Wednesday, March 09, 2011

Matches at 23andMe.com and at FTDNA.com

My matches at 23andMe:
Relative Finder: 753
New in the last 7 days (19)
New in the last 30 days (78)
Sharing Genomes (198)
Public Matches (59)
Contact Sent (478)
Inbound Contact (0)
Contact Accepted (179)
Contact Declined (28)
Matches to Contact (25)
Introduction Canceled (0)

FTDNA:
Family Finder:
Affymetrix: 122
Illumina: 56

At 23andMe I have a known 1st cousin, a predicted 2nd cousin who has not responded to emails, and then several confirmed 3rd cousins, 6th cousins and 10th cousins.

At FTDNA I have no higher than predicted 3rd cousin matches and the highest confirmed match is with a 4th cousin.

Monday, February 21, 2011

Genetic Diversity among the Founders of Newfoundland

Mitogenomic and microsatellite variation in descendants of the founder population of Newfoundland: high genetic diversity in an historically isolated population.
Pope et al. (2011)

Abstract:
The island of Newfoundland, the first of England's overseas colonies, was settled from the 17th century onward by restricted numbers of English, Irish, and French immigrants, in small ``outport'' communities that have maintained geographic, religious, and linguistic isolation to the latest generations.
To measure the extent of modification and loss of genetic variation through founder effect, drift, and inbreeding in this historically isolated population, we analyzed the complete mitochondrial DNA (mtDNA) genomes and 14 microsatellite loci from each of 27 individuals with matrilineal ancestries extending to the colonial period. Every individual has a unique mtDNA genome sequence. All but one of these genomes are assignable to one of five major (H,J,K,T, and U) or minor (I) European haplogroups. The possibility of homoplasy at single nucleotide polymorphism (SNP) sites that define subtypes within the H haplogroup is discussed. Observed haplogroup proportions do not differ significantly from those of western Europeans or between English and Irish Newfoundlanders. The exceptional individual is a member of haplogroup A2, who appears to be the descendant of a Mi'kmaq First Nations mother and a French father, a common marriage pattern in the early settlement of Newfoundland.
Microsatellite diversity is high (HE = 0.763), unstructured with respect to mtDNA haplotype or ethnicity, and there is no evidence of linkage disequilibrium. There is a small but significant degree of inbreeding (FIS = 0.0174). Collection of whole mtDNA genome data was facilitated by the use of microarray sequencing, and we describe a simple algorithm that is 99.67% efficient for sequence recovery.

http://www.mun.ca/biology/scarr/Pope,_Carr,_Smith,_&_Marshall_2011_Genome_54,110.pdf

Saturday, January 29, 2011

My new 23andMe matches since version 3 results have started coming in

Late Tuesday I had 594 matches in Relative Finder at 23andMe. On Wednesday I had 624, and on Thursday I had 655. Friday I added 2 more and 2 more again today, Saturday, 29 January, for a total of 659. Only one match has been at the 3rd cousin level. The rest have been in the 4th to 5th cousin range with a few "Distant Cousins" thrown in. One person had 5 links to me and one person had a single 50cm link. So far 3 people have accepted contact and shared genomes.

I'll post periodic updates as more matches come in.

Tuesday, January 25, 2011

Comparison of Verison 3 results to Version 2 at 23andme

CeCe Moore has reported on her quick comparison of her version 3 results to her version 2 results from 23andMe. According to an analysis by Jim McMillan there are approximately 30K SNPs that were in version 2 that are not in version 3.

Here is the link:Update on 23andMe's v3 results: Relative Finder comparison and ~30,000 v2 locations missing from v3

Saturday, January 22, 2011

Combining document genealogy with genetic genealogy: "The man who wasn't John CharlesBrown "

One of the goals of this site is to show how to use genetic genealogy to assist with document genealogy. Randy Majors has a recent post that does just that. Read it on his website: The man who wasn't John Charles Brown

Wednesday, January 19, 2011

We may have more in common with friends than we think we do:

Correlated genotypes in friendship networks

Full text: http://www.pnas.org/content/early/2011/01/07/1011687108.full.pdf+html

    James H. Fowlera,b,1,
    Jaime E. Settleb, and
    Nicholas A. Christakisc,d

+ Author Affiliations

    aDivision of Medical Genetics,
    bDepartment of Political Science, University of 
California at San Diego, La Jolla, CA 92093;
    cDepartment of Medicine and Department of Health 
Care Policy, Harvard Medical School, Boston, MA 02115; 
and
    dDepartment of Sociology, Faculty of Arts and 
Sciences, Harvard University, Cambridge, MA 02138

    Edited by Gene E. Robinson, University of Illinois, 
Urbana, IL, and approved December 15, 2010 
(received for review August 6, 2010)

Abstract
It is well known that humans tend to associate with other humans who have similar characteristics, but it is unclear whether this tendency has consequences for the distribution of genotypes in a population. Although geneticists have shown that populations tend to stratify genetically, this process results from geographic sorting or assortative mating, and it is unknown whether genotypes may be correlated as a consequence of nonreproductive associations or other processes. Here, we study six available genotypes from the National Longitudinal Study of Adolescent Health to test for genetic similarity between friends. Maps of the friendship networks show clustering of genotypes and, after we apply strict controls for population stratification, the results show that one genotype is positively correlated (homophily) and one genotype is negatively correlated (heterophily). A replication study in an independent sample from the Framingham Heart Study verifies that DRD2 exhibits significant homophily and that CYP2A6 exhibits significant heterophily. These unique results show that homophily and heterophily obtain on a genetic (indeed, an allelic) level, which has implications for the study of population genetics and social behavior. In particular, the results suggest that association tests should include friends’ genes and that theories of evolution should take into account the fact that humans might, in some sense, be metagenomic with respect to the humans around them.

