Upinder S. Bhalla

32 papers Journal 30Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
Automated Hierarchical Block Decomposition of Biochemical Networks.
IEEE Trans. Comput. Biol. Bioinform.
Manvel Gasparyan, Satya Tamby, Gubbi Vani HarshaRani, Upinder S. Bhalla, Ovidiu Radulescu
2024 J jnl
Mathematical basis and toolchain for hierarchical optimization of biochemical networks.
PLoS Comput. Biol.
Nisha A. Viswan, Alexandre Tribut, Manvel Gasparyan, Ovidiu Radulescu, Upinder S. Bhalla
2023 J jnl
Using sensitivity analyses to understand bistable system behavior.
BMC Bioinform.
Vandana Sreedharan, Upinder S. Bhalla, Naren Ramakrishnan
2021 J jnl
HillTau: A fast, compact abstraction for model reduction in biochemical signaling networks.
PLoS Comput. Biol.
Upinder S. Bhalla
2021 J jnl
SWITCHES: Searchable Web Interface for Topologies of CHEmical Switches.
Bioinform.
Gubbi Vani HarshaRani, Sahil Moza, Naren Ramakrishnan, Upinder S. Bhalla
2019 J jnl
INDEX-db: The Indian Exome Reference Database (Phase I).
J. Comput. Biol.
Husayn Ahmed P., Vidhya V., Ravi Prabhakar More, Biju Viswanath, Sanjeev Jain, Mahendra S. Rao, Odity Mukherjee, Naren P. Rao, Janardhanan C. Narayanaswamy, Palanimuthu T. Sivakumar, Arun Kandaswamy, Muralidharan Kesavan, Urvakhsh-Meherwan Mehta, Ganesan Venkatasubramanian, John P. John, Meera Purushottam, Ramakrishnan Kannan, Bhupesh Mehta, Thennarasu Kandavel, B. Binukumar, Jitender Saini, Deepak Jayarajan, A. Shyamsundar, Sydney Moirangthem, Kumar G. Vijay, Jagadisha Thirthalli, Prabha S. Chandra, Bangalore N. Gangadhar, Pratima Murthy, Mitradas M. Panicker, Upinder S. Bhalla, Sumantra Chattarji, Vivek Benegal, Mathew Varghese, Janardhan Y. C. Reddy, Padinjat Raghu
2018 J jnl
FindSim: A Framework for Integrating Neuronal Data and Signaling Models.
Frontiers Neuroinformatics
Nisha A. Viswan, Gubbi Vani HarshaRani, Melanie I. Stefan, Upinder S. Bhalla
2017 J jnl
Multirate method for co-simulation of electrical-chemical systems in multiscale modeling.
J. Comput. Neurosci.
Ekaterina Brocke, Mikael Djurfeldt, Upinder S. Bhalla, Jeanette Hellgren Kotaleski, Michael Hanke
2016 J jnl
Efficient Integration of Coupled Electrical-Chemical Systems in Multiscale Neuronal Simulations.
Frontiers Comput. Neurosci.
Ekaterina Brocke, Upinder S. Bhalla, Mikael Djurfeldt, Jeanette Hellgren Kotaleski, Michael Hanke
2016 J jnl
NSDF: Neuroscience Simulation Data Format.
Neuroinformatics
Subhasis Ray, Chaitanya Chintaluri, Upinder S. Bhalla, Daniel K. Wójcik
2016 J jnl
Role of DARPP-32 and ARPP-21 in the Emergence of Temporal Constraints on Striatal Calcium and Dopamine Integration.
PLoS Comput. Biol.
Anu G. Nair, Upinder S. Bhalla, Jeanette Hellgren Kotaleski
2015 J jnl
Spike Detection for Large Neural Populations Using High Density Multielectrode Arrays.
Frontiers Neuroinformatics
Jens-Oliver Muthmann, Hayder Amin, Evelyne Sernagor, Alessandro Maccione, Dagmara Panas, Luca Berdondini, Upinder S. Bhalla, Matthias H. Hennig
2014 — ch.
MOOSE, the Multiscale Object-Oriented Simulation Environment.
Encyclopedia of Computational Neuroscience
Niraj Dudani, Upinder S. Bhalla, Subhasis Ray
2012 J jnl
Summation in the Hippocampal CA3-CA1 Network Remains Robustly Linear Following Inhibitory Modulation and Plasticity, but Undergoes Scaling and Offset Transformations.
Frontiers Comput. Neurosci.
