A Simulation Methodology in Modeling Cell Divisions with Stochastic Effects. - Harsha Karur Rajasimha; David C. Samuels; Richard E. Nance (WSC, 2004)

Modeling of Metabolic Oscillations in Mitochondria and Their Coupling in a Cell. - Yang Pu; Saangho Lee; Zhen Liu; David C. Samuels; Layne T. Watson; Yang Cao 001 (BIOCOMP, 2009)

An Analysis of Enzyme Kinetics Data for Mitochondrial DNA Strand Termination by Nucleoside Reverse Transcription Inhibitors. - Katherine V. Wendelsdorf; Zhuo Song; Yang Cao; David C. Samuels (PLoS Comput. Biol., 2009)

Hybrid Modeling and Simulation of Insulin Secretion Pathway in Pancreatic Islets. - Yang Pu; Saangho Lee; David C. Samuels; Layne T. Watson; Yang Cao 001 (BIBE, 2010)

Enzyme Kinetics of the Mitochondrial Deoxyribonucleoside Salvage Pathway Are Not Sufficient to Support Rapid mtDNA Replication. - Vishal V. Gandhi; David C. Samuels (PLoS Comput. Biol., 2011)

Replication Pauses of the Wild-Type and Mutant Mitochondrial DNA Polymerase Gamma: A Simulation Study. - Zhuo Song; Yang Cao; David C. Samuels (PLoS Comput. Biol., 2011)

The effect of unhealthy β-cells in synchronized insulin secretion. - Yang Pu; Saangho Lee; David C. Samuels; Layne T. Watson; Yang Cao 001 (BIBM, 2012)

MitoSeek: extracting mitochondria information and performing high-throughput mitochondria sequencing analysis. - Yan Guo; Jiang Li; Chung-I Li; Yu Shyr; David C. Samuels (Bioinform., 2013)

Three-stage quality control strategies for DNA re-sequencing data. - Yan Guo; Fei Ye; Quanghu Sheng; Travis Clark; David C. Samuels (Briefings Bioinform., 2014)

Alternative applications for distinct RNA sequencing strategies. - Leng Han; Kasey C. Vickers; David C. Samuels; Yan Guo (Briefings Bioinform., 2015)

Genome measures used for quality control are dependent on gene function and ancestry. - Jing Wang 026; Leon Raskin; David C. Samuels; Yu Shyr; Yan Guo (Bioinform., 2015)

Population structure analysis on 2504 individuals across 26 ancestries using bioinformatics approaches. - Jing Wang 026; David C. Samuels; Yu Shyr; Yan Guo (BMC Bioinform., 2015)

Practicality of identifying mitochondria variants from exome and RNAseq data. - Pan Zhang; David C. Samuels; Brian D. Lehmann; Thomas Stricker; Jennifer A. Pietenpol; Yu Shyr; Yan Guo (BMC Bioinform., 2015)

Mitochondria sequence mapping strategies and practicability of mitochondria variant detection from exome and RNA sequencing data. - Pan Zhang; David C. Samuels; Brian D. Lehmann; Thomas Stricker; Jennifer A. Pietenpol; Yu Shyr; Yan Guo (Briefings Bioinform., 2016)

Down syndrome prediction/screening model based on deep learning and illumina genotyping array. - Bing Feng; David C. Samuels; William Hoskins; Yan Guo; Yan Zhang; Jijun Tang; Zibo Meng (BIBM, 2017)

StrandScript: evaluation of Illumina genotyping array design and strand correction. - Jing Wang 026; David C. Samuels; Yu Shyr; Yan Guo (Bioinform., 2017)

Power and sample size calculations for high-throughput sequencing-based experiments. - Chung-I Li; David C. Samuels; Ying-Yong Zhao; Yu Shyr; Yan Guo (Briefings Bioinform., 2018)

Strategies for processing and quality control of Illumina genotyping arrays. - Shilin Zhao; Jing Wang 026; David C. Samuels; Quanghu Sheng; Yu Shyr; Yan Guo (Briefings Bioinform., 2018)

MutEx: a multifaceted gateway for exploring integrative pan-cancer genomic data. - Jie Ping; Olufunmilola Oyebamiji; Hui Yu; Scott Ness; Jeremy Chien; Fei Ye; Huining Kang; David C. Samuels; Sergey Ivanov; Danqian Chen; Ying-Yong Zhao; Yan Guo (Briefings Bioinform., 2020)

Cancer-specific expression quantitative loci are affected by expression dysregulation. - Quanhu Sheng; David C. Samuels; Hui Yu; Scott Ness; Ying-Yong Zhao; Yan Guo (Briefings Bioinform., 2020)

Non-canonical RNA-DNA differences and other human genomic features are enriched within very short tandem repeats. - Hui Yu; Shilin Zhao; Scott Ness; Huining Kang; Quanhu Sheng; David C. Samuels; Olufunmilola Oyebamiji; Ying-Yong Zhao; Yan Guo (PLoS Comput. Biol., 2020)

Two data-driven approaches to identifying the spectrum of problematic opioid use: A pilot study within a chronic pain cohort. - Lori Schirle; Alvin D. Jeffery; Ali Yaqoob; Sandra Sanchez-Roige; David C. Samuels (Int. J. Medical Informatics, 2021)