A Tool for Collaborative Construction of Large Biological Ontologies. - Jie Bao 001; Zhiliang Hu; Doina Caragea; James M. Reecy; Vasant G. Honavar (DEXA Workshops, 2006)

AnimalQTLdb: a livestock QTL database tool set for positional QTL information mining and beyond. - Zhi-Liang Hu; Eric Ryan Fritz; James M. Reecy (Nucleic Acids Res., 2007)

Identification of differentially expressed gene categories in microarray studies using nonparametric multivariate analysis. - Dan Nettleton; Justin Recknor; James M. Reecy (Bioinform., 2008)

SNPlotz: a generic genome plot tool to aid the SNP association studies. - Zhi-Liang Hu; Rex Fernando; Dorian Garrick; James M. Reecy (BMC Bioinform., 2010)

Extension of Animal QTLdb: QTL meta-analysis on the fly. - Zhi-Liang Hu; Xiaolin Wu 004; James M. Reecy (BCB, 2011)

The catfish genome database cBARBEL: an informatic platform for genome biology of ictalurid catfish. - Jianguo Lu; Eric Peatman; Qing Yang; Shaolin Wang; Zhiliang Hu; James M. Reecy; Huseyin Kucuktas; Zhanjiang Liu (Nucleic Acids Res., 2011)

Optimizing the PCIT algorithm on stampede's Xeon and Xeon Phi processors for faster discovery of biological networks. - Lars Koesterke; Kent F. Milfeld; Matthew W. Vaughn; Daniel Stanzione; James E. Koltes; Nathan T. Weeks; James M. Reecy (XSEDE, 2013)

The Vertebrate Trait Ontology: a controlled vocabulary for the annotation of trait data across species. - Carissa A. Park; Susan M. Bello; Cynthia L. Smith; Zhi-Liang Hu; Diane H. Munzenmaier; Rajni Nigam; Jennifer R. Smith; Mary Shimoyama; Janan T. Eppig; James M. Reecy (J. Biomed. Semant., 2013)

Animal QTLdb: an improved database tool for livestock animal QTL/association data dissemination in the post-genome era. - Zhi-Liang Hu; Carissa A. Park; Xiaolin Wu 004; James M. Reecy (Nucleic Acids Res., 2013)

Discovery of biological networks using an optimized partial correlation coefficient with information theory algorithm on Stampede's Xeon and Xeon Phi processors. - Lars Koesterke; James E. Koltes; Nathan T. Weeks; Kent F. Milfeld; Matthew W. Vaughn; James M. Reecy; Daniel Stanzione (Concurr. Comput. Pract. Exp., 2014)

Fast Epistasis Detection in Large-Scale GWAS for Intel Xeon Phi Clusters. - Glenn R. Luecke; Nathan T. Weeks; Brandon M. Groth; Marina Kraeva; Li Ma; Luke M. Kramer; James E. Koltes; James M. Reecy (TrustCom/BigDataSE/ISPA (3), 2015)

RAPTR-SV: a hybrid method for the detection of structural variants. - Derek M. Bickhart; Jana L. Hutchison; Lingyang Xu; Robert D. Schnabel; Jeremy F. Taylor; James M. Reecy; Steven G. Schroeder; Curtis P. Van Tassell; Tad S. Sonstegard; George E. Liu (Bioinform., 2015)

The BioMart community portal: an innovative alternative to large, centralized data repositories. - Damian Smedley; Syed Haider; Steffen Durinck; Luca Pandini; Paolo Provero; James E. Allen; Olivier Arnaiz; Mohammad Hamza Awedh; Richard A. Baldock; Giulia Barbiera; Philippe Bardou; Tim Beck; et al. (Nucleic Acids Res., 2015)

Developmental progress and current status of the Animal QTLdb. - Zhi-Liang Hu; Carissa A. Park; James M. Reecy (Nucleic Acids Res., 2016)

AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. - Lisa C. Harper; Jacqueline D. Campbell; Ethalinda K. S. Cannon; Sook Jung; Monica Poelchau; Ramona L. Walls; Carson M. Andorf; Elizabeth Arnaud; Tanya Z. Berardini; Clayton L. Birkett; Steven B. Cannon; James D. Carson; et al. (Database J. Biol. Databases Curation, 2018)

High-performance epistasis detection in quantitative trait GWAS. - Nathan T. Weeks; Glenn R. Luecke; Brandon M. Groth; Marina Kraeva; Li Ma; Luke M. Kramer; James E. Koltes; James M. Reecy (Int. J. High Perform. Comput. Appl., 2018)

Building a livestock genetic and genomic information knowledgebase through integrative developments of Animal QTLdb and CorrDB. - Zhi-Liang Hu; Carissa A. Park; James M. Reecy (Nucleic Acids Res., 2019)

Bringing the Animal QTLdb and CorrDB into the future: meeting new challenges and providing updated services. - Zhi-Liang Hu; Carissa A. Park; James M. Reecy (Nucleic Acids Res., 2022)

Ten simple rules to ruin a collaborative environment. - Carolyn J. Lawrence-Dill; Robyn L. Allscheid; Albert Boaitey; Todd Bauman; Edward S. Buckler IV; Jennifer L. Clarke; Christopher Cullis; Jack Dekkers; Cassandra J. Dorius; Shawn F. Dorius; David Ertl; Matthew Homann; et al. (PLoS Comput. Biol., 2022)

A combinatorial approach implementing new database structures to facilitate practical data curation management of QTL, association, correlation and heritability data on trait variants. - Zhi-Liang Hu; Carissa A. Park; James M. Reecy (Database J. Biol. Databases Curation, 2023)