QGene 4.0, an extensible Java QTL-analysis platform

By Roby Joehanes, J. Nelson. Bioinform., 2008

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Marker-Assisted Plant Breeding: Principles and Practices (2015, background): “0 package is written in Java, has a rich GUI, and can operate on any computer that supports Java (Joehanes and Nelson 2008).”
Relationships between grain protein content and grain yield components through quantitative trait locus analyses in a recombinant inbred line population derived from two elite durum wheat cultivars (2012, methodology): “The Inclusive Composite Interval Mapping (ICIM) method (Li et al. 2007) was employed for QTL mapping using QGene 4.0 software, an updated version for PowerPC hardware (Joehanes and Nelson 2008).”
Identification of major QTLs associated with stable resistance of tomato cultivar ‘Hawaii 7996’ to Ralstonia solanacearum (2012, positive): “QTL detection was conducted using simple interval mapping (SIM) (Lander and Botstein 1989) and composite interval mapping (CIM) (Zeng 1994) in QGene Version 4.3.6 (Joehanes and Nelson 2008).”
A Wolbachia symbiont in Aedes aegypti limits infection with dengue, Chikungunya, and Plasmodium. (2009, methodology): “Target gene to house-keeping gene ratios were obtained for each biological replicate using QGene 4.2 (Joehanes and Nelson, 2008).”