Symbolic Discriminant Analysis for Mining Gene Expression Patterns. - Jason H. Moore; Joel S. Parker; Lance W. Hahn (ECML, 2001)

Optimizationof neural network architecture using genetic programming improvesdetection and modeling of gene-gene interactions in studies of humandiseases. - Marylyn D. Ritchie; Bill C. White; Joel S. Parker; Lance W. Hahn; Jason H. Moore (BMC Bioinform., 2003)

Adjustment of systematic microarray data biases. - Mónica Benito; Joel S. Parker; Quan Du; Junyuan Wu; Dong Xiang; Charles M. Perou; James Stephen Marron (Bioinform., 2004)

ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data. - Christopher R. Cabanski; Keary Cavin; Chris Bizon; Matthew D. Wilkerson; Joel S. Parker; Kirk C. Wilhelmsen; Charles M. Perou; J. S. Marron; D. Neil Hayes (BMC Bioinform., 2012)

ABRA: improved coding indel detection via assembly-based realignment. - Lisle E. Mose; Matthew D. Wilkerson; D. Neil Hayes; Charles M. Perou; Joel S. Parker (Bioinform., 2014)

Genefu: an R/Bioconductor package for computation of gene expression-based signatures in breast cancer. - Deena M. A. Gendoo; Natchar Ratanasirigulchai; Markus S. Schröder; Laia Paré; Joel S. Parker; Aleix Prat; Benjamin Haibe-Kains (Bioinform., 2016)

Assembly-based inference of B-cell receptor repertoires from short read RNA sequencing data with V'DJer. - Lisle E. Mose; Sara R. Selitsky; Lisa M. Bixby; David L. Marron; Michael D. Iglesia; Jonathan S. Serody; Charles M. Perou; Benjamin Vincent; Joel S. Parker (Bioinform., 2016)

Improved indel detection in DNA and RNA via realignment with ABRA2. - Lisle E. Mose; Charles M. Perou; Joel S. Parker (Bioinform., 2019)

An integrated model for predicting KRAS dependency. - Yihsuan S. Tsai; Yogitha S. Chareddy; Brandon A. Price; Joel S. Parker; Chad V. Pecot (PLoS Comput. Biol., 2023)