Parallel Tempering with Lasso for Model Reduction in Systems Biology
S Gupta, REC Lee*, JR Faeder*
PLoS Computational Biology (* co-corresponding); Accepted, preprint available here



A system for analog control of cell culture dynamics to reveal capabilities of signaling networks
CS Mokashi, DL Schippper, MA Qasaimeh, REC Lee

dNEMO: a tool for quantification of mRNA and punctate structures in time-lapse images of single cells
GJ Kowalczyk, JA Cruz, Y Guo, Q Zhang, N Sauerwald, REC Lee

Dopamine D2 receptor modulates Wnt expression and control of cell proliferation
F Han, P Konkalmatt, CS Mokashi, M Kumar, Y Zhang, A Ko, Z Farino, L Asico, G Xu, J Gildea, X Zheng, R Felder, REC Lee, PA Jose, I Armando*, Z Freyberg*
Scientific Reports

A network-centric approach to drugging TNF-induced NF-kB signaling
NA Pabon, Q Zhang, JA Cruz, DL Schipper, CJ Camacho*, REC Lee*
Nature Communications (* co-corresponding); recommended by F1000



Shift from stochastic to spatially-ordered expression of serine-glycine synthesis enzymes in 3D microtumors
M Singh, K Warita, T Warita, JR Faeder, REC Lee*, S Sant*, ZN Oltvai*
Scientific Reports (* co-corresponding)

Evaluation of Parallel Tempering to Accelerate Bayesian Parameter Estimation in Systems Biology
S Gupta*, L Hainsworth, JS Hogg, REC Lee*, JR Faeder*
IEEE, 26th Euromicro International Conference on Parallel, Distributed and Network-based Processing (PDP) (* co-corresponding)

Spatial Stochastic Modeling with MCell and CellBlender
S Gupta, J Czech, R Kuczewski, TM Bartol, TJ Sejnowski, REC Lee, JR Faeder
Quantitative Biology: theory, computational methods, and models (Ed. Brian Munsky, MIT Press)

NF-κB-Chromatin Interactions Drive Diverse Phenotypes by Modulating Transcriptional Noise
VC Wong, VL Bass, ME Bullock, AK Chavali, REC Lee, W Mothes, S Gaudet, K Miller-Jensen
Cell Reports



NF-κB Dynamics Discriminate between TNF Doses in Single Cells
Q Zhang, S Gupta, DL Schipper, GJ Kowalczyk, AE Mancini, JR Faeder, REC Lee
Cell Systems

Demystifying the cytokine network: Mathematical models point the way
PA Morel, REC Lee, JR Faeder



NF-κB signalling and cell fate decisions in response to a short pulse of tumour necrosis factor
REC Lee, MA Qasaimeh, X Xia, D Juncker, S Gaudet
Scientific Reports



Putting it all on pigmentation: Heuristics of a bold and stochastic cell fate decision
J Xing* and REC Lee*
Science Signaling (* co-corresponding)



Fold Change of Nuclear NF-κB Determines TNF-Induced Transcription in Single Cells
REC Lee, SR Walker, K Savery, DA Frank, S Gaudet
Molecular cell

Cell-to-cell variability in cell death: can systems biology help us make sense of it all?
X Xia, MS Owen, REC Lee, S Gaudet
Cell death & disease

Monitoring the Proteostasis Function of the Saccharomyces cerevisiae Metacaspase Yca1
A Shrestha, REC Lee, LA Megeney
Caspases, Paracaspases, and Metacaspases



A novel whole-cell lysate kinase assay identifies substrates of the p38 MAPK in differentiating myoblasts
JDR Knight, R Tian, REC Lee, F Wang, A Beauvais, H Zou, LA Megeney, AC Gingras, T Pawson, D Figeys, R Kothary
Skeletal Muscle



Metacaspase Yca1 is required for clearance of insoluble protein aggregates
REC Lee, S Brunette, LG Puente, LA Megeney
Proceedings of the National Academy of Sciences



Reconstructing regulatory kinase pathways from phosphopeptide data: a bioinformatics approach
LG Puente, REC Lee, LA Megeney



A non-death role of the yeast metacaspase: Yca1p alters cell cycle dynamics
REC Lee, LG Puente, M Kærn, LA Megeney
PLoS One



Reconstructing the regulatory kinase pathways of myogenesis from phosphopeptide data
LG Puente, S Voisin, REC Lee, LA Megeney
Molecular & Cellular Proteomics



The yeast kinome displays scale free topology with functional hub clusters
REC Lee, LA Megeney
BMC bioinformatics


Robin E. C. Lee on Pubmed