Publications by authors named "Carson Andorf"

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Structural Variability of Pfam Domains Based on Alphafold2 Predictions.
Elly Poretsky, Carson M Andorf, Taner Z Sen

Proteins· December 2025

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Fishing for a reelGene: evaluating gene models with evolution and machine learning.
Aimee J Schulz, Jingjing Zhai, Taylor AuBuchon-Elder, Carson M Andorf, Mohamed Z El-Walid

Plant J· September 2025

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A unified VCF dataset from nearly 1,500 diverse maize accessions and resources to explore the genomic landscape of maize.
Carson M Andorf, Jeffrey Ross-Ibarra, Arun S Seetharam, Matthew B Hufford, Margaret R Woodhouse

G3 (Bethesda)· February 2025

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Assessing the performance of generative artificial intelligence in retrieving information against manually curated genetic and genomic data.
Elly Poretsky, Victoria C Blake, Carson M Andorf, Taner Z Sen

Database (Oxford)· February 2025

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Tools and Resources at the Maize Genetics and Genomics Database (MaizeGDB).
Margaret R Woodhouse, Ethalinda K Cannon, John L Portwood, Jack M Gardiner, Rita K Hayford, Carson M Andorf

Cold Spring Harb Protoc· January 2025

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Extensive genome evolution distinguishes maize within a stable tribe of grasses.
Michelle C Stitzer, Arun S Seetharam, Armin Scheben, Sheng-Kai Hsu, Aimee J Schulz, Carson M Andorf

bioRxiv· January 2025

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​Fusarium Protein Toolkit: a web-based resource for structural and variant analysis of Fusarium species.
Hye-Seon Kim, Olivia C Haley, John L Portwood Ii, Stephen Harding, Robert H Proctor, Carson M Andorf

BMC Microbiol· September 2024

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Comprehensive identification of genomic and environmental determinants of phenotypic plasticity in maize.
Laura E Tibbs-Cortes, Tingting Guo, Carson M Andorf, Xianran Li, Jianming Yu

Genome Res· September 2024

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Harnessing the predicted maize pan-interactome for putative gene function prediction and prioritization of candidate genes for important traits.
Elly Poretsky, Halise Busra Cagirici, Carson M Andorf, Taner Z Sen

G3 (Bethesda)· May 2024

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Enhanced pan-genomic resources at the maize genetics and genomics database.
Ethalinda K Cannon, John L Portwood, Rita K Hayford, Olivia C Haley, Jack M Gardiner, Carson M Andorf

Genetics· May 2024

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Functional annotation and meta-analysis of maize transcriptomes reveal genes involved in biotic and abiotic stress.
Rita K Hayford, Olivia C Haley, Ethalinda K Cannon, John L Portwood, Jack M Gardiner, Carson M Andorf

BMC Genomics· May 2024

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PanEffect: a pan-genome visualization tool for variant effects in maize.
Carson M Andorf, Olivia C Haley, Rita K Hayford, John L Portwood, Stephen Harding

Bioinformatics· February 2024

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PhosBoost: Improved phosphorylation prediction recall using gradient boosting and protein language models.
Elly Poretsky, Carson M Andorf, Taner Z Sen

Plant Direct· December 2023

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Maize Feature Store: A centralized resource to manage and analyze curated maize multi-omics features for machine learning applications.
Shatabdi Sen, Margaret R Woodhouse, John L Portwood, Carson M Andorf

Database (Oxford)· November 2023

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Maize protein structure resources at the maize genetics and genomics database.
Margaret R Woodhouse, John L Portwood, Shatabdi Sen, Rita K Hayford, Jack M Gardiner, Carson M Andorf

Genetics· May 2023

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Co-expression pan-network reveals genes involved in complex traits within maize pan-genome.
H Busra Cagirici, Carson M Andorf, Taner Z Sen

BMC Plant Biol· December 2022

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Association mapping across a multitude of traits collected in diverse environments in maize.
Ravi V Mural, Guangchao Sun, Marcin Grzybowski, Michael C Tross, Hongyu Jin, Carson M Andorf

Gigascience· August 2022

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Predicting Tissue-Specific mRNA and Protein Abundance in Maize: A Machine Learning Approach.
Kyoung Tak Cho, Taner Z Sen, Carson M Andorf

Front Artif Intell· May 2022

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qTeller: a tool for comparative multi-genomic gene expression analysis.
Margaret R Woodhouse, Shatabdi Sen, David Schott, John L Portwood, Michael Freeling, Carson M Andorf

Bioinformatics· December 2021

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De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes.
Matthew B Hufford, Arun S Seetharam, Margaret R Woodhouse, Kapeel M Chougule, Shujun Ou, Carson M Andorf

Science· August 2021

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A pan-genomic approach to genome databases using maize as a model system.
Margaret R Woodhouse, Ethalinda K Cannon, John L Portwood, Lisa C Harper, Jack M Gardiner, Carson M Andorf

BMC Plant Biol· August 2021

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FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences.
Sagnik Banerjee, Priyanka Bhandary, Margaret Woodhouse, Taner Z Sen, Roger P Wise, Carson M Andorf

BMC Bioinformatics· April 2021

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MaizeMine: A Data Mining Warehouse for the Maize Genetics and Genomics Database.
Md Shamimuzzaman, Jack M Gardiner, Amy T Walsh, Deborah A Triant, Justin J Le Tourneau, Carson M Andorf

Front Plant Sci· October 2020

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GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations.
Nancy Manchanda, John L Portwood, Margaret R Woodhouse, Arun S Seetharam, Carolyn J Lawrence-Dill, Carson M Andorf

BMC Genomics· March 2020

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Tissue-specific gene expression and protein abundance patterns are associated with fractionation bias in maize.
Jesse R Walsh, Margaret R Woodhouse, Carson M Andorf, Taner Z Sen

BMC Plant Biol· January 2020

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