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Printable Handouts
Navigable Slide Index
- Introduction
- The coalescent?
- Unraveling the mystery: coalescence theory
- Data and models
- Population model
- Population model: probability of having an ancestor
- Time to coalescence of two lineages
- Sample of two individuals
- Time of coalescence of two lineages: probability distribution
- Observations: coalescence of two lineages
- Sample larger than two
- Coalescence theory
- Timescale
- Probability calculation on genealogy (1)
- Probability calculation on genealogy: coalescent rate
- Probability calculation on genealogy (2)
- Expected time of coalescence: large number of samples
- What is it good for?
- Variability of the coalescent process
- Distribution of the time to the most recent common ancestor
- Kingman’s n-coalescent is an approximation
- Genealogy and data
- Infer population size from data
- Mutation-scaled population size (1)
- Mutation-scaled population size (2)
- Estimating population size using Bayesian inference
- Example: inference of population size
- Historical humpback whale population size
- Summary and outlook
- Thank you for listening
Topics Covered
- Coalescent theory
- Wright-Fisher population model
- The probability of having an ancestor in the population model
- Coalescence of two lineages
- Probability calculation on genealogy
- Coalescence of a large number of samples
- Variability of the coalescent process
- Infer population size from data
- Mutation-scaled population size
- Estimating population size using Bayesian inference
Talk Citation
Beerli, P. (2022, June 30). The coalescent [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved October 8, 2024, from https://doi.org/10.69645/QLLM4778.Export Citation (RIS)
Publication History
Financial Disclosures
- Prof. Peter Beerli has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.
Other Talks in the Series: Introduction to Evolutionary Biology
Transcript
Please wait while the transcript is being prepared...
0:00
Hi. I'm Peter Beerli.
I'm faculty in the Department
of Scientific Computing at
the Florida State University,
and I will talk to you
about the coalescent.
0:13
You might wonder, "The
coalescent, what?"
If you look at the dictionary,
then we think about
maybe streams that coalesce in
the bigger streams
or puddles that
coalesce in a bigger
puddle and I don't think
that gives a lot of
information about what
I want to talk to you.
0:31
To talk a little bit
about coalescence theory,
I have to do a tour
about how we think about
biological processes,
how we think about modelling
these biological
processes and we
use essentially a whole
field in biology,
population genetics to
talk about that, and then,
I will try to highlight
coalescence theory,
which is part of
population genetics
and in about 1982
(the early '90s),
it revolutionized population
genetics and is now used
for a lot of explanations
about biology.
To do that, I will talk
about three things.
I would talk about
data and models.
I will talk about
population genetics,
but in particular,
I will introduce
how we will model
populations using
particular achievement of
Sewall Wright and
Sir Ronald Fisher.
Then I will talk about
the coalescent in detail,
and will give at the end an
example of how we could use
coalescence theory to actually
make everyday inferences.