NDLI: Weighting Affected Sib Pairs by Marker Informativity

Content Provider	PubMed Central
Author	Franke, Daniel Ziegler, Andreas
Copyright Year	2005
Abstract	For the analysis of affected sib pairs (ASPs), a variety of test statistics is applied in genomewide scans with microsatellite markers. Even in multipoint analyses, these statistics might not fully exploit the power of a given sample, because they do not account for incomplete informativity of an ASP. For meta-analyses of linkage and association studies, it has been shown recently that weighting by informativity increases statistical power. With this idea in mind, the first aim of this article was to introduce a new class of tests for ASPs that are based on the mean test. To take into account how much informativity an ASP contributes, we weighted families inversely proportional to their marker informativity. The weighting scheme is obtained by use of the de Finetti representation of the distribution of identity-by-descent values. We derive the limiting distribution of the weighted mean test and demonstrate the validity of the proposed test. We show that it can be much more powerful than the classical mean test in the case of low marker informativity. In the second part of the article, we propose a Monte Carlo simulation approach for evaluating significance among ASPs. We demonstrate the validity of the simulation approach for both the classical and the weighted mean test. Finally, we illustrate the use of the weighted mean test by reanalyzing two published data sets. In both applications, the maximum LOD score of the weighted mean test is 0.6 higher than that of the classical mean test.
Related Links	http://dx.doi.org/10.1086/432378
Ending Page	241
Page Count	12
Starting Page	230
File Format	PDF
ISSN	00029297
e-ISSN	15376605
Journal	American Journal of Human Genetics
Issue Number	2
Volume Number	77
Language	English
Publisher	The American Society of Human Genetics
Publisher Date	2005-08-01
Access Restriction	Open
Rights Holder	The American Society of Human Genetics
Subject Keyword	Genetics(clinical) Genetics Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Genetics Genetics (clinical)

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Weighting affected sib pairs by marker informativity.

Down-weighting of multiple affected sib pairs leads to biased likelihood-ratio tests, under the assumption of no linkage.

Even a deficit of shared marker alleles in affected sib pairs can yield evidence for linkage.

Multilocus Linkage Analysis of Affected Sib Pairs

Increased Rate of Twins among Affected Sib Pairs

A Complete Genome Screen in Sib Pairs Affected by Gilles de la Tourette Syndrome

Correcting for biases in affected sib-pair linkage analysis caused by uncertainty in sibling relationship

Efficient strategies for genome scanning with affected sib pairs.

Test of rare variant association based on affected sib-pairs

Weighting Affected Sib Pairs by Marker Informativity

Similar Documents

Weighting affected sib pairs by marker informativity.

Down-weighting of multiple affected sib pairs leads to biased likelihood-ratio tests, under the assumption of no linkage.

Even a deficit of shared marker alleles in affected sib pairs can yield evidence for linkage.

Multilocus Linkage Analysis of Affected Sib Pairs

Increased Rate of Twins among Affected Sib Pairs

A Complete Genome Screen in Sib Pairs Affected by Gilles de la Tourette Syndrome

Correcting for biases in affected sib-pair linkage analysis caused by uncertainty in sibling relationship

Efficient strategies for genome scanning with affected sib pairs.

Test of rare variant association based on affected sib-pairs

Weighting Affected Sib Pairs by Marker Informativity