
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246 views

Are Richard Lynn's estimates of African IQ inherently innacurate on the basis that most Africans aren't mentally retarded?

I've been looking at Richard Lynn's studies on average African IQ, and he seems to estimate really low IQs in the 60s range (e.g. http://www.sciencedirect.com/science/article/pii/S0160289609001275?via%...
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30 views

For allele frequency determination, is it good to take samples from a college/school or a hospital or any other technique?

I am trying to determine allele frequency of a hla allele. Preliminary analysis shows the prevalence of the allele (homo or heterozygous both) is 3%. The allele is related to a disease (After exposure ...
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21 views

Pentaploid genotype frequencies

I know that if I am dealing with a diploid case, and I have 3 alleles, then I can have 6 possible genotypes. I am doing this by adding up all the numbers from 1 to 3. $$1+2+3 = 6$$ But if I want to ...
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46 views

Why does the HLA show a high degree of polymorphism?

I know how the HLA undergoes high degree of polymorphism (random genetic rearrangements), but I have not understood why it undergoes rearrangements. What is the advantage offered when HLA shows a high ...
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54 views

How much generation of hamster's family it takes to get first bad mutations [closed]

So if I have two humsters and they start to reproduce themselfs then how much generations of hamster's family it takes to get first bad mutations? The info here does not help to find answer https://...
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28 views

Looking for book or article that derives formula for estimating the “average heterozygosity”

An online lecture I need to watch on population genetics describes a formula for the "average heterozygosity" as follows: ...we can theoretically predict that the average heterozygosity in the ...
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302 views

Island model vs. stepping stone model

Wright's Island model and Kimura's stepping stone model are classic explanations for migration/gene flow o individuals between subpopulations within the field of population genetics. My question ...
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30 views

Low migration rate in Papadopoulou et al. (2008)

In the paper "Speciation and DNA barcodes: testing the effects of dispersal on the formation of discrete sequence clusters" by Papadopoulou et al. (2008), is there an explanation as to why the authors ...
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63 views

How EGDS (endurance genetic distance score) is calculated?

Can anybody please make me understand how EGDS5 has been calculated to 40.8 in this paper at page#31? The formula has been described in this paper but when i tried the same, I am not getting the same ...
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62 views

“Heterozygotic expection” - when heterozygote differs from both homozygotes, but homozygotes are similar

For simple 2-alleles genetic model {a,A} and corresponding quantitative trait Q is typically true that Q(aa)>=Q(aA)>=Q(AA) or conversely Q(AA)>=Q(aA)>=Q(aA). For example, dominance means that Q(...
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51 views

Is it trivial to assume a version of Hamilton's rule that applies for numerous generations?

Is it trivial to assume that a version of Hamilton's rule that applies to numerous generations is: C > rB C = lineage fitness lost by an actor, B = lineage fitness gained from the act, and r = ...
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23 views

Finding specific genotype occurrences given allele frequency

So let's say I have a tetraploid species and I have 4 possible alleles for a particular locus. I have found that I can have 35 total possible genotypes and I know the allele frequencies for each of ...
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44 views

Gene frequency — database/site

Is there any free database when one can check the gene frequency in a healthy population? For example I would like to check it for genes like BIN1, CLU or CR1. On the English Wikipedia I found a gene ...
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32 views

Simple interpretation of effective population size?

I'm looking for alternate ways to explain effective populations size, in more conceptual terms. These need not be perfectly accurate "definitions" but should at least be generally accurate in non-edge ...
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1answer
39 views

Chart of intra-species genetic diversity across species / phyla?

I am looking for information on how genetic diversity within a species (not between species) differs between taxa. In other words: Is the "spread" in the genetic pool, if measured, for instance, in ...
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1answer
122 views

Variation of fixation probability over time in Wright-Fisher model

In Wright-Fisher model of population size N and initial mutation frequency of 1/N, how does the fixation probability vary over generations. So, mathematically, what is the function that maps the ...
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1answer
76 views

What is the probability that there are no substitution between an ancestor and a modern individual?

What is the probability that there are no differences if you compare the DNA of the ancient sample to a single DNA sequence from a modern individual? Assuming the individual was diploid and lived T ...
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485 views

Does the term “fitness advantage” or “fitness disadvantage” make sense?

Same for the terms "selective advantage" and "selective disadvantage" which I intend to use synonymously. There are usages of each on Google Scholar, but do evolutionary biologists understand what is ...
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47 views

Background (null) distribution for higher observed frequency of an allele [closed]

I am testing the hypothesis that being heterozygote at a certain gene locus, say X, increases the chances of having the good allele of X compared to being homozygote. I have data of more than 6000 ...
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346 views

Does covariance and phenotypic variance have to be for the same trait to calculate narrow-sense heritability?

