Limits...
Inferring population structure and relationship using minimal independent evolutionary markers in Y-chromosome: a hybrid approach of recursive feature selection for hierarchical clustering.

Srivastava AK, Chopra R, Ali S, Aggarwal S, Vig L, Bamezai RN - Nucleic Acids Res. (2014)

Bottom Line: An analysis of 105 world-wide populations reflected that 15 independent variations/markers were optimal in defining population structure parameters, such as FST, molecular variance and correlation-based relationship.A subsequent addition of randomly selected markers had a negligible effect (close to zero, i.e. 1 × 10(-3)) on these parameters.The study proves efficient in tracing complex population structures and deriving relationships among world-wide populations in a cost-effective and expedient manner.

View Article: PubMed Central - PubMed

Affiliation: National Centre of Applied Human Genetics, School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India.

Show MeSH

Related in: MedlinePlus

Hierarchical phylogeny of Y-chromosomal haplogroups (up to sub-haplogroup level), depicting positioning of 15 highly informative independent markers (marked in red), sufficient to infer population structure and relationship in a precise and efficient manner. All the 15 markers could be used in a single plex under similar conditions as depicted in ‘Materials and Methods’ section, without super-plexing with more markers.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4150763&req=5

Figure 8: Hierarchical phylogeny of Y-chromosomal haplogroups (up to sub-haplogroup level), depicting positioning of 15 highly informative independent markers (marked in red), sufficient to infer population structure and relationship in a precise and efficient manner. All the 15 markers could be used in a single plex under similar conditions as depicted in ‘Materials and Methods’ section, without super-plexing with more markers.

Mentions: In conclusion, results based on various computational simulations, PCA, calculation of population differentiation (FST) and analysis of molecular variance (AMOVA), reflected that resolution of populations’ structure and their relationship with other global populations based on 15 highly informative independent variables (markers), represented in the phylogenetic map of Y-chromosomal haplogroups (Figure 8), were optimal, and the set of markers <15 affected the results substantially.


Inferring population structure and relationship using minimal independent evolutionary markers in Y-chromosome: a hybrid approach of recursive feature selection for hierarchical clustering.

Srivastava AK, Chopra R, Ali S, Aggarwal S, Vig L, Bamezai RN - Nucleic Acids Res. (2014)

Hierarchical phylogeny of Y-chromosomal haplogroups (up to sub-haplogroup level), depicting positioning of 15 highly informative independent markers (marked in red), sufficient to infer population structure and relationship in a precise and efficient manner. All the 15 markers could be used in a single plex under similar conditions as depicted in ‘Materials and Methods’ section, without super-plexing with more markers.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4150763&req=5

Figure 8: Hierarchical phylogeny of Y-chromosomal haplogroups (up to sub-haplogroup level), depicting positioning of 15 highly informative independent markers (marked in red), sufficient to infer population structure and relationship in a precise and efficient manner. All the 15 markers could be used in a single plex under similar conditions as depicted in ‘Materials and Methods’ section, without super-plexing with more markers.
Mentions: In conclusion, results based on various computational simulations, PCA, calculation of population differentiation (FST) and analysis of molecular variance (AMOVA), reflected that resolution of populations’ structure and their relationship with other global populations based on 15 highly informative independent variables (markers), represented in the phylogenetic map of Y-chromosomal haplogroups (Figure 8), were optimal, and the set of markers <15 affected the results substantially.

Bottom Line: An analysis of 105 world-wide populations reflected that 15 independent variations/markers were optimal in defining population structure parameters, such as FST, molecular variance and correlation-based relationship.A subsequent addition of randomly selected markers had a negligible effect (close to zero, i.e. 1 × 10(-3)) on these parameters.The study proves efficient in tracing complex population structures and deriving relationships among world-wide populations in a cost-effective and expedient manner.

View Article: PubMed Central - PubMed

Affiliation: National Centre of Applied Human Genetics, School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India.

Show MeSH
Related in: MedlinePlus