| The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color JC Motamayor, K Mockaitis, J Schmutz, N Haiminen, DL Iii, O Cornejo, ... Genome biology 14, 1-25, 2013 | 304 | 2013 |
| Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process OE Cornejo, MC Yee, V Dominguez, M Andrews, A Sockell, E Strandberg, ... Communications biology 1 (1), 167, 2018 | 105 | 2018 |
| Protocols for sampling viral sequences to study epidemic dynamics JC Stack, JD Welch, MJ Ferrari, BU Shapiro, BT Grenfell Journal of the Royal Society Interface 7 (48), 1119-1127, 2010 | 63 | 2010 |
| Prediction of Cacao (Theobroma cacao) Resistance to Moniliophthora spp. Diseases via Genome-Wide Association Analysis and Genomic Selection MS McElroy, AJR Navarro, G Mustiga, C Stack, S Gezan, G Peña, ... Frontiers in plant science 9, 343, 2018 | 52 | 2018 |
| Inferring the inter-host transmission of influenza A virus using patterns of intra-host genetic variation JC Stack, PR Murcia, BT Grenfell, JLN Wood, EC Holmes Proceedings of the Royal Society B: Biological Sciences 280 (1750), 20122173, 2013 | 51 | 2013 |
| Genetic Parameters and the Impact of Off-Types for Theobroma cacao L. in a Breeding Program in Brazil A DuVal, SA Gezan, G Mustiga, C Stack, JP Marelli, J Chaparro, ... Frontiers in Plant Science 8, 2059, 2017 | 49 | 2017 |
| Evolution of equine influenza virus in vaccinated horses PR Murcia, GJ Baillie, JC Stack, C Jervis, D Elton, JA Mumford, J Daly, ... Journal of virology 87 (8), 4768-4771, 2013 | 45 | 2013 |
| Deep sequencing reveals persistence of intra-and inter-host genetic diversity in natural and greenhouse populations of zucchini yellow mosaic virus HE Simmons, JP Dunham, JC Stack, BJA Dickins, I Pagan, EC Holmes, ... Journal of General Virology 93 (8), 1831-1840, 2012 | 41 | 2012 |
| Identification of Climate and Genetic Factors That Control Fat Content and Fatty Acid Composition of Theobroma cacao L. Beans GM Mustiga, J Morrissey, JC Stack, A DuVal, S Royaert, J Jansen, ... Frontiers in Plant Science 10, 1159, 2019 | 36 | 2019 |
| Making a chocolate chip: development and evaluation of a 6K SNP array for Theobroma cacao D Livingstone, S Royaert, C Stack, K Mockaitis, G May, A Farmer, C Saski, ... DNA research 22 (4), 279-291, 2015 | 35 | 2015 |
| Inferring population-level contact heterogeneity from common epidemic data JC Stack, S Bansal, VSA Kumar, B Grenfell Journal of the Royal Society Interface 10 (78), 20120578, 2013 | 34 | 2013 |
| Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process. Commun. Biol. 1: 167 OE Cornejo, MC Yee, V Dominguez, M Andrews, A Sockell, E Strandberg, ... | 24 | 2018 |
| A Larger Chocolate Chip—Development of a 15K Theobroma cacao L. SNP Array to Create High-Density Linkage Maps D Livingstone III, C Stack, GM Mustiga, DC Rodezno, C Suarez, F Amores, ... Frontiers in Plant Science 8, 2008, 2017 | 23 | 2017 |
| Assessing microsatellite linkage disequilibrium in wild, cultivated, and mapping populations of Theobroma cacao L. and its impact on association mapping JC Stack, S Royaert, O Gutiérrez, C Nagai, ISA Holanda, R Schnell, ... Tree Genetics & Genomes 11, 1-16, 2015 | 16 | 2015 |
| RBrownie: an R package for testing hypotheses about rates of evolutionary change JC Stack, LJ Harmon, B O'meara Methods in Ecology and Evolution 2 (6), 660-662, 2011 | 14 | 2011 |
| Low-cost assembly of a cacao crop genome is able to resolve complex heterozygous bubbles J Morrissey, JC Stack, R Valls, JC Motamayor Horticulture research 6, 2019 | 11 | 2019 |
| Clonal reproduction of Moniliophthora roreri and the emergence of unique lineages with distinct genomes during range expansion A Minio, R Figueroa-Balderas, SP Cohen, SS Ali, D Carriel, D Britto, ... G3: Genes, Genomes, Genetics 13 (9), jkad125, 2023 | 1 | 2023 |
| A Larger Chocolate Chip-Development of a 15K Theobroma cacao L. SNP Array to Create High-Density Linkage Maps (vol 8, 2008, 2017) D Livingstone III, C Stack, GM Mustiga, DC Rodezno, C Suarez, F Amores, ... FRONTIERS IN PLANT SCIENCE 9, 2018 | | 2018 |
| Validation of Low Cost, Long Read Sequencing for Crop Pangenomics J Morrissey, JC Stack, R Valls, JCM Arias Plant and Animal Genome XXVI Conference (January 13-17, 2018), 2018 | | 2018 |
| Package ‘phyext’ JC Stack, MJC Stack | | 2015 |
