A Parsimony Approach to Biological Pathway Reconstruction/Inference for Genomes and Metagenomes. - Yuzhen Ye; Thomas G. Doak (PLoS Comput. Biol., 2009)

Comparing Bacterial Communities Inferred from 16s Rrna Gene Sequencing and Shotgun Metagenomics. - Neethu Shah; Haixu Tang; Thomas G. Doak; Yuzhen Ye (Pacific Symposium on Biocomputing, 2011)

Artificial Functional Difference Between Microbial Communities Caused by Length Difference of Sequencing Reads. - Quan Zhang; Thomas G. Doak; Yuzhen Ye (Pacific Symposium on Biocomputing, 2012)

Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics. - Yu-Wei Wu; Mina Rho; Thomas G. Doak; Yuzhen Ye (Bioinform., 2012)

National Center for Genome Analysis support leverages XSEDE to support life science research. - Richard D. LeDuc; Thomas G. Doak; Le-Shin Wu; Philip D. Blood; Carrie L. Ganote; Matthew Vaughn (XSEDE, 2013)

Making campus bridging work for researchers: a case study with mlRho. - Abhinav Thota; Bernhard Haubold; Scott Michael; Thomas G. Doak; Sen Xu; Robert Henschel (XSEDE, 2013)

Cyberinfrastructure resources enabling creation of the loblolly pine reference transcriptome. - Le-Shin Wu; Carrie L. Ganote; Thomas G. Doak; William K. Barnett; Keithanne Mockaitis; Craig A. Stewart (XSEDE, 2015)

A Voice for Bioinformatics. - Carrie L. Ganote; Sheri A. Sanders; Bhavya Nalagampalli Papudeshi; Philip D. Blood; Thomas G. Doak (PEARC, 2017)

ADFinder: accurate detection of programmed DNA elimination using NGS high-throughput sequencing data. - Weibo Zheng; Jing Chen; Thomas G. Doak; Weibo Song; Ying Yan (Bioinform., 2020)