Academic lineage
Is the kinetome conserved?
- Bernhard O Palsson, James T Yurkovich
- Mol Syst Biol, 10.15252/msb.202110782
Metabolic and Transcriptional Changes across Osteogenic Differentiation of Mesenchymal Stromal Cells
- Thora Bjorg Sigmarsdottir, Sarah McGarrity, Adrián López García de Lomana, …, James T Yurkovich, Ottar Rolfsson, Olafur Eysteinn Sigurjonsson
- None, 10.3390/bioengineering8120208
Escherichia coli Data-Driven Strain Design Using Aggregated Adaptive Laboratory Evolution Mutational Data
- Patrick V Phaneuf, Daniel C Zielinski, James T Yurkovich, …, Rebecca M Lennen, Bernhard O Palsson, Adam M Feist
- ACS Synth Biol, 10.1021/acssynbio.1c00337
A Systematic Review of Metabolite-to-Drug Ratios of Pharmaceuticals in Hair for Forensic Investigations
- Karen Rygaard, Kristian Linnet, Sys Stybe Johansen
- None, 10.3390/metabo11100686
Unraveling the functions of uncharacterized transcription factors in Escherichia coli using ChIP-exo
- Ye Gao, Hyun Gyu Lim, Hans Verkler, …, James T Yurkovich, Byung-Kwan Cho, Bernhard O Palsson
- Nucleic Acids Res, 10.1093/nar/gkab735
Poliovirus Vaccination Induces a Humoral Immune Response That Cross Reacts With SARS-CoV-2
- Brittany A Comunale, Lilly Engineer, Yong Jiang, …, James T Yurkovich, Roderick A Comunale, Qiyi Xie
- None, 10.3389/fmed.2021.710010
Analyzing Metabolic States of Adipogenic and Osteogenic Differentiation in Human Mesenchymal Stem Cells via Genome Scale Metabolic Model Reconstruction
- Thora Bjorg Sigmarsdottir, Sarah McGarrity, James T Yurkovich, Óttar Rolfsson, Ólafur Eysteinn Sigurjónsson
- None, 10.3389/fcell.2021.642681
Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis
- Eliza J R Peterson, Abrar A Abidi, Mario L Arrieta-Ortiz, …, Vivek Srinivas, Ilya Shmulevich, Nitin S Baliga
- Cell Rep, 10.1016/j.celrep.2021.109287
The quantitative metabolome is shaped by abiotic constraints
- Amir Akbari, James T Yurkovich, Daniel C Zielinski, …, James T Yurkovich, Daniel C Zielinski, Bernhard O Palsson
- Nat Commun, 10.1038/s41467-021-23214-9
MASSpy: Building, simulating, and visualizing dynamic biological models in Python using mass action kinetics
- Zachary B Haiman, Daniel C Zielinski, Yuko Koike, James T Yurkovich, Bernhard O Palsson
- PLoS Comput Biol, 10.1371/journal.pcbi.1008208
Community standards to facilitate development and address challenges in metabolic modeling
- Maureen A Carey, Andreas Dräger, Moritz E Beber, Jason A Papin, James T Yurkovich
- Mol Syst Biol, 10.15252/msb.20199235
Current Status and Future Prospects of Genome-Scale Metabolic Modeling to Optimize the Use of Mesenchymal Stem Cells in Regenerative Medicine
- Þóra Sigmarsdóttir, Sarah McGarrity, Óttar Rolfsson, James T Yurkovich, Ólafur E Sigurjónsson
- None, 10.3389/fbioe.2020.00239
Visualizing metabolic network dynamics through time-series metabolomic data
- Lea F Buchweitz, James T Yurkovich, Christoph Blessing, …, Óttar Rolfsson, Julian Heinrich, Andreas Dräger
- BMC Bioinformatics, 10.1186/s12859-020-3415-z
BiGG Models 2020: multi-strain genome-scale models and expansion across the phylogenetic tree
- Charles J Norsigian, Neha Pusarla, John Luke McConn, …, Andreas Dräger, Bernhard O Palsson, Zachary King
- Nucleic Acids Res, 10.1093/nar/gkz1054
A systems approach to clinical oncology uses deep phenotyping to deliver personalized care
- James T Yurkovich, Qiang Tian, Nathan D Price, Leroy Hood
- Nat Rev Clin Oncol, 10.1038/s41571-019-0273-6