Nathan D. Price

29 papers Misc 1Journal 25Unranked 2
YearRankTypeTitle / Venue / Authors
2019 J jnl
OptRAM: In-silico strain design via integrative regulatory-metabolic network modeling.
PLoS Comput. Biol.
Fangzhou Shen, Renliang Sun, Jie Yao, Jian Li, Qian Liu, Nathan D. Price, Chenguang Liu, Zhuo Wang
2018 J jnl
ProbAnnoWeb and ProbAnnoPy: probabilistic annotation and gap-filling of metabolic reconstructions.
Bioinform.
Brendan King, Terry Farrah, Matthew A. Richards, Michael B. Mundy, Evangelos Simeonidis, Nathan D. Price
2018 — conf
Reproducible big data science: A case study in continuous FAIRness.
RO
Ravi K. Madduri, Kyle Chard, Michel D'Arcy, Segun Jung, Alexis A. Rodriguez, Dinanath Sulakhe, Eric Deutsch, Cory C. Funk, Benjamin D. Heavner, Matthew A. Richards, Paul Shannon, Gustavo Glusman, Nathan D. Price, Carl Kesselman, Ian T. Foster
2016 — conf
I'll take that to go: Big data bags and minimal identifiers for exchange of large, complex datasets.
IEEE BigData
Kyle Chard, Mike D'Arcy, Benjamin D. Heavner, Ian T. Foster, Carl Kesselman, Ravi K. Madduri, Alexis A. Rodriguez, Stian Soiland-Reyes, Carole A. Goble, Kristi Clark, Eric W. Deutsch, Ivo D. Dinov, Nathan D. Price, Arthur W. Toga
2016 J jnl
Relative stability of network states in Boolean network models of gene regulation in development.
Biosyst.
Joseph Xu Zhou, Areejit Samal, Aymeric Fouquier d'Hérouël, Nathan D. Price, Sui Huang
2015 J jnl
Big biomedical data as the key resource for discovery science.
J. Am. Medical Informatics Assoc.
Arthur W. Toga, Ian T. Foster, Carl Kesselman, Ravi K. Madduri, Kyle Chard, Eric W. Deutsch, Nathan D. Price, Gustavo Glusman, Benjamin D. Heavner, Ivo D. Dinov, Joseph Ames, John D. Van Horn, Roger Kramer, Leroy E. Hood
2015 J jnl
Comparative Analysis of Yeast Metabolic Network Models Highlights Progress, Opportunities for Metabolic Reconstruction.
PLoS Comput. Biol.
Benjamin D. Heavner, Nathan D. Price
2015 J jnl
Integrated Modeling of Gene Regulatory and Metabolic Networks in
PLoS Comput. Biol.
Shuyi Ma, Kyle J. Minch, Tige R. Rustad, Samuel Hobbs, Suk-Lin Zhou, David R. Sherman, Nathan D. Price
2014 J jnl
Likelihood-Based Gene Annotations for Gap Filling and Quality Assessment in Genome-Scale Metabolic Models.
PLoS Comput. Biol.
Matthew N. Benedict, Michael B. Mundy, Christopher S. Henry, Nicholas Chia, Nathan D. Price
2013 J jnl
AUREA: an open-source software system for accurate and user-friendly identification of relative expression molecular signatures.
BMC Bioinform.
John C. Earls, James A. Eddy, Cory C. Funk, Youn-Hee Ko, Andrew T. Magis, Nathan D. Price
2013 J jnl
Metabolic Constraint-Based Refinement of Transcriptional Regulatory Networks.
PLoS Comput. Biol.
Sriram Chandrasekaran, Nathan D. Price
2013 J jnl
Multi-study Integration of Brain Cancer Transcriptomes Reveals Organ-Level Molecular Signatures.
PLoS Comput. Biol.
Jaeyun Sung, Pan-Jun Kim, Shuyi Ma, Cory C. Funk, Andrew T. Magis, Yuliang Wang, Leroy E. Hood, Donald Geman, Nathan D. Price
2013 J jnl
Version 6 of the consensus yeast metabolic network refines biochemical coverage and improves model performance.
Database J. Biol. Databases Curation
Benjamin D. Heavner, Kieran Smallbone, Nathan D. Price, Larry P. Walker
2012 J jnl
Network biology methods integrating biological data for translational science.
Briefings Bioinform.
Gürkan Bebek, Mehmet Koyutürk, Nathan D. Price, Mark R. Chance
2012 J jnl
Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE.
BMC Syst. Biol.
Yuliang Wang, James A. Eddy, Nathan D. Price
2012 J jnl
The top-scoring 'N' algorithm: a generalized relative expression classification method from small numbers of biomolecules.
BMC Bioinform.
Andrew T. Magis, Nathan D. Price
2011 J jnl
Genetic Co-Occurrence Network across Sequenced Microbes.
PLoS Comput. Biol.
Pan-Jun Kim, Nathan D. Price
2011 J jnl
Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup.
Bioinform.
Andrew T. Magis, John C. Earls, Youn-Hee Ko, James A. Eddy, Nathan D. Price
2011 J jnl
Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052.
BMC Syst. Biol.
Caroline B. Milne, James A. Eddy, Ravali Raju, Soroush Ardekani, Pan-Jun Kim, Ryan S. Senger, Yong-Su Jin, Hans P. Blaschek, Nathan D. Price
2011 Misc conf
Session Introduction.
Pacific Symposium on Biocomputing
Gürkan Bebek, Mehmet Koyutürk, Mark R. Chance, Nathan D. Price
2010 J jnl
Biological information as set-based complexity.
IEEE Trans. Inf. Theory
David J. Galas, Matti Nykter, Gregory W. Carter, Nathan D. Price, Ilya Shmulevich
2010 J jnl
Identifying Tightly Regulated and Variably Expressed Networks by Differential Rank Conservation (DIRAC).
PLoS Comput. Biol.
James A. Eddy, Leroy E. Hood, Nathan D. Price, Donald Geman
2010 J jnl
Introduction to the special issue on information theory in molecular biology and neuroscience.
IEEE Trans. Inf. Theory
Olgica Milenkovic, Gil Alterovitz, Gerard Battail, Todd P. Coleman, Joachim Hagenauer, Sean P. Meyn, Nathan D. Price, Marco Ramoni, Ilya Shmulevich, Wojciech Szpankowski
2009 — ch.
Biological Data Integration and Model Building.
Encyclopedia of Complexity and Systems Science
James A. Eddy, Nathan D. Price
2008 J jnl
Set-based complexity and biological information
CoRR
David J. Galas, Matti Nykter, Gregory W. Carter, Nathan D. Price, Ilya Shmulevich
2006 J jnl
Long-Range Periodic Patterns in Microbial Genomes Indicate Significant Multi-Scale Chromosomal Organization.
PLoS Comput. Biol.
Timothy E. Allen, Nathan D. Price, Andrew R. Joyce, Bernhard Ø. Palsson
2006 J jnl
Matrix Formalism to Describe Functional States of Transcriptional Regulatory Systems.
PLoS Comput. Biol.
Erwin P. Gianchandani, Jason A. Papin, Nathan D. Price, Andrew R. Joyce, Bernhard Ø. Palsson
2006 J jnl
Metabolite coupling in genome-scale metabolic networks.
BMC Bioinform.
Scott A. Becker, Nathan D. Price, Bernhard O. Palsson
2006 J jnl
Network-level analysis of metabolic regulation in the human red blood cell using random sampling and singular value decomposition.
BMC Bioinform.
Christian L. Barrett, Nathan D. Price, Bernhard O. Palsson