Theodore J. Perkins

38 papers A* 4A 2B 2Journal 18Unranked 12
YearRankTypeTitle / Venue / Authors
2026 J jnl
Fluid-Agent Reinforcement Learning.
CoRR
Shishir Sharma, Doina Precup, Theodore J. Perkins
2025 J jnl
Differential equation modeling of cell population dynamics in skeletal muscle regeneration from single-cell transcriptomic data.
PLoS Comput. Biol.
Renad Al-Ghazawi, Hassan Lezzeik, Xiaojian Shao, Theodore J. Perkins
2023 — conf
A Model of Cell Population Dynamics in Skeletal Muscle Regeneration.
BCB
Renad Al-Ghazawi, Theodore J. Perkins, Xiaojian Shao
2022 J jnl
BATL: Bayesian annotations for targeted lipidomics.
Bioinform.
Justin G. Chitpin, Anuradha Surendra, Thao T. Nguyen, Graeme Taylor, Hongbin Xu, Irina Alecu, Roberto Ortega, Julianna J. Tomlinson, Angela M. Crawley, Michaeline McGuinty, Michael G. Schlossmacher, Rachel Saunders-Pullman, Miroslava Cuperlovic-Culf, Steffany A. L. Bennett, Theodore J. Perkins
2021 J jnl
WACS: improving ChIP-seq peak calling by optimally weighting controls.
BMC Bioinform.
Aseel Awdeh, Marcel Turcotte, Theodore J. Perkins
2019 A conf
Optimal Risk in Multiagent Blind Tournaments.
AAMAS
Theodore J. Perkins
2019 J jnl
RECAP reveals the true statistical significance of ChIP-seq peak calls.
Bioinform.
Justin G. Chitpin, Aseel Awdeh, Theodore J. Perkins
2018 J jnl
Dynamics in Epistasis Analysis.
IEEE ACM Trans. Comput. Biol. Bioinform.
Aseel Awdeh, Hilary Phenix, Mads Kærn, Theodore J. Perkins
2017 — conf
Analysis of Controls in ChIP-seq.
BCB
Aseel Awdeh, Theodore J. Perkins
2017 J jnl
Fully polynomial-time computation of maximum likelihood trajectories in Markov chains.
Inf. Process. Lett.
Yuri Grinberg, Theodore J. Perkins
2017 B conf
Learning-based interactive segmentation using the maximum mean cycle weight formalism.
Image Processing
Sharmin Nilufar, Dao Sen Wang, John Girgis, Carmen G. Palii, D. Yang, A. Blais, M. Brand, Doina Precup, Theodore J. Perkins
2017 — conf
Super-enhancer Dynamics Throughout Myogenesis.
BCB
Basma Abdelkarim, Theodore J. Perkins
2016 J jnl
On cross-conditional and fluctuation correlations in competitive RNA networks.
Bioinform.
Daniel Sánchez-Taltavull, Matthew MacLeod, Theodore J. Perkins
2015 J jnl
Gene selection for the reconstruction of stem cell differentiation trees: a linear programming approach.
Bioinform.
Mohamed A. Ghadie, Nathalie Japkowicz, Theodore J. Perkins
2015 A conf
State Sequence Analysis in Hidden Markov Models.
UAI
Yuri Grinberg, Theodore J. Perkins
2015 — conf
The potential power of dynamics in epistasis analysis.
BCB
Aseel Awdeh, Hilary Phenix, Mads Kærn, Theodore J. Perkins
2014 — conf
Learning a Cost Function for Interactive Microscope Image Segmentation.
AAAI Workshop: Modern Artificial Intelligence for Health Analytics
Sharmin Nilufar, Theodore J. Perkins
2014 — conf
Learning a cost function for microscope image segmentation.
EMBC
Sharmin Nilufar, Theodore J. Perkins
2014 B conf
Learning to Detect Contours with Dynamic Programming Snakes.
ICPR
Sharmin Nilufar, Theodore J. Perkins
2013 — conf
Automatic Detection of Filopodia from Fluorescence Microscopy Images.
IWBBIO
Sharmin Nilufar, Theodore J. Perkins, Anne Morrow, Jonathan Lee
2013 J jnl
FiloDetect: automatic detection of filopodia from fluorescence microscopy images.
BMC Syst. Biol.
Sharmin Nilufar, Anne Morrow, Jonathan Lee, Theodore J. Perkins
2013 J jnl
MaSC: mappability-sensitive cross-correlation for estimating mean fragment length of single-end short-read sequencing data.
Bioinform.
Parameswaran Ramachandran, Gareth A. Palidwor, Christopher J. Porter, Theodore J. Perkins
2011 J jnl
Quantitative Epistasis Analysis and Pathway Inference from Genetic Interaction Data.
PLoS Comput. Biol.
Hilary Phenix, Katy Morin, Cory Batenchuk, Jacob Parker, Vida Abedi, Liu Yang, Lioudmila Tepliakova, Theodore J. Perkins, Mads Kærn
2010 J jnl
A Trade-Off between Sample Complexity and Computational Complexity in Learning Boolean Networks from Time-Series Data.
IEEE ACM Trans. Comput. Biol. Bioinform.
Theodore J. Perkins, Michael T. Hallett
2010 J jnl
Estimating the Stochastic Bifurcation Structure of Cellular Networks.
PLoS Comput. Biol.
Carl Song, Hilary Phenix, Vida Abedi, Matthew Scott, Brian P. Ingalls, Mads Kærn, Theodore J. Perkins
2009 — conf
Maximum likelihood trajectories for continuous-time Markov chains.
NIPS
Theodore J. Perkins
2009 J jnl
Statistical lower bounds on protein copy number from fluorescence expression images.
Bioinform.
Lee Zamparo, Theodore J. Perkins
2008 J jnl
Implementing Arithmetic and Other Analytic Operations By Transcriptional Regulation.
PLoS Comput. Biol.
Sean M. Cory, Theodore J. Perkins
2006 J jnl
Reverse Engineering the Gap Gene Network of
PLoS Comput. Biol.
Theodore J. Perkins, Johannes Jaeger, John Reinitz, Leon Glass
2002 — conf
A Convergent Form of Approximate Policy Iteration.
NIPS
Theodore J. Perkins, Doina Precup
2002 J jnl
Lyapunov Design for Safe Reinforcement Learning.
J. Mach. Learn. Res.
Theodore J. Perkins, Andrew G. Barto
2002 A* conf
On the Existence of Fixed Points for Q-Learning and Sarsa in Partially Observable Domains.
ICML
Theodore J. Perkins, Mark D. Pendrith
2002 — conf
Reinforcement Learning for POMDPs Based on Action Values and Stochastic Optimization.
AAAI/IAAI
Theodore J. Perkins
2002 — conf
Scheduling Contract Algorithms on Multiple Processors.
AAAI/IAAI
Daniel S. Bernstein, Theodore J. Perkins, Shlomo Zilberstein, Lev Finkelstein
2001 A* conf
Heuristic Search in Infinite State Spaces Guided by Lyapunov Analysis.
IJCAI
Theodore J. Perkins, Andrew G. Barto
2001 A* conf
Lyapunov-Constrained Action Sets for Reinforcement Learning.
ICML
Theodore J. Perkins, Andrew G. Barto
2000 A* conf
Machine Learning for Subproblem Selection.
ICML
Robert Moll, Theodore J. Perkins, Andrew G. Barto
1998 — conf
Learning Instance-Independent Value Functions to Enhance Local Search.
NIPS
Robert Moll, Andrew G. Barto, Theodore J. Perkins, Richard S. Sutton