I'm working on a problem where I'm given that the phenotypic variance of the parent, $p$, for trait $A$ is $175.2$ and the phenotypic variance of the offspring, $o$, for trait $A$ is $146.1$. However, ...
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1k views

Probability of number of boys and girls being born on a single day [closed]

I am new to genetics, I have the following question at hand : If four babies are born on a single day, what are the chances that $A>$ Number of boys and girls will be equal. $B>$ ...
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49 views

Reconstituting genomes of archaic tribes of humans

Will it be logically possible for genome studies to reconstitute the genomes of our local human populations as they were 2000 and 4000 years ago? What is the mathematical precision and science for ...
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86 views

How are the dominance and additive effects reflected in the mean and variance of the offsprings of two individuals with known phenotype?

If I estimated the genetic additive σ2A, genetic dominance σ2D and environmental effect σ2E of a trait in a population, what will be the predicted value of the offsprings of two individuals with known ...
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854 views

Is there a difference between macroevolution and group selection?

I encountered two different attitudes towards macroevolution: The first one included long-term microevolution such as the evolution of Cetacea. The second one included only macroevolution in terms of ...
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34 views

What are the consequences of less DARC expression as a result of a Duffy weak allele?

According to codegen.eu I'm a carrier of a Duffy weak allele. For SNP rs34599082 I have alleles C and T. T is a rare allele that found is less thatn ~1% of the population. Codegen.eu directs me to ...
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12 views

Finding genotype/allele frequencies of second generation in Hardy-Weinberg equilibrium given that the recessive allele is deleterious [duplicate]

A population in Hardy-Weinberg equilibrium has p=0.6 and q=0.4, and allele q (recessive) is deleterious. If 25% of heterozygous individuals and 50% of homozygous recessive individuals die before ...
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18 views

How can I calculate Fst, Gst, and Nei diversity index?

I got different polymorphisms of Cucumber mosaic virus in different regions of its genome from different libraries of RNAseq. This virus have two coding regions which are 3A and CP regions. I have ...
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2answers
43 views

What's the difference between reaction norms and phenotypic plasticity?

I'm trying to understand better these two concepts, but I cannot see a clear difference yet. Reaction norm: "set of phenotypes that can be produced by an individual genotype when exposed to different ...
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19 views

Population structure from mtDNA sequence data: A thought experiment

I have 5'-COI sequences for a species of interest, which were downloaded from the Barcode of Life Data (BOLD) systems. Assuming for the moment that the said species was sampled across its entire ...
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26 views

Selection coefficient of gorillas

I've been reading about selective sweeps. And I found a case study that talks about drosophila and how their selection coefficient is between 0.0001 and 0.005. I want to know what it'll be like for ...
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30 views

What metric(s) is a good proxy for relatedness?

In attempting to seed a simulation, where an individual foregoes resources that go r to same-type individuals and (1-r) to all members (including same-type individuals). What commonly used metrics ...
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1answer
133 views

What is a “segregating gene”?

What does the term "segregating" mean in references like the following: "found 42% of a random sample of loci to be segregating" "15 blood group systems are known to be segregating"
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1answer
71 views

Why aren't there more Ash-Red pigeons?

My favorite color pigeon is Ash-Red, but I don't see a lot of them. I figured it must be a recessive phenotype, but when I googled it, I found out it's dominant. So why aren't there more Ash-Red ...
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92 views

Hybridization of an Indo-Aryan ethnic group and a Tibeto-Burmese ethnic group

The state in which I reside houses these two distinct ethnic groups. Physical Traits of the Indo-Aryan group Height:Medium Eyes:does not posses epicanthic fold Nasal bones:is not flat and broad ...
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1answer
41 views

Background selection and hitchhiking effect

As I read the maintenance or removal of an allele from a population is dependent upon the alleles in its linkage group; so, when an advantageous mutation occurs in the population, variation in nearby ...
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1answer
76 views

How big advantage had a trait have to bring to evolve in the human evolution? [closed]

Yes, I've heard that we have evolved from the common ancestor with primates as intesively, as the chimpanzees. Sometimes I read about some enormously complex traits, evolutionary psychologists think ...
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1answer
587 views

Why was the study of “Concordance of Monozygotic and Dizygotic twins for traits” designed in this way? [closed]

I am confused by the twin study 'Concordance of Monozygotic and Dizygotic twins for traits.' My questions arose from 3:17-4:17 of the video And this is the related data I have referred I have ...
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1answer
27 views

difference between population genetics and genomics

I don't have a biological question therefore, this might be be quite basic. But I want to know does genomics entail population genetics or these are completely different fields?
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142 views

Why the SNPs from the earliest human haplogroups are missing in people outside of Africa if they are infact the descendants of it?

The SNPs M91, P97, M31, P82, M23, M114, P262, M32, M59, P289, P291, P102, M13, M171, M118 from haplogroup A and SNPs M60, M181, P90 from haplogroup B are missing in people without recent African ...
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2answers
1k views

What is difference between Incest and Inbreeding? [closed]

Are they the same? As both are related to sexual activity between close relatives.