Footnotes:

    1To whom correspondence should be addressed. E-mail: 
jhfowler@ucsd.edu.
    Author contributions: J.H.F., J.E.S., and N.A.C. 
designed research, performed research, analyzed data, 
and wrote the paper.
    The authors declare no conflict of interest.
    This article is a PNAS Direct Submission.
    This article contains supporting information online at 
www.pnas.org/lookup/suppl/doi:10.1073/pnas.1011687108/
-/DCSupplemental.

Freely available online through the PNAS open access option.

See this comment at Genetic Future by Daniel McArthur: http://www.wired.com/wiredscience/2011/01/on-sharing-genes-with-friends/

Tuesday, December 28, 2010

2nd cousin at 23andMe

I have done the autosomal testing at 23andMe. They report results and give you notice of matches in Relative Finder. Apart from my 1st cousin, the closest match I have is with a predicted 2nd Cousin. We have 14 matching segments. The usual definition of a 2nd cousin is some one who shares a Great grandparent with you.

My Great Grandparents are the following couples:
Jesse Perkins and Elizabeth Jane Creekmore;
Andrew J. Walker and Rutha Manning;
Peter Coleman Ball and Frances Jane Strunk;
Thomas J. Swain and Mary E. Kidd.

All are from the Wayne, Whitley and McCreary county area of Kentucky.

If you descend from any of them please contact me with you pedigree. Especially if you have tested at 23andMe, ;^)

Tuesday, December 14, 2010

Genetic Genealogy testing: Sorenson Molecular Genealogy Foundation

We often focus on the commercial DNA testing companies and forget about the non-profit Sorenson Molecular Genealogy Foundation, http://smgf.org/ They were the first organization to use DNA testing for genealogy. They began with testing of blood and then moved on to testing with a mouth-wash method. One of their goals was to build a collection 100,000 samples. This was reached a few years ago. These samples have been tested for Y chromosome DNA, mitochondrial mtDNA, and autosomal DNA from Chromosomes 1 through 22 and the X chromosome. At this time the Y DNA and mtDNA results are available for searching by entering your results or by using a surname to search the genealogical charts the participants sent with their samples. The autosomal database has not yet been released for searching.

Did I mention the test is free of charge?

One drawback to the testing is that there is no guarantee that your results will make it into the public databases where you can retrieve them at no charge. However, you can get your results from GeneTree, http://www.genetree.com for a nominal charge.

At this time SMGF is accepting samples from the following populations:

Other Areas of Interest
Reaching the 100,000 participants milestone was just one of the objectives of our project. We are still working to enhance our dataset by actively seeking participants for our database with ancestry from a number of countries and lineages (listed below). If you have genealogical information linking you to one of these areas or have connections that could facilitate collections in these areas please contact SMGF at info@smgf.org.
  • Ireland
  • Japan
  • Sweden
  • France
  • Germany
  • Belgium
  • All Eastern European countries
  • Lebanon
  • Syria
  • Jordan
  • Egypt
  • North Africa
  • Switzerland
  • Denmark
  • Spain
  • Portugal

Wednesday, December 01, 2010

Family Tree DNA's annual end-of-year promotion

From Family Tree DNA:

It's time once again for Family Tree DNA's annual end-of-year promotion.

Starting tonight, and until December 31st, we will 
reduce the price of our YDNA37, YDNA67, mtDNAPlus, and 
Family Finder tests.

Price for NEW KITS:  Regular Price  Promotional Price
         YDNA37  $149          $119
         YDNA67  $239          $199
      mtDNAPlus  $159          $129
  Family Finder  $289          $249

Price for UPGRADE:      
  Family Finder  $289          $229

Orders must be in and paid for by Dec. 31, 2010, to receive this offer.

IMPORTANT: since this promotion will run through the month of December, we encourage you to spread the word starting now, as the natural tendency is for people to order at the last minute, and we will not extend it beyond 12/31/2010.

© All Contents Copyright 2001-2010 Genealogy by Genetics, Ltd.

Tuesday, November 30, 2010

PHYLO: A Human Computing Framework for Comparative Genomics

Thanks to Ann Turner for the reference to CNET: CRAVE coverage of PHYLO: A Human Computing Framework for Comparative Genomics.

Play a computer game to align genomic sequences. A crowd sourced science program from McGill University and the University of California at Santa Cruz. The results are stored in the Genome Browser at UCSC.