PMID- 17445177
OWN - NLM
STAT- MEDLINE
DCOM- 20070621
LR  - 20071115
IS  - 0001-2815 (Print)
IS  - 0001-2815 (Linking)
VI  - 69 Suppl 1
DP  - 2007 Apr
TI  - Preliminary analysis of a KIR haplotype estimation algorithm: a simulation study.
PG  - 96-100
AB  - The analysis of Killer cell immunoglobulin-like receptors (KIRs) in terms of 
      haplotypes have only been done through genotyping numerous and selected families. 
      Consequently and schematically, KIR haplotypes have been roughly described by two 
      groups (A and B) based on their gene contents. No further KIR adapted methods 
      have been applied to the estimation of haplotype frequencies using unrelated 
      data. We propose here a maximum likelihood (ML) estimation of KIR haplotype 
      frequencies. ML estimation was developed as an extension of those successfully 
      applied to human leukocyte antigen (HLA) data including the handling of missing 
      values and HLA nomenclature. It has been implemented using an adapted Expectation 
      Masimisation algorithm. KIR types on 11 loci in more than 40 Irish families were 
      used to validate the method in a simulation study. Estimated haplotype 
      frequencies are compared to the phase known. Various allele or gene frequency 
      estimation methods were also compared. We demonstrated the interest and 
      reliability of the haplotype method and underline the effect of the sample size 
      on the quality of the estimation. The ML haplotype method also provides by 
      collapsing more accurate estimation of allele or gene frequencies in population. 
      Such an algorithm opens new perspectives in the analysis of KIR genotypes. Large 
      sample size studies are required using phase-known data and/or simulations. It 
      would allow a genotype-based approach to explore the KIR gene haplotype 
      diversity. The haplotype frequencies may be used to compare populations.
FAU - Gourraud, P A
AU  - Gourraud PA
AD  - Inserm U558, Department of Epidemiology, Faculty of Medicine, France. 
      gourraud@cict.fr
FAU - Gagne, K
AU  - Gagne K
FAU - Bignon, J D
AU  - Bignon JD
FAU - Cambon-Thomsen, A
AU  - Cambon-Thomsen A
FAU - Middleton, D
AU  - Middleton D
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - England
TA  - Tissue Antigens
JT  - Tissue antigens
JID - 0331072
RN  - 0 (Receptors, Immunologic)
RN  - 0 (Receptors, KIR)
SB  - IM
MH  - *Algorithms
MH  - *Computer Simulation
MH  - Gene Frequency/*genetics
MH  - Genetics, Population
MH  - Haplotypes/*genetics
MH  - Humans
MH  - Receptors, Immunologic/*genetics
MH  - Receptors, KIR
EDAT- 2007/04/21 09:00
MHDA- 2007/06/22 09:00
CRDT- 2007/04/21 09:00
PHST- 2007/04/21 09:00 [pubmed]
PHST- 2007/06/22 09:00 [medline]
PHST- 2007/04/21 09:00 [entrez]
AID - TAN762_4 [pii]
AID - 10.1111/j.1399-0039.2006.762_4.x [doi]
PST - ppublish
SO  - Tissue Antigens. 2007 Apr;69 Suppl 1:96-100. doi: 
      10.1111/j.1399-0039.2006.762_4.x.