selected publications
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article
- Harnessing the predicted maize pan-interactome for putative gene function prediction and prioritization of candidate genes for important traits. G3: Genes, Genomes, Genetics. 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
- 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
- The Locus Lookup tool at MaizeGDB: Identification of genomic regions in maize by integrating sequence information with physical and genetic maps. Bioinformatics (Oxford. Print). 2010
- MaizeGDB becomes 'sequence-centric'. Database. 2009
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document
- 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