| MAKER-P: a tool kit for the rapid creation, management, and quality control of plant genome annotations MS Campbell, MY Law, C Holt, JC Stein, GD Moghe, DE Hufnagel, J Lei, ... Plant physiology 164 (2), 513-524, 2014 | 410 | 2014 |
| De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes MB Hufford, AS Seetharam, MR Woodhouse, KM Chougule, S Ou, J Liu, ... Science 373 (6555), 655-662, 2021 | 310 | 2021 |
| The origin and evolution of maize in the Southwestern United States RR Da Fonseca, BD Smith, N Wales, E Cappellini, P Skoglund, ... Nature plants 1 (1), 1-5, 2015 | 174 | 2015 |
| Consequences of Whole-Genome Triplication as Revealed by Comparative Genomic Analyses of the Wild Radish Raphanus raphanistrum and Three Other … GD Moghe, DE Hufnagel, H Tang, Y Xiao, I Dworkin, CD Town, ... The Plant Cell 26 (5), 1925-1937, 2014 | 162 | 2014 |
| Evolution of TPS20‐related terpene synthases influences chemical diversity in the glandular trichomes of the wild tomato relative Solanum habrochaites E Gonzales‐Vigil, DE Hufnagel, J Kim, RL Last, CS Barry The Plant Journal 71 (6), 921-935, 2012 | 98 | 2012 |
| Effect of sequence depth and length in long-read assembly of the maize inbred NC358 S Ou, J Liu, KM Chougule, A Fungtammasan, AS Seetharam, JC Stein, ... Nature communications 11 (1), 2288, 2020 | 55 | 2020 |
| Molecular Evidence for Functional Divergence and Decay of a Transcription Factor Derived from Whole-Genome Duplication in Arabidopsis thaliana MD Lehti-Shiu, S Uygun, GD Moghe, N Panchy, L Fang, DE Hufnagel, ... Plant physiology 168 (4), 1717-1734, 2015 | 33 | 2015 |
| SequelTools: a suite of tools for working with PacBio Sequel raw sequence data DE Hufnagel, MB Hufford, AS Seetharam BMC bioinformatics 21, 1-11, 2020 | 24 | 2020 |
| Retained duplicate genes in green alga Chlamydomonas reinhardtii tend to be stress responsive and experience frequent response gains G Wu, DE Hufnagel, AK Denton, SH Shiu BMC genomics 16, 1-12, 2015 | 17 | 2015 |
| A chromosome-level genome of the camphor tree and the underlying genetic and climatic factors for its top-geoherbalism R Jiang, X Chen, X Liao, D Peng, X Han, C Zhu, P Wang, DE Hufnagel, ... Frontiers in Plant Science 13, 827890, 2022 | 13 | 2022 |
| octoFLUshow: an interactive tool describing spatial and temporal trends in the genetic diversity of influenza A virus in US swine ZW Arendsee, J Chang, DE Hufnagel, A Markin, A Janas-Martindale, ... Microbiology Resource Announcements 10 (50), e01081-21, 2021 | 10 | 2021 |
| Interspecies transmission from pigs to ferrets of antigenically distinct swine H1 influenza A viruses with reduced reactivity to candidate vaccine virus antisera as measures of … JB Kimble, CK Souza, TK Anderson, ZW Arendsee, DE Hufnagel, ... Viruses 14 (11), 2398, 2022 | 5 | 2022 |
| Characterizing a century of genetic diversity and contemporary antigenic diversity of N1 neuraminidase in influenza A virus from North American swine DE Hufnagel, KM Young, ZW Arendsee, LC Gay, CJ Caceres, DS Rajão, ... Virus Evolution 9 (1), vead015, 2023 | 3 | 2023 |
| The prevalence of deleterious mutations during the domestication and improvement of soybean S Sun, Y Wang, H Wei, DE Hufnagel, Y Wang, S Guo, Y Li, L Wang, L Qiu The Crop Journal 11 (2), 523-530, 2023 | 2 | 2023 |
| Characterizing a century of genetic diversity and contemporary antigenic diversity of N1 neuraminidase in IAV from North American swine DE Hufnagel, KM Young, Z Arendsee, LC Gay, CJ Caceres, DS Rajão, ... Biorxiv, 2022.11. 18.517097, 2022 | 1 | 2022 |
| Evidence for multiple teosinte hybrid zones in Central Mexico DE Hufnagel, K Kananen, JC Glaubitz, J de Jesuś Sánchez-González, ... bioRxiv, 2021.02. 11.430632, 2021 | 1 | 2021 |
| Swine-to-Ferret Transmission of Antigenically Drifted Contemporary Swine H3N2 Influenza A Virus Is an Indicator of Zoonotic Risk to Humans CK Souza, JB Kimble, TK Anderson, ZW Arendsee, DE Hufnagel, ... Viruses 15 (2), 331, 2023 | | 2023 |
| Inbreeding depression leads to reduced fitness in declining populations of wild maize AJ Schulz, DE Hufnagel, P Gepts, MB Hufford bioRxiv, 2023.11. 20.567972, 2023 | | 2023 |
| Interspecies transmission from pigs to ferrets of antigenically distinct swine H1 influenza A viruses with loss in reactivity to human vaccine virus antisera as measures of … JB Kimble, CK Souza, TK Anderson, ZW Arendsee, DE Hufnagel, ... bioRxiv, 2022.09. 12.507661, 2022 | | 2022 |
| The genome of the camphor tree and the genetic and climatic relevance of the top-geoherbalism in this medicinal plant R Jiang, X Chen, X Liao, D Peng, X Han, C Zhu, P Wang, DE Hufnagel, ... bioRxiv, 2021.10. 17.464679, 2021 | | 2021 |
