QGene statistics

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Citations per year

Number of citations per year for the bioinformatics software tool QGene

Tool usage distribution map

This map represents all the scientific publications referring to QGene per scientific context
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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

[…] egenetics.net/tassel) and the analysis was also performed with compressed mixed linear model (cMLM) [] and enriched compressed mixed linear model (EcMLM) [] implemented in the GAPIT R package []. The QGene 4.3.10 was also used to conduct SMR for all SNPs [], although QGene was developed for QTL mapping, it can also be used in association analysis through SMR. The effect of SNP markers were also co […]


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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