selected publications
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article
- Delivering AI-Ready Genomics with MaizeGDB. Genetics. 2026
- Assessing the performance of generative artificial intelligence in retrieving information against manually curated genetic and genomic data. Database. 2025
- Structural Variability of Pfam Domains Based on Alphafold2 Predictions. Proteins: Structure, Function, and Bioinformatics. 2025
- Harnessing the predicted maize pan-interactome for putative gene function prediction and prioritization of candidate genes for important traits. G3: Genes, Genomes, Genetics. 2024
- ​Fusarium Protein Toolkit: a web-based resource for structural and variant analysis of Fusarium species.. BMC Microbiology. 2024
- PhosBoost: Improved phosphorylation prediction recall using gradient boosting and protein language models. Plant direct. 2023
- Co-expression pan-network reveals genes involved in complex traits within maize pan-genome.. BMC Plant Biology. 2022
- Predicting Tissue-Specific mRNA and Protein Abundance in Maize: A Machine Learning Approach.. Frontiers in artificial intelligence. 2022
- Tissue-specific gene expression and protein abundance patterns are associated with fractionation bias in maize. BMC Plant Biology. 2020
- MaizeGDB 2018: the maize multi-genome genetics and genomics database. Nucleic Acids Research. 2019
- AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture.. Database. 2018
- SNPversity: a web-based tool for visualizing diversity.. Database. 2018
- Surveying the Maize community for their diversity and pedigree visualization needs to prioritize tool development and curation.. Database : the journal of biological databases and curation. 2017
- MaizeGDB update: new tools, data and interface for the maize model organism database.. Nucleic Acids Research. 2016
- Predicting the binding patterns of hub proteins: a study using yeast protein interaction networks.. PLOS ONE. 2013
- MaizeGDB: curation and outreach go hand-in-hand.. Database. 2011
- POPcorn: An Online resource providing access to distributed and diverse maize project data. International journal of plant genomics. 2011
- The MaizeGDB Genome Browser tutorial: one example of database outreach to biologists via video.. Database. 2011
- Choosing a genome browser for a Model Organism Database: surveying the Maize community. Database: The Journal of Biological Databases and Curation.. 2010
- Choosing a genome browser for a Model Organism Database: surveying the maize community.. Database : the journal of biological databases and curation. 2010
- The Locus Lookup tool at MaizeGDB: identification of genomic regions in maize by integrating sequence information with physical and genetic maps.. Bioinformatics. 2010
- MaizeGDB becomes 'sequence-centric'.. Database. 2009
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document
- Why do some predicted protein structures fold poorly? Benchmarking AlphaFold, ESMFold, and Boltz in maize 2025
- Application of RFdiffusion to predict interspecies protein-protein interactions between fungal pathogens and cereal crops 2024
- Fusarium Protein Toolkit: AI-powered tools to combat fungal threats to agriculture 2024
- FASSO: An AlphaFold based method to assign functional annotations by combining sequence and structure orthology 2022
- FINDER: An automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences 2021