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Interrelations of Y-SNPs in East Asians; for reference
Topic Started: Apr 25 2007, 09:27:36 AM (1,001 Views)
black man
The Right Hand
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Descriptions of and comments on the results of some studies:

Update (July 2011):
Wei Wei et al. 2011: "Exploring of new Y-chromosome SNP loci using Pyrosequencing and the SNaPshot methods":
^ In this case I'll assume that Karafet et al. (2008) as well as the others were right about that these are all SNPs.

ht1: O3-M122, M134, P197, P200; 29/220=13,2% => not surprising, I guess, since the samples are all "Han Chinese"
ht2: O1-P203, rs11096433; 25=11,4%
ht3: O2a-M95; 17=7,7%
ht4: NO*-P193; 17=7,7%
ht5: O3-KL2, M122, P197, P200, rs17276345; 17=7,7% => possibly most interesting news
ht6: O3-M122, P197, P200; 15=6,8%
ht7: Y(xF) (=C?); 15=6,8%
ht8: D-M15, M145, P153; 9=4,1%
ht9: O3-KL2, M122, P197, P200; 7=3,2%
ht10: O2a-M88, M95; 5=2,3%
ht11: O3-M122, M134, P197, P200 mutation lacking; 4=1,8% => these are the first four cases which at least seem to be ambiguous and might be suspected of contamination. So I'll stop at this point.




based on the data of Huang et al. 2006 in "Genetic polymorphism of 23 Y chromosome biallelic markers in Wuhan Han population":

hts 1, 13: M9, M89, M117, M122, M134, M175, M214, 021354, 25 men. Hg: O3
hts 2, 5: M9, M89, M119, M175, M214, 25 men. Hg: O1
hts 3, 9: M9, M89, M122, M134, M175, M214, 021354, 21 men. Hg: O3
hts 4, 6: M9, M89, M122, M175, M214, LY1, 21 men. Hg: O3
hts 7, 8: M9, M89, M122, M175, M214, 14 men. Hg: O3
hts 10, 12: M130, 12 men. Hg: C
hts 11, 16: M9, M89, M95, M175, M214, 8 men. Hg: O2a
hts 14, 19: M9, M89, M214, 6 men. Hg: NO
hts 15, 20: M9, M89, M175, M214, 5 men. Hg: O
hts 17, 21: M9, M89, M122, M175, M214, 021354, 5 men. Hg: O3
hts 18, 33: M7, M9, M89, M122, M175, M214, 021354, 4 men. Hg: O3
ht 22: M89, 2 men. Hg: F
ht 23: M9, M89, M175, M214, SRY465, 1 man. Hg: O2b
hts 24, 29: M7, M9, M89, M122, M175, M214, LY1, 021354, 2 men. Hg: O3
hts 25, 32: M9, M89, M121, M122, M175, M214, 2 men. Hg: O3
hts 26, 30: M9, M89, M95, M111, M175, M214, 2 men. Hg: O2a
hts 27, 28: M9, M89, 2 men. Hg: K
ht 31: ?, 1 man. Hg: ? (probably D)
hts 34, 35: M9, M89, M122, M175, M214, LY1, 021354, 2 men. Hg: O3

(The marker 003305 seems to be significant for hg F.)




Based on the data of Inagaki et al. 2002 in "Typing of Y chromosome single nucleotide polymorphisms in a Japanese population by a multiplexed single nucleotide primer extension reaction":

ht1: M9, SRY465, 48 men. Hg: O2b
ht2: 006841, 055457, 008425, 021355, M125, 29 men. Hg: D2
ht3: M9, 021354, M122, 23 men. Hg: O3
ht4: 008425, 021355, 14 men. Hg: ? (likely to be D)
ht5: M9, 002611, M122, 12 men. Hg: O3
ht6: M130, 10 men. Hg: C
ht7: M9, 8 men. Hg: K
ht 8: M130, M105, 7 men. Hg: C1
ht 9: 008425, 021355, M125, M130, 2 men. Hg: C or D2 (samples contaminated?)
ht 10: M9, 008425, 021355, 2 men. Hg: ? (samples contaminated?)
ht 11: M9, M128, 2 men. Hg: N1
ht 12: M9, SRY465, 055457, 008425, 021355, M125, 1 man. Hg: O2b or D2 (sample contaminated?)
ht 13: M9, 002611, 1 man. Hg: K or O3 (sample contaminated?)

(The marker 003305 seems to be significant for hg F.)
Edited by black man, Jul 28 2011, 12:40:34 AM.
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owen
Newbie
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L466-rs11096433,seems equal to M119

rs17276345 is downstream of 002611,I am 002611+,Page69+,rs17276393+,rs17276345+;
someone is 002611+,Page69-,rs17276393-,rs17276345-
these 3 downstream snps maybe equal or have upstream and downstream relationship.

ht9: O3-KL2, M122, P197, P200; 7=3,2%
maybe include 002611- and 002611+,Page69- samples

according to 1000 genomes sample,I guess under 002611,Page69-:Page69+ is 1:3,according to Yan 2011,002611 is about 16.9%,then Page69- is about 4.2%,Page69+ is about 12.7%

Is Wei Wei et al. 2011 test M324?
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black man
The Right Hand
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owen
Jan 1 2012, 05:33:59 PM
L466-rs11096433,seems equal to M119

rs17276345 is downstream of 002611,I am 002611+,Page69+,rs17276393+,rs17276345+;
someone is 002611+,Page69-,rs17276393-,rs17276345-
these 3 downstream snps maybe equal or have upstream and downstream relationship.

ht9: O3-KL2, M122, P197, P200; 7=3,2%
maybe include 002611- and 002611+,Page69- samples

according to 1000 genomes sample,I guess under 002611,Page69-:Page69+ is 1:3,according to Yan 2011,002611 is about 16.9%,then Page69- is about 4.2%,Page69+ is about 12.7%

Is Wei Wei et al. 2011 test M324?
M324 is rs13447361 according to Karafet 2008. Does not occur in Wei Wei 2011.
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