INVESTIGADORES
FERNANDEZ elmer Andres
congresos y reuniones científicas
Título:
On the performance of procedures to determine genetic population structure
Autor/es:
ANDRE PEÑA MALAVERA; FERNÁNDEZ, ELMER ANDRÉS; MÓNICA G BALZARINI
Lugar:
Kobe
Reunión:
Congreso; International Biometric Conference Kobe 2012.; 2012
Institución organizadora:
International Biometric Society
Resumen:
Variability analysis to determine population genetic structure (PGS) in germplasm collections
is a crucial step in the formation of core collections for the conservation and use of genetics
resources, as well as for association studies. From the algorithmic point of view, statistical
and bioinformatics methods can be used to infer genetic structure. In this work, we used
simulated and real data to compare 6 alternative procedures to estimate genetic structure.
In different scenarios, characterized by levels of genetic divergence (Fst) and numbers of
populations (3 and 5) were compared hierarchical clustering (UPGMA and Ward), Ward
method using significant principal components according to the Tracy-Widom statistic
(PCA+Ward), K-means clustering, the relative position self organizing maps (RP-Q-SOM)
and a Bayesian method. The methods were comparing using the proportion clustering error
(PCE). The results showed that the RP-Q-SOM algorithm, the Bayesian method
implemented in the software STRUCTURE and the non hierarchical K-means clustering
method are the procedures that perform best (PCE