New Directions in Probabilistic Models of Evolution
2014-04-28..2014-05-02
Berkeley, United States
who it's for
population geneticists, mathematical biologists, phylogeneticists, computational biologists, infectious disease modelers, cancer modelers, biostatisticians
topics
multispecies coalescent methods; incomplete lineage sorting; hybridization network inference; multitype branching trees; coalescent point process models; lineage-based birth-death models; selective sweep in structured populations; power-law long-range dispersal; within-host pathogen evolution; B cell affinity maturation; evolutionary rescue in structured populations; spatial Moran models for field cancerization
| title | author | length |
|---|---|---|
| Modeling the Evolution of Genes and Genomes in the Presence of ILS and Hybridization | Luay Nakhleh | 44m |
Presents a likelihood framework that sums over coalescent histories to compute gene tree probabilities under both incomplete lineage sorting and hybridization… | ||
| Accounting for Gene Tree Estimation Error in Species Tree Reconstruction: Quantity Versus Quality | Sebastien Roch | 45m |
Species-tree recovery under the multispecies coalescent has a concrete trade-off: let F be the probability a lineage coalesces inside the short branch. Methods… | ||
| Genetic Diversity in the Interference Selection Limit | Michael Desai | 45m |
Claims that genetic diversity under pervasive purifying selection is set primarily by the population variance in fitness rather than by individual s or Ud… | ||
| The Acceleration of Evolutionary Spread by Long-Range Dispersal | Oskar Hallatschek | 49m |
A lattice contact-process model with power-law dispersal kernel (tail ~ r^{-μ-d}) and stochastic birth-death rules shows three concrete growth regimes: when… | ||
| Tracking the Invisible: A Probabilistic Approach to Field Cancerization | Rick Durrett, Marc Ryser | 42m |
A lattice spatial Moran/biased voter model with zeros, ones and twos and three asymptotic regimes predicts how invisible premalignant fields grow, produces… | ||
| Hindering Evolution in Prostate Cancer | David Basanta | 44m |
A hybrid agent-based + PDE model recreates trabecular bone homeostasis and prostate cancer bone metastases on roughly a 500×200 grid with ~20 μm cell sites… | ||
| Evolutionary Rescue in Structured Populations | Joachim Hermisson | 49m |
An island model with two genotypes (wild type and single mutant), mutation rate u and parameters r (wild-type decline) and m (migration) is analyzed using… | ||
| The Duration of a Selective Sweep in a Structured Population | Peter Pfaffelhuber | 37m |
Claim: with selection strength alpha -> infinity and migration mu ~ alpha^P (0<P<1), fixation time scales like (3 - P) (log alpha)/alpha (versus 2 (log… | ||
| Ancestral Features of Multitype Branching Trees | Lea Popovic | 40m |
Analyzes multitype Galton–Watson trees by embedding the full genealogy to produce a coalescent point process and encoding the reduced phylogeny as a… | ||
| From Individual-based Population Models to Lineage-based Models of Phylogenetic Trees | Amaury Lambert | 42m |
Lineage-based birth–death models map to coalescent point process trees when speciation and extinction depend only on time, age or nonheritable traits, giving… | ||
| Modeling the Evolution of Within-host Reproductive Rates in Pathogens | Jonathan Dushoff | 46m |
Field data show canine rabies R0 clustered near one across very different Tanzanian districts despite ~5× differences in dog density and contact tracing that… | ||
| Probabilistic Models for Pathogen Evolution Within and Between Hosts | Shishi Luo | 43m |
Within-host ODE viral dynamics plus a Poisson mutation model shows the probability of antigenic immune escape first rises then falls with increasing host… | ||
| Mutation and Site-specific Selection Driving B Cell Affinity Maturation is Consistent Across... | Erick Matsen | 43m |
Deep Illumina sequencing of the CDR3 region (5 million reads per person, 130 nt) is used to fit separate nucleotide substitution matrices for V, D and J… | ||
| Tools for Understanding the Geography of Adaptation | Peter Ralph | 48m |
Models connect mutation arrival and spread to concrete spatial scales using Poisson cones for space time of successful mutations and subcritical branching… | ||
| Quantitative Trait Evolution when Mutations have Large Effects | Josh Schraiber | 44m |
Develops a coalescent model for quantitative traits with loci drawing mutational effects from arbitrary kernels, computes joint distributions via… | ||
| Mathematical Problems in the Evolution of Senescence | David Steinsaltz | 49m |
Develops two concrete models with proofs and computations: a measure-valued model of mutation accumulation that allows age-spread effects, concave (negative)… | ||
| Mutation Accumulation and Empirical Calibration | Kenneth Wachter | 48m |
A mutation‑accumulation model calibrated to hunter‑gatherer life tables and exome sequencing argues that the relevant class is mildly deleterious… | ||
| Fitness Landscapes and Adaptive Evolution | Joachim Krug | 50m |
Study of accessible mutational pathways uses ~20 empirical 5–9 locus datasets, Fourier spectra, and random-field models (House-of-Cards, NK, Rough Mount Fuji)… | ||
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