Shawn T O'Neil
Shawn T O'Neil
Faculty Research Assistant, Oregon State University
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Population-level transcriptome sequencing of nonmodel organisms Erynnis propertius and Papilio zelicaon
S T O'Neil, JDK Dzurisin, RD Carmichael, NF Lobo, SJ Emrich, ...
BMC genomics 11 (1), 1-15, 2010
Assessing De Novo transcriptome assembly metrics for consistency and utility
S T O’Neil, SJ Emrich
BMC genomics 14 (1), 1-12, 2013
The National COVID Cohort Collaborative (N3C): rationale, design, infrastructure, and deployment
MA Haendel, CG Chute, TD Bennett, DA Eichmann, J Guinney, WA Kibbe, ...
Journal of the American Medical Informatics Association 28 (3), 427-443, 2021
A comparative study of ripening among berries of the grape cluster reveals an altered transcriptional programme and enhanced ripening rate in delayed berries
S Gouthu, ST O’Neil, Y Di, M Ansarolia, M Megraw, LG Deluc
Journal of experimental botany 65 (20), 5889-5902, 2014
Haplotype and minimum-chimerism consensus determination using short sequence data
S T O'Neil, SJ Emrich
BMC genomics 13 (2), 1-12, 2012
Gene expression in closely related species mirrors local adaptation: consequences for responses to a warming world
ST O'Neil, JDK Dzurisin, CM Williams, NF Lobo, JK Higgins, JM Deines, ...
Molecular ecology 23 (11), 2686-2698, 2014
Newsvendor problems with demand shocks and unknown demand distributions
S O'Neil, X Zhao, D Sun, JC Wei
Decision Sciences 47 (1), 125-156, 2016
Patterns of divergence across the geographic and genomic landscape of a butterfly hybrid zone associated with a climatic gradient
SF Ryan, MC Fontaine, JM Scriber, ME Pfrender, ST O'Neil, JJ Hellmann
Molecular ecology 26 (18), 4725-4742, 2017
The characterization of the Phlebotomus papatasi transcriptome
J Abrudan, M Ramalho‐Ortigão, S O'Neil, G Stayback, M Wadsworth, ...
Insect molecular biology 22 (2), 211-232, 2013
Two Theobroma cacao genotypes with contrasting pathogen tolerance show aberrant transcriptional and ROS responses after salicylic acid treatment
AS Fister, ST O’Neil, Z Shi, Y Zhang, BM Tyler, MJ Guiltinan, ...
Journal of experimental botany 66 (20), 6245-6258, 2015
Robust haplotype reconstruction of eukaryotic read data with Hapler
ST O'Neil, SJ Emrich
2011 IEEE 1st International Conference on Computational Advances in Bio and …, 2011
Comparing online learning algorithms to stochastic approaches for the multi-period newsvendor problem
S O'Neil, A Chaudhary
2008 Proceedings of the Tenth Workshop on Algorithm Engineering and …, 2008
A k-mer based transcriptomics approach for antisense drug discovery targeting the Ewing’s family of tumors
AJ Annalora, S O’Neil, JD Bushman, JE Summerton, CB Marcus, ...
Oncotarget 9 (55), 30568, 2018
Implementing Persistent O (1) Stacks and Queues in R
ST O’Neil
R JOURNAL 7 (1), 118-126, 2015
A Primer for Computational Biology
ST O'Neil
Oregon State University Press, 2017
The topology aware file distribution problem
ST O’Neil, A Chaudhary, DZ Chen, H Wang
Journal of Combinatorial Optimization 26 (4), 621-635, 2013
Accurate transcription start sites enable mining for the cis-regulatory determinants of tissue specific gene expression
M Ansariola, VN Fraser, SA Filichkin, MG Ivanchenko, ZA Bright, ...
bioRxiv, 2020
The Command Line and Filesystem
ST O’Neil
A Primer for Computational Biology, 2019
Objects and Classes
ST O’Neil
A Primer for Computational Biology, 2019
Bio/Recursion: Exploring CS and Bioinformatics in R
ST O'Neil
Shawn Thomas O'Neil, 2018
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