Academic lineage
- Bernhard Ø Palsson - Postdoctoral Associate
NAD metabolic dependency in cancer is shaped by gene amplification and enhancer remodelling
- Sudhir Chowdhry, Ciro Zanca, Utkrisht Rajkumar, …, Vineet Bafna, Bing Ren, Paul S Mischel
- Nature, 10.1038/s41586-019-1150-2
Evolution of gene knockout strains of E. coli reveal regulatory architectures governed by metabolism
- Douglas McCloskey, Sibei Xu, Troy E Sandberg, …, Richard Szubin, Adam M Feist, Bernhard O Palsson
- Nat Commun, 10.1038/s41467-018-06219-9
Growth Adaptation of gnd and sdhCB Escherichia coli Deletion Strains Diverges From a Similar Initial Perturbation of the Transcriptome
- Douglas McCloskey, Sibei Xu, Troy E Sandberg, …, Richard Szubin, Adam M Feist, Bernhard O Palsson
- None, 10.3389/fmicb.2018.01793
Multiple Optimal Phenotypes Overcome Redox and Glycolytic Intermediate Metabolite Imbalances in Escherichia coli pgi Knockout Evolutions
- Douglas McCloskey, Sibei Xu, Troy E Sandberg, …, Richard Szubin, Adam M Feist, Bernhard O Palsson
- Appl Environ Microbiol, 10.1128/aem.00823-18
Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the Phosphotransferase System
- Douglas McCloskey, Sibei Xu, Troy E Sandberg, …, Richard Szubin, Adam M Feist, Bernhard O Palsson
- Metab Eng, 10.1016/j.ymben.2018.06.005
Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes
- Douglas McCloskey, Sibei Xu, Troy E Sandberg, …, Richard Szubin, Adam M Feist, Bernhard O Palsson
- Metab Eng, 10.1016/j.ymben.2018.05.012
ssbio: a Python framework for structural systems biology
- Nathan Mih, Elizabeth Brunk, Ke Chen, …, Jonathan M Monk, Zhen Zhang, Bernhard O Palsson
- Bioinformatics, 10.1093/bioinformatics/bty077
Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework
- Gustavo Glusman, Peter W Rose, Andreas Prlić, …, Yana Valasatava, Yang Zhang, Eric W Deutsch
- Genome Med, 10.1186/s13073-017-0509-y
Machine learning in computational biology to accelerate high-throughput protein expression
- Anand Sastry, Jonathan Monk, Hanna Tegel, …, Bernhard O Palsson, Johan Rockberg, Elizabeth Brunk
- Bioinformatics, 10.1093/bioinformatics/btx207