Software for the calculation of genetic linkage maps

By J. W. Van, Ooijen Wageningen, Kyazma B V. 2001

1,600 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/551522e3bb82f2b5ad1dd18b5ed8ea9c5d17d851

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Citations in the corpus

EST-SSR genetic maps for Citrus sinensis and Poncirus trifoliata (2007, methodology): “Linkage analysis Two mapping programs, MapMaker 3.0 (Lander et al. 1987) and JoinMap 3.0 (Stam and Van Ooijen 1995; Van Ooijen and Voorrips 2001), were used for linkage analysis and comparison.”
Chilling injury susceptibility in an intra-specific peach (Prunus persica (L.) Batsch) progeny (2010, methodology): “Mapping and QTL analysis 188 Genome mapping of LG4 from the segregating population developed using the cross 189 ‘Venus’ × ‘BigTop’ was constructed with JoinMap® 4.0 software (Van Ooijen, 2006), 190 using segregation data from SSR and CG markers.”
A major QTL controlling seed dormancy and pre-harvest sprouting resistance on chromosome 4A in a Chinese wheat landrace (2008, methodology): “Genetic map construction and QTL analysis A genetic linkage map was constructed with SSR markers using JoinMap version 3.0 (Van Ooijen and Voorrips 2001).”
Map position and functional allelic diversity of Md-Exp7, a new putative expansin gene associated with fruit softening in apple (Malus × domestica Borkh.) and pear (Pyrus communis) (2008, methodology): “Linkage analysis for both mapping populations was performed with the software JoinMap® 3.0 (Van Ooijen and Voorrips 2001) using the Kosambi mapping function.”
Genetic Mapping and Confirmation of Quantitative Trait Loci for Seed Protein and Oil Contents and Seed Weight in Soybean (2013, methodology): “…the multiple-QTL method (MQM) with the program MapQTL 5.0 (van Ooijen, 2004) was used to declare a significant QTL based on appropriate cofactors (van Ooijen and Voorrips, 2001) and a logarithm of the odds (LOD) score generated by the genomewide permutation tests (Churchill and Doerge, 1994).”
Construction of a high density linkage map and its application in the identification of QTLs for soluble sugar and organic acid components in apple (2015, methodology): “QTL analysis was performed with the MapQTL 5.0 software (Van Ooijen 2006).”
Mapping of a broad-spectrum brown planthopper resistance gene, Bph3, on rice chromosome 6 (2006, unknown): “5 at LOD threshold 3.0 (Van Ooijen 2004).”
Genetic linkage maps of two apple cultivars (Malus × domestica Borkh.) based on AFLP and microsatellite markers (2005, methodology): “All data analysis was performed using the JoinMap 3.0 software (Van Ooijen and Voorrips 2001).”
Identification of quantitative trait loci for dry-matter, starch, and β-carotene content in sweetpotato (2011, methodology): “A framework linkage map based on singledose markers was constructed using a combination of JoinMap 3.0 (Van Ooijen and Voorrips 2001) and MapMaker (Lander et al. 1987) software.”
A candidate gene for fire blight resistance in Malus ×robusta 5 is coding for a CC–NBS–LRR (2013, methodology): “The genotypic data were processed and mapped using JoinMap3 (Van Ooijen and Voorrips 2001) with a logarithm of odds (LOD) threshold of 10 and manually checked for consistency.”
Construction of a comprehensive PCR-based marker linkage map and QTL mapping for fiber quality traits in upland cotton (Gossypium hirsutum L.) (2009, background): “0 (Van Ooijen and Voorrips 2001) with a LOD score of 5.0 and a recombination frequency of 0.40.”
An SSR-based linkage map of Capsicum annuum (2006, methodology): “0 software with a population type code, DH1 (Van Ooijen and Voorrips 2001).”