Merlin—rapid analysis of dense genetic maps using sparse gene flow trees

By Gonçalo R. Abecasis, S. Cherny, W. Cookson, Lon R. Cardon. Nature Genetics, 2002

3,521 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/0a1f99556725a04eee23fdc1daa735809ed146a8

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Citations in the corpus

HaploPainter: a tool for drawing pedigrees with complex haplotypes (2005, methodology): “HaploPainter accepts haplotype outputs from Simwalk (Weeks et al., 1995), Allegro (Gudbjartsson et al., 2000), Genehunter (Kruglyak et al., 1996) and Merlin ( Abecasis et al., 2002 ).”
A fast, powerful method for detecting identity by descent. (2011, background): “Familial IBD can be detected with linkage programs.(1,2) Recent IBD(3) is IBD between individuals of possibly undocumented relationship, and it results from common ancestry within approximately the past 30 generations.”
A review on SNP and other types of molecular markers and their use in animal genetics (2002, methodology): “With increasing progress being made in the molecular techniques used to produce SNP data, in the automation of allele scoring and in the development of algorithms for genetic analyses [1], the effort needed to produce an equivalent amount of information as with microsatellites may some day be equiva”
Assumption-Free Estimation of Heritability from Genome-Wide Identity-by-Descent Sharing between Full Siblings (2006, methodology): “IBD probabilities at 1 cM intervals were calculated using Merlin [49], and the estimate of chromosome and genome-wide IBD sharing was enumerated by averaging the IBD probabilities over the length of a chromosome and the whole genome, respectively.”
Genotype Imputation (2009, methodology): “Several formal statistical descriptions of genotype imputation procedures for association analyses in families have now been published (15, 108), and the procedures to support genotype imputation are implemented in packages such as MERLIN (2, 3) and MENDEL (52, 53).”
Refining the complex rheumatoid arthritis phenotype based on specificity of the HLA-DRB1 shared epitope for antibodies to citrullinated proteins. (2005, methodology): “Statistical analysis. Nonparametric linkage analysis was performed using the Multipoint Engine for Rapid Likelihood INference (MERLIN) statistical package ( 16 ).”
Exome sequencing reveals VCP mutations as a cause of familial ALS (2010, positive): “Linkage analysis identified 18 regions across the autosomes with a LOD score greater than zero (see Figure S1) (Abecasis et al., 2002; Sobreira et al., 2010).”
HomozygosityMapper—an interactive approach to homozygosity mapping (2009, methodology): “Especially for SNP markers, owing to their low informativity and hence the usually small number of informative meioses, this is mostly carried out with multipoint linkage analysis with software such as GENEHUNTER (4) or derivatives (5,6), Allegro (7), SIMWALK2 (8) or Merlin ( 9 ) under a recessive d”
A General Approach for Haplotype Phasing across the Full Spectrum of Relatedness (2014, background): “Some of these methods can also handle mother-father-child trios and parent-child duos [2–6], for more complex pedigrees there are several general pedigree analysis software packages [7–10].”