MapQTL protocols

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MapQTL specifications


Unique identifier OMICS_07090
Name MapQTL
Software type Package/Module
Interface Graphical user interface
Restrictions to use License purchase required
Operating system Windows
License Commercial
Computer skills Medium
Version 6.0
Stability No
Maintained No


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MapQTL in pipelines

PMCID: 5879560
PMID: 29609551
DOI: 10.1186/s12864-018-4613-1

[…] to a single unique position on reference genomes were used for comparative genome mapping. the genomic synteny was visualized using the software circos []., qtl analysis was carried out using mapqtl 6.0 program []. multiple qtl model (mqm) mapping were utilized to detect any significant association between growth-related traits and marker loci in the data sets. cofactors for mqm analyses […]

PMCID: 4323067
PMID: 25596612
DOI: 10.1093/jhered/esu086

[…] the 2 methods were resolved on a case by case basis to minimize local map size and markers that expanded the genetic map by more than 5 cm or 5% of the respective interval were excluded ()., we used mapqtl 4.0 (van ooijen et al. 2002) for qtl mapping based on the constructed linkage map. in a 2-step evaluation procedure, we first tested the snps most closely linked to previously identified qtl […]

PMCID: 4687042
PMID: 26689832
DOI: 10.1038/srep18661

[…] whether the correlation of two traits was statistically significant by comparison to zero with student’s t-test (p-value ≤ 0.05)., qtl mapping analysis was performed for three growth traits using mapqtl 6 software ( composite interval mapping and multiple qtl model (mqm) mapping were utilized to detect significant markers associated with the traits […]

PMCID: 4243495
PMID: 25505473
DOI: 10.3389/fpls.2014.00634

[…] qtls controlling stomatal traits and gas exchange parameters using a map constructed with diversity array technology (dart) and simple sequence repeat (ssr) markers. using the software package mapqtl6.0 (van ooijen and kyazma, ), qtls were first analyzed by interval mapping (im), followed by composite interval mapping (cim). the closest marker at each putative qtl identified using interval […]

PMCID: 3558514
PMID: 23382900
DOI: 10.1371/journal.pone.0054468

[…] the actual sequenced ssr marker. mapchart 2.2 was used to graphically represent synteny and collinearity between the genetic maps and the genome assembly., the multiple-qtl model (mqm) package of mapqtl 6.0 with automatic cofactor selection was used to map putative and suggestive qtl intervals on the family 331 genetic map. the non-parametric kruskal-wallis (kw) analysis with a significance […]

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MapQTL in publications

PMCID: 5914023
PMID: 29685102
DOI: 10.1186/s12864-018-4581-5

[…] using japanese cedar reference maps []., qtl analysis with multiple-qtl model mapping (which estimated the default parameters) was performed to identify qtls for the male-sterile trait using mapqtl 6.0 software (kyazma) []. the trait data were recorded with a binary code of fertile (trait value of 0) and male-sterile (trait value of 1). graphical representation of linkage groups and qtls […]

PMCID: 5906717
PMID: 29706980
DOI: 10.3389/fpls.2018.00477

[…] more than one marker existed., all traits investigated were used for qtl analysis; phenotypic data for each trait in different environments were analyzed separately. qtl analysis was performed using mapqtl 6 () software with the powerful mqm mapping (=composite interval mapping) method. threshold values were calculated using 1,000 permutations and qtls were designated when genome-wide lod scores […]

PMCID: 5883025
PMID: 29615772
DOI: 10.1038/s41598-018-23873-7

[…] ratio of oleic acid to linoleic acid were identified based on lod scores larger than the 5% cutoff value determined through 1,000 permutation tests using the cim method from the ‘qtl’ package of r.mapqtl6.0, which was used to conduct logarithm of odds and percentage of phenotypic variance explained analysis, and interval mapping (im) was used to detect qtls for target traits. according […]

PMCID: 5880404
PMID: 29608620
DOI: 10.1371/journal.pone.0195408

[…] the two separate parental maps were used to assign putative qtl locations by performing both the simple interval mapping (sim) [] and multiple qtl mapping (mqm) [] procedures implemented within mapqtl 5 software []. putative qtls were first identified using interval mapping, after which one linked marker per putative qtl was treated as a co-factor to represent genetic background control […]

PMCID: 5940171
PMID: 29602808
DOI: 10.1534/g3.118.200129

[…] three resistant to one susceptible using chi-square statistics with the r-function ‘chisq.test’., linkage groups were scanned for quantitative trait loci (qtl) using the interval mapping function in mapqtl 6 (). several tightly linked snps on linkage group 2c, previously identified by gwas, co-segregated with a qtl that was targeted in subsequent analyses. significant snp loci in the haploblock […]

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