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Journal Articles
- 2021
[j6]Samuel M. D. Seaver, Filipe Liu, Qizhi Zhang, James G. Jeffryes, José P. Faria, Janaka N. Edirisinghe, Michael B. Mundy, Nicholas Chia, Elad Noor, Moritz Emanuel Beber, Aaron A. Best, Matthew DeJongh, Jeffrey A. Kimbrel, Patrik D'haeseleer, Sean R. McCorkle, Jay R. Bolton, Erik Pearson, Shane Canon, Elisha M. Wood-Charlson, Robert W. Cottingham, Adam P. Arkin, Christopher S. Henry:
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes (Corrigendum). Nucleic Acids Res. 49(Database-Issue): D1555 (2021)- [j5]Samuel M. D. Seaver
, Filipe Liu, Qizhi Zhang, James G. Jeffryes, José P. Faria, Janaka N. Edirisinghe, Michael B. Mundy, Nicholas Chia, Elad Noor, Moritz Emanuel Beber, Aaron A. Best, Matthew DeJongh, Jeffrey A. Kimbrel, Patrik D'haeseleer, Sean R. McCorkle, Jay R. Bolton, Erik Pearson, Shane Canon, Elisha M. Wood-Charlson, Robert W. Cottingham, Adam P. Arkin, Christopher S. Henry:
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes. Nucleic Acids Res. 49(Database-Issue): D575-D588 (2021) - 2012
- [j4]Matthew DeJongh, Benjamin Bockstege, Paul Frybarger, Nicholas L. Hazekamp, Joshua Kammeraad, Travis McGeehan:
CytoSEED: a Cytoscape plugin for viewing, manipulating and analyzing metabolic models created by the Model SEED. Bioinform. 28(6): 891-892 (2012) - [j3]Nathan L. Tintle, Alexandra Sitarik, Benjamin Boerema, Kylie Young, Aaron A. Best, Matthew DeJongh:
Evaluating the consistency of gene sets used in the analysis of bacterial gene expression data. BMC Bioinform. 13: 193 (2012) - 2008
- [j2]Nathan L. Tintle, Aaron A. Best, Matthew DeJongh, Dirk Van Bruggen, Fred Heffron, Steffen Porwollik, Ronald C. Taylor:
Gene set analyses for interpreting microarray experiments on prokaryotic organisms. BMC Bioinform. 9 (2008) - 2007
- [j1]Matthew DeJongh, Kevin Formsma, Paul Boillot, John Gould, Matthew Rycenga, Aaron A. Best:
Toward the automated generation of genome-scale metabolic networks in the SEED. BMC Bioinform. 8 (2007)
Conference and Workshop Papers
- 2019
- [c3]Kevin Li, Rachel Chen, William Lindsey, Aaron A. Best, Matthew DeJongh, Christopher S. Henry, Nathan L. Tintle:
Implementing and Evaluating A Gaussian Mixture Framework for Identifying Gene Function from TnSeq Data. PSB 2019: 172-183 - 2017
- [c2]Nathan Bowerman, Nathan L. Tintle, Matthew DeJongh, Aaron A. Best:
Identification and Analysis of Bacterial Genomic Metabolic Signatures. PSB 2017: 3-14 - 2011
- [c1]Ryan L. McFall, Matthew DeJongh:
Increasing engagement and enrollment in breadth-first introductory courses using authentic computing tasks. SIGCSE 2011: 429-434
Coauthor Index
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