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QGene specifications


Unique identifier OMICS_12660
Name QGene
Software type Toolkit/Suite
Interface Graphical user interface
Restrictions to use None
Input format .qdf
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Version 4.3.10
Stability Stable
Maintained Yes


No version available



  • person_outline QGene Team

Publications for QGene

QGene citations


Molecular markers reliably predict post harvest deterioration of fresh cut lettuce in modified atmosphere packaging

PMCID: 5880813
PMID: 29619232
DOI: 10.1038/s41438-018-0022-5

[…] QTL mapping on both populations (S88 × LB and Pav × Par) was performed with QGene v. 4.3.9 software using a scan interval of 1 cM and the single-trait, multiple interval mapping (SMIM) approach. The threshold for significant QTLs was set at the genome-wide α = 0.05 and determ […]


Identification of a major quantitative trait locus underlying salt tolerance in ‘Jidou 12’ soybean cultivar

BMC Res Notes
PMCID: 5800283
PMID: 29402302
DOI: 10.1186/s13104-018-3202-3
call_split See protocol

[…] ndidate QTL controlling salt tolerance was identified by single-marker regression (SMR), single trait composite interval mapping (CIM), and single trait multiple interval mapping (MIM) analyses using QGene 4.3.10 []. QTL LOD levels higher than 2.5 were significant. The LOD plots were created by MapChat 2.2 [] based on the data from QTXb20 and QGene. […]


Environmental and Genetic Variation for Yield Related Traits of Durum Wheat as Affected by Development

Front Plant Sci
PMCID: 5778143
PMID: 29403518
DOI: 10.3389/fpls.2018.00008
call_split See protocol

[…] romosome 6B). The map length spanned 2,119.2 cM, as 965.5 cM for the A genome, and 1,153.7 cM for the B genome.QTL analysis was performed using the composite interval mapping method (Zeng, ) with the Qgene software, version 4.3.10 (Joehanes and Nelson, ). A simplified, but representative, version of the linkage map with a total of 1,627 non-co-mapping markers was used to speed up the computation t […]


High Density Single Nucleotide Polymorphism (SNP) Mapping and Quantitative Trait Loci (QTL) Analysis in a Biparental Spring Triticale Population Localized Major and Minor Effect Fusarium Head Blight Resistance and Associated Traits QTL

PMCID: 5793172
PMID: 29304028
DOI: 10.3390/genes9010019

[…] Software packages QTL Cartographer (version 1.6) [,] and QGene (version 4.3.10) [] were used for mapping main effect QTL (M-QTL) separately for each environment using composite interval mapping method with mapping function Kosambi [] and regression method “ […]


Genetic diversity and association mapping of mineral element concentrations in spinach leaves

BMC Genomics
PMCID: 5715654
PMID: 29202697
DOI: 10.1186/s12864-017-4297-y

[…] Six methods were used for association analysis of the 14 mineral elements among the 292 spinach accessions using 2401 SNPs. The six methods included: (1) SMR_Qgene: single marker regression using the QGene 4.3.10 [], (2) SMR_tassel: single marker regression without structure and without kinship using TASSEL 5, (3) GLM_tassel: general linear model using TAS […]


Mapping X Disease Phytoplasma Resistance in Prunus virginiana

Front Plant Sci
PMCID: 5712551
PMID: 29238359
DOI: 10.3389/fpls.2017.02057

[…] QGene 4.0 was used for QTL identification in the consensus chokecherry map “Cho.” Phenotypic data of X-disease resistance in the mapping population was adopted from the previous research (Wang et al., […]


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QGene institution(s)
Department of Plant Pathology, Kansas State University, Manhattan, KS, USA
QGene funding source(s)
Support has been provided by National Science Foundation NSF-DBI grant 0109879 and USDA-NRI Applied Plant Genomics Program grant 2004-35317-14867 entitled ‘RiceCAP: A coordinated research, education, and extension project for the application of genomic discoveries to improve rice in the United States’. This is contribution 09-111-J from the Kansas Agriculture Experiment Station.

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