Colton Lloyd
Colton Lloyd
Verified email at eng.ucsd.edu
Title
Cited by
Cited by
Year
Next-generation genome-scale models for metabolic engineering
ZA King, CJ Lloyd, AM Feist, BO Palsson
Current opinion in biotechnology 35, 23-29, 2015
1572015
i ML1515, a knowledgebase that computes Escherichia coli traits
JM Monk, CJ Lloyd, E Brunk, N Mih, A Sastry, Z King, R Takeuchi, ...
Nature biotechnology 35 (10), 904-908, 2017
1452017
COBRAme: A computational framework for genome-scale models of metabolism and gene expression
CJ Lloyd, A Ebrahim, L Yang, ZA King, E Catoiu, EJ O’Brien, JK Liu, ...
PLoS computational biology 14 (7), e1006302, 2018
56*2018
Laboratory evolution to alternating substrate environments yields distinct phenotypic and genetic adaptive strategies
TE Sandberg, CJ Lloyd, BO Palsson, AM Feist
Applied and environmental microbiology 83 (13), 2017
492017
Global transcriptional regulatory network for Escherichia coli robustly connects gene expression to transcription factor activities
X Fang, A Sastry, N Mih, D Kim, J Tan, JT Yurkovich, CJ Lloyd, Y Gao, ...
Proceedings of the National Academy of Sciences 114 (38), 10286-10291, 2017
482017
solveME: fast and reliable solution of nonlinear ME models
L Yang, D Ma, A Ebrahim, CJ Lloyd, MA Saunders, BO Palsson
BMC bioinformatics 17 (1), 391, 2016
412016
Machine learning applied to enzyme turnover numbers reveals protein structural correlates and improves metabolic models
D Heckmann, CJ Lloyd, N Mih, Y Ha, DC Zielinski, ZB Haiman, ...
Nature communications 9 (1), 1-10, 2018
382018
Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data
L Yang, J Tan, EJ O’Brien, JM Monk, D Kim, HJ Li, P Charusanti, ...
Proceedings of the National Academy of Sciences 112 (34), 10810-10815, 2015
342015
Principles of proteome allocation are revealed using proteomic data and genome-scale models
L Yang, JT Yurkovich, CJ Lloyd, A Ebrahim, MA Saunders, BO Palsson
Scientific reports 6, 36734, 2016
232016
DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression
L Yang, A Ebrahim, CJ Lloyd, MA Saunders, BO Palsson
BMC systems biology 13 (1), 2, 2019
202019
BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data
JC Lachance, CJ Lloyd, JM Monk, L Yang, AV Sastry, Y Seif, BO Palsson, ...
PLoS computational biology 15 (4), e1006971, 2019
102019
Cellular responses to reactive oxygen species are predicted from molecular mechanisms
L Yang, N Mih, A Anand, JH Park, J Tan, JT Yurkovich, JM Monk, CJ Lloyd, ...
Proceedings of the National Academy of Sciences 116 (28), 14368-14373, 2019
92019
Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen
JK Liu, C Lloyd, M Al-Bassam, A Ebrahim, JN Kim, C Olson, A Aksenov, ...
PLoS computational biology 15 (3), e1006848, 2019
82019
The genetic basis for adaptation of model-designed syntrophic co-cultures
CJ Lloyd, ZA King, TE Sandberg, Y Hefner, CA Olson, PV Phaneuf, ...
PLoS computational biology 15 (3), e1006213, 2019
5*2019
Genome-scale model of metabolism and gene expression provides a multi-scale description of acid stress responses in Escherichia coli
B Du, L Yang, CJ Lloyd, X Fang, BO Palsson
PLoS computational biology 15 (12), e1007525, 2019
42019
Kinetic profiling of metabolic specialists demonstrates stability and consistency of in vivo enzyme turnover numbers
D Heckmann, A Campeau, CJ Lloyd, PV Phaneuf, Y Hefner, ...
Proceedings of the National Academy of Sciences 117 (37), 23182-23190, 2020
12020
Computation of condition-dependent proteome allocation reveals variability in the macro and micro nutrient requirements for growth
CJ Lloyd, J Monk, A Ebrahim, L Yang, B Palsson
bioRxiv, 2020
12020
Pangenome Analysis of Enterobacteria Reveals Richness of Secondary Metabolite Gene Clusters and their Associated Gene Sets
OS Mohite, CJ Lloyd, JM Monk, T Weber, BO Palsson
BioRxiv, 781328, 2019
12019
Reconstructing organisms in silico: genome-scale models and their emerging applications
X Fang, CJ Lloyd, BO Palsson
Nature Reviews Microbiology, 1-13, 2020
2020
Expanding the Scope of Genome-scale Models of Metabolism and Gene Expression
CJ Lloyd
UC San Diego, 2019
2019
The system can't perform the operation now. Try again later.
Articles 1–20