OMG! Orthologs in Multiple Genomes - Competing Graph-Theoretical Formulations. - Chunfang Zheng; Krister M. Swenson; Eric Lyons 002; David Sankoff (WABI, 2011)

Screening synteny blocks in pairwise genome comparisons through integer programming. - Haibao Tang; Eric Lyons 002; Brent S. Pedersen; James C. Schnable; Andrew H. Paterson; Michael Freeling (BMC Bioinform., 2011)

Ancient angiosperm hexaploidy meets ancestral eudicot gene order. - Chunfang Zheng; Victor A. Albert; Eric Lyons 002; David Sankoff (ICCABS, 2012)

The dynamics of functional classes of plant genes in rediploidized ancient polyploids. - Eric C. H. Chen; Carlos Fernando Buen Abad Najar; Chunfang Zheng; Alex Brandts; Eric Lyons 002; Haibao Tang; Lorenzo Carretero-Paulet; Victor A. Albert; David Sankoff (BMC Bioinform., 2013)

Designing and Evaluating Scientific Workflows for Big Data Interactions. - Ronak Etemadpour; Matthew Bomhoff; Eric Lyons 002; Paul Murray; Angus G. Forbes (BDVA, 2015)

The Trees in the Peaks. - David Sankoff; Chunfang Zheng; Eric Lyons 002; Haibao Tang (AlCoB, 2016)

Scaling GIS analysis tasks from the desktop to the cloud utilizing contemporary distributed computing and data management approaches: A case study of project-based learning and cyberinfrastructure concepts. - Tyson Lee Swetnam; J. D. Pelletier; Craig Rasmussen; N. R. Callahan; Nirav C. Merchant; Eric Lyons 002; Mats Rynge; Yan Liu 009; Viswanath Nandigam; Christopher J. Crosby (XSEDE, 2016)

Bringing your tools to CyVerse Discovery Environment using Docker. - Upendra Kumar Devisetty; Kathleen Kennedy; Paul Sarando; Nirav C. Merchant; Eric Lyons 002 (F1000Research, 2016)

SynMap2 and SynMap3D: web-based whole-genome synteny browsers. - Asher Haug-Baltzell; Sean A. Stephens; Sean Davey; Carlos Eduardo Scheidegger; Eric Lyons 002 (Bioinform., 2017)

FractBias: a graphical tool for assessing fractionation bias following polyploidy. - Blake L. Joyce; Asher Haug-Baltzell; Sean Davey; Matthew Bomhoff; James C. Schnable; Eric Lyons 002 (Bioinform., 2017)

A tutorial of diverse genome analysis tools found in the CoGe web-platform using Plasmodium spp. as a model. - Andreina I Castillo; Andrew D. L. Nelson; Asher Haug-Baltzell; Eric Lyons 002 (Database J. Biol. Databases Curation, 2018)

EPIC-CoGe: managing and analyzing genomic data. - Andrew D. L. Nelson; Asher Haug-Baltzell; Sean Davey; Brian D. Gregory; Eric Lyons 002 (Bioinform., 2018)

Science Citation Knowledge Extractor. - Heather C. Lent; Gustave Hahn-Powell; Asher Haug-Baltzell; Sean Davey; Mihai Surdeanu; Eric Lyons 002 (Frontiers Res. Metrics Anal., 2018)

Chickspress: a resource for chicken gene expression. - Fiona M. McCarthy; Ken Pendarvis; Amanda M. Cooksey; Cathy R. Gresham; Matt Bomhoff; Sean Davey; Eric Lyons 002; Tad S. Sonstegard; Susan M. Bridges; Shane C. Burgess (Database J. Biol. Databases Curation, 2019)

Models for Similarity Distributions of Syntenic Homologs and Applications to Phylogenomics. - David Sankoff; Chunfang Zheng; Yue Zhang; Joao Meidanis; Eric Lyons 002; Haibao Tang (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Ten simple rules for organizing a data science workshop. - Alise J. Ponsero; Ryan Bartelme; Gustavo de Oliveira Almeida; Alex Bigelow; Reetu Tuteja; Holly Ellingson; Tyson Lee Swetnam; Nirav C. Merchant; Maliaca Oxnam; Eric Lyons 002 (PLoS Comput. Biol., 2020)

Ten simple rules to cultivate transdisciplinary collaboration in data science. - Faryad Sahneh; Meghan A. Balk; Marina Kisley; Chi-Kwan Chan; Mercury Fox; Brian Nord; Eric Lyons 002; Tyson Lee Swetnam; Daniela Huppenkothen; Will Sutherland; Ramona L. Walls; Daven P. Quinn; et al. (PLoS Comput. Biol., 2021)

Ten simple rules to ruin a collaborative environment. - Carolyn J. Lawrence-Dill; Robyn L. Allscheid; Albert Boaitey; Todd Bauman; Edward S. Buckler IV; Jennifer L. Clarke; Christopher Cullis; Jack Dekkers; Cassandra J. Dorius; Shawn F. Dorius; David Ertl; Matthew Homann; et al. (PLoS Comput. Biol., 2022)

NowCasting-Nets: Representation Learning to Mitigate Latency Gap of Satellite Precipitation Products Using Convolutional and Recurrent Neural Networks. - Mohammad Reza Ehsani; Ariyan Zarei; Hoshin Vijai Gupta; Kobus Barnard; Eric Lyons 002; Ali Behrangi (IEEE Trans. Geosci. Remote. Sens., 2022)

MegaStitch: Robust Large-Scale Image Stitching. - Ariyan Zarei; Emmanuel Gonzalez; Nirav C. Merchant; Duke Pauli; Eric Lyons 002; Kobus Barnard (IEEE Trans. Geosci. Remote. Sens., 2022)

PlantSegNet: 3D point cloud instance segmentation of nearby plant organs with identical semantics. - Ariyan Zarei; Bosheng Li; James C. Schnable; Eric Lyons 002; Duke Pauli; Kobus Barnard; Bedrich Benes (Comput. Electron. Agric., 2024)

CyVerse: Cyberinfrastructure for open science. - Tyson L. Swetnam; Parker B. Antin; Ryan Bartelme; Alexander Bucksch; David Camhy; Greg Chism; Illyoung Choi; Amanda M. Cooksey; Michele Cosi; Cindy Cowen; Michael Culshaw-Maurer; Robert Davey; et al. (PLoS Comput. Biol., 2024)