Dhanya Parameshwaran, Upinder S. Bhalla
2011 J jnl
Minimum Information About a Simulation Experiment (MIASE).
PLoS Comput. Biol.
Dagmar Waltemath, Richard R. Adams, Daniel A. Beard, Frank T. Bergmann, Upinder S. Bhalla, Randall Britten, Vijayalakshmi Chelliah, Mike T. Cooling, Jonathan Cooper, Edmund J. Crampin, Alan Garny, Stefan Hoops, Michael Hucka, Peter J. Hunter, Edda Klipp, Camille Laibe, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Poul M. F. Nielsen, Macha Nikolski, Sven Sahle, Herbert M. Sauro, Henning Schmidt, Jacky L. Snoep, Dominic P. Tolle, Olaf Wolkenhauer, Nicolas Le Novère
2011 J jnl
Multiscale interactions between chemical and electric signaling in LTP induction, LTP reversal and dendritic excitability.
Neural Networks
Upinder S. Bhalla
2010 J jnl
NeuroML: A Language for Describing Data Driven Models of Neurons and Networks with a High Degree of Biological Detail.
PLoS Comput. Biol.
Padraig Gleeson, Sharon M. Crook, Robert C. Cannon, Michael L. Hines, Guy O. Billings, Matteo Farinella, Thomas M. Morse, Andrew P. Davison, Subhasis Ray, Upinder S. Bhalla, Simon R. Barnes, Yoana D. Dimitrova, Angus Silver
2010 J jnl
Run-Time Interoperability Between Neuronal Network Simulators Based on the MUSIC Framework.
Neuroinformatics
Mikael Djurfeldt, Johannes Hjorth, Jochen M. Eppler, Niraj Dudani, Moritz Helias, Tobias C. Potjans, Upinder S. Bhalla, Markus Diesmann, Jeanette Hellgren Kotaleski, Örjan Ekeberg
2009 J jnl
Computing with Proteins.
Computer
Naren Ramakrishnan, Upinder S. Bhalla, John J. Tyson
2009 J jnl
Signaling Logic of Activity-Triggered Dendritic Protein Synthesis: An mTOR Gate But Not a Feedback Switch.
PLoS Comput. Biol.
Pragati Jain, Upinder S. Bhalla
2008 J jnl
How To Record a Million Synaptic Weights in a Hippocampal Slice.
PLoS Comput. Biol.
Upinder S. Bhalla
2008 J jnl
Memory Switches in Chemical Reaction Space.
PLoS Comput. Biol.
Naren Ramakrishnan, Upinder S. Bhalla
2008 J jnl
PyMOOSE: interoperable scripting in Python for MOOSE.
Frontiers Neuroinformatics
Subhasis Ray, Upinder S. Bhalla
2007 J jnl
Interoperability of Neuroscience Modeling Software: Current Status and Future Directions.
Neuroinformatics
Robert C. Cannon, Marc-Oliver Gewaltig, Padraig Gleeson, Upinder S. Bhalla, Hugo Cornelis, Michael L. Hines, Fredrick W. Howell, Eilif B. Muller, Joel R. Stiles, Stefan Wils, Erik De Schutter
2005 J jnl
Molecular Switches at the Synapse Emerge from Receptor and Kinase Traffic.
PLoS Comput. Biol.
Arnold Hayer, Upinder S. Bhalla
2004 J jnl
Adaptive stochastic-deterministic chemical kinetic simulations.
Bioinform.
Karan Vasudeva, Upinder S. Bhalla
2003 J jnl
Managing models of signaling networks.
Neurocomputing
Upinder S. Bhalla
2003 J jnl
The Database of Quantitative Cellular Signaling: management and analysis of chemical kinetic models of signaling networks.
Bioinform.
Sudhir Sivakumaran, Sridhar Hariharaputran, Jyoti Mishra, Upinder S. Bhalla
2002 J jnl
Biochemical Signaling Networks Decode Temporal Patterns of Synaptic Input.
J. Comput. Neurosci.
Upinder S. Bhalla
2002 J jnl
The chemical organization of signaling interactions.
Bioinform.
Upinder S. Bhalla
1997 J jnl
Multiday Recordings from Olfactory Bulb Neurons in Awake Freely Moving Rats: Spatially and Temporally Organized Variability in Odorant Response Propertie.
J. Comput. Neurosci.
Upinder S. Bhalla, James M. Bower
1988 — conf
GENESIS: A System for Simulating Neural Networks.
NIPS
Matthew A. Wilson, Upinder S. Bhalla, John D. Uhley, James M. Bower