Theodore J. Perkins

Publication Activity (10 Years)

Years Active: 1998-2023
Publications (10 Years): 14

Top Topics

Statistical Significance

Automatic Detection

Interactive Segmentation

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Renad Al-Ghazawi, Theodore J. Perkins, Xiaojian Shao
A Model of Cell Population Dynamics in Skeletal Muscle Regeneration. BCB (2023)
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
BATL: Bayesian annotations for targeted lipidomics. Bioinform. 38 (6) (2022)
Aseel Awdeh, Marcel Turcotte, Theodore J. Perkins
WACS: improving ChIP-seq peak calling by optimally weighting controls. BMC Bioinform. 22 (1) (2021)
Theodore J. Perkins
Optimal Risk in Multiagent Blind Tournaments. AAMAS (2019)
Justin G. Chitpin, Aseel Awdeh, Theodore J. Perkins
RECAP reveals the true statistical significance of ChIP-seq peak calls. Bioinform. 35 (19) (2019)
Aseel Awdeh, Hilary Phenix, Mads Kærn, Theodore J. Perkins
Dynamics in Epistasis Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. 15 (3) (2018)
Basma Abdelkarim, Theodore J. Perkins
Super-enhancer Dynamics Throughout Myogenesis. BCB (2017)
Yuri Grinberg, Theodore J. Perkins
Fully polynomial-time computation of maximum likelihood trajectories in Markov chains. Inf. Process. Lett. 118 (2017)
Sharmin Nilufar, D. S. Wang, John Girgis, C. G. Palii, D. Yang, A. Blais, M. Brand, Doina Precup, Theodore J. Perkins
Learning-based interactive segmentation using the maximum mean cycle weight formalism. Medical Imaging: Image Processing (2017)
Aseel Awdeh, Theodore J. Perkins
Analysis of Controls in ChIP-seq. BCB (2017)
Daniel Sánchez-Taltavull, Matthew MacLeod, Theodore J. Perkins
On cross-conditional and fluctuation correlations in competitive RNA networks. Bioinform. 32 (17) (2016)
Aseel Awdeh, Hilary Phenix, Mads Kærn, Theodore J. Perkins
The potential power of dynamics in epistasis analysis. BCB (2015)
Mohamed A. Ghadie, Nathalie Japkowicz, Theodore J. Perkins
Gene selection for the reconstruction of stem cell differentiation trees: a linear programming approach. Bioinform. 31 (16) (2015)
Yuri Grinberg, Theodore J. Perkins
State Sequence Analysis in Hidden Markov Models. UAI (2015)
Sharmin Nilufar, Theodore J. Perkins
Learning to Detect Contours with Dynamic Programming Snakes. ICPR (2014)
Sharmin Nilufar, Theodore J. Perkins
Learning a Cost Function for Interactive Microscope Image Segmentation. AAAI Workshop: Modern Artificial Intelligence for Health Analytics (2014)
Sharmin Nilufar, Theodore J. Perkins
Learning a cost function for microscope image segmentation. EMBC (2014)
Parameswaran Ramachandran, Gareth A. Palidwor, Christopher J. Porter, Theodore J. Perkins
MaSC: mappability-sensitive cross-correlation for estimating mean fragment length of single-end short-read sequencing data. Bioinform. 29 (4) (2013)
Sharmin Nilufar, Theodore J. Perkins, Anne Morrow, Jonathan Lee
Automatic Detection of Filopodia from Fluorescence Microscopy Images. IWBBIO (2013)
Sharmin Nilufar, Anne Morrow, Jonathan Lee, Theodore J. Perkins
FiloDetect: automatic detection of filopodia from fluorescence microscopy images. BMC Syst. Biol. 7 (2013)
Hilary Phenix, Katy Morin, Cory Batenchuk, Jacob Parker, Vida Abedi, Liu Yang, Lioudmila Tepliakova, Theodore J. Perkins, Mads Kærn
Quantitative Epistasis Analysis and Pathway Inference from Genetic Interaction Data. PLoS Comput. Biol. 7 (5) (2011)
Theodore J. Perkins, Michael T. Hallett
A Trade-Off between Sample Complexity and Computational Complexity in Learning Boolean Networks from Time-Series Data. IEEE ACM Trans. Comput. Biol. Bioinform. 7 (1) (2010)
Carl Song, Hilary Phenix, Vida Abedi, Matthew Scott, Brian P. Ingalls, Mads Kærn, Theodore J. Perkins
Estimating the Stochastic Bifurcation Structure of Cellular Networks. PLoS Comput. Biol. 6 (3) (2010)
Lee Zamparo, Theodore J. Perkins
Statistical lower bounds on protein copy number from fluorescence expression images. Bioinform. 25 (20) (2009)
Theodore J. Perkins
Maximum likelihood trajectories for continuous-time Markov chains. NIPS (2009)
Sean M. Cory, Theodore J. Perkins
Implementing Arithmetic and Other Analytic Operations By Transcriptional Regulation. PLoS Comput. Biol. 4 (5) (2008)
Theodore J. Perkins, Johannes Jaeger, John Reinitz, Leon Glass
. PLoS Comput. Biol. 2 (5) (2006)
Theodore J. Perkins
Reinforcement Learning for POMDPs Based on Action Values and Stochastic Optimization. AAAI/IAAI (2002)
Theodore J. Perkins, Doina Precup
A Convergent Form of Approximate Policy Iteration. NIPS (2002)
Theodore J. Perkins, Mark D. Pendrith
On the Existence of Fixed Points for Q-Learning and Sarsa in Partially Observable Domains. ICML (2002)
Daniel S. Bernstein, Theodore J. Perkins, Shlomo Zilberstein, Lev Finkelstein
Scheduling Contract Algorithms on Multiple Processors. AAAI/IAAI (2002)
Theodore J. Perkins, Andrew G. Barto
Lyapunov Design for Safe Reinforcement Learning. J. Mach. Learn. Res. 3 (2002)
Theodore J. Perkins, Andrew G. Barto
Heuristic Search in Infinite State Spaces Guided by Lyapunov Analysis. IJCAI (2001)
Theodore J. Perkins, Andrew G. Barto
Lyapunov-Constrained Action Sets for Reinforcement Learning. ICML (2001)
Robert Moll, Theodore J. Perkins, Andrew G. Barto
Machine Learning for Subproblem Selection. ICML (2000)
Robert Moll, Andrew G. Barto, Theodore J. Perkins, Richard S. Sutton
Learning Instance-Independent Value Functions to Enhance Local Search. NIPS (1998)