Haplogroups

Ancestry

Haplogroups mark the migration from common ancestors to distinct regional populations.

Dominant Y-chromosome haplogroups in pre-colonial world populations, with possible migrations routes according to the Coastal Migration Model.

Human Y-chromosome DNA haplogroups or Y-DNA haplogroups[edit]

Haplogroup Y (Y-DNA) is the root of the Y Chromosome Haplogroup Tree.

This blog summary of the human genographic project from national geographic is well written.

The paper [PMID 18385274 ] is currently the best reference for the Y chromosome. The supplemental material is available at [1] and is sufficient for determining a reasonable collection of snps for the criteria of a genoset which recognizes a haplogroup. [2] provides a nice poster although it lacks the mapping to rs#.

The Y-chromosome has a lower SNP mutation rate than mtDNA.

There was a recomendation from the Y-chromosome consortium, YCC, to change to a short hand. That is to write R-P312 rather than R1b1b2a1a2.

ISOGG Tree version is 2010 http://www.isogg.org/tree/index.html

ISOGG List of SNP markers for Haplogroups http://isogg.org/tree/ISOGG_YDNA_SNP_Index.html

YCC table of markers with ancestral/descendant changes (but old and incomplete) http://ycc.biosci.arizona.edu/nomenclature_system/data.html

current version of the YCC tree. http://www.familytreedna.com/snps-r-us.aspx

The STR predictions are handled by Whit Athey's tool. http://www.hprg.com/hapest5/

ySearch ID pages are the easy way to read in STR data. For example: http://www.ysearch.org/haplosearch_view.asp?viewuid=FB88E

This GoPubMed search for Haplogroups might be of some use

	On microarray	In gene	Chromosome position
i1000004	23andMe v4 23andMe v3 23andMe v1 23andMe v2		8,869
i1000015	23andMe v4 23andMe v5 23andMe v3 23andMe v1 23andMe v2		6,776
i3000007	23andMe v4 23andMe v5 23andMe v3 23andMe v1 23andMe v2		21,765,763
i3000014	23andMe v4 23andMe v5 23andMe v3 23andMe v1 23andMe v2	TXLNGY	21,764,501
i3000021	23andMe v4 23andMe v3 23andMe v1		21,705,977
i3000029	23andMe v4 23andMe v5 23andMe v3 23andMe v2		21,706,360
i3000033	23andMe v4 23andMe v5 23andMe v3 23andMe v1 23andMe v2	KDM5D JARID1D	21,867,854
i3000037	23andMe v4 23andMe v3 23andMe v1 23andMe v2	KDM5D	21,888,865
... further results

Human mitochondrial DNA haplogroups or mtDNA haplogroups[edit]