Upinder S. Bhalla

The paper introduces a method using Laplacian matrices and Kron reduction to simplify and analyze chemical reaction networks by modeling them as species-reaction graphs.

The paper investigates time-cell behavior in trace-eyeblink conditioning, finding distinct time-cell epochs and no remapping between different trace intervals.

This paper models the formation, stability, and competition of dendritic proto-spines using physics and chemistry, showing how they respond to neurotransmitter inputs and how mutations affect their dynamics.

This paper introduces an algorithm for hierarchical decomposition of biochemical networks using causality and information flow, demonstrating computational efficiency and scalability through benchmarking.

The paper investigates heterogeneity in synaptic plasticity and its impact on information transmission in the CA1 network using optogenetic stimulation and modeling.

The paper identifies four factors that contribute to high depolarization baseline offsets in conductance-based neuronal models and discusses their physiological implications.

The paper shows that random neural networks can represent complex input combinations through dendritic nonlinearities and synaptic clustering.

The paper investigates how a subset of mouse hippocampus CA1 pyramidal neurons selectively learn sparse synaptic input patterns through optogenetic stimulation and postsynaptic depolarization.

The paper shows that STP mediates mismatch detection in hippocampal activity sequences by altering EI balance, using a multiscale model and optogenetic experiments in mice.

The paper introduces HOSS, a hierarchical optimization framework for biochemical networks, which improves model efficiency and reusability by breaking down complex systems into modular, progressively optimized components.

The paper investigates time cell emergence and modality encoding in mouse hippocampus during trace eyeblink conditioning, finding that time cells persist and encode stimulus modality beyond task requirements.

The paper introduces a synthetic dataset and benchmarks for evaluating time cell detection algorithms, finding most methods correctly classify over 80% of cells but vary in sensitivity to perturbations.

This study uses whole exome sequencing in families with multiple affected individuals to identify rare variants in genes associated with both Mendelian and complex neuropsychiatric syndromes.

This study determines the minimum sample size needed for multisite harmonization using structural brain MRI features and shows how sample size requirements increase with site variability.

The paper introduces HillTau, a simplified modeling framework for biochemical signaling networks that reduces complexity and computational cost while maintaining accuracy.

The paper analyzes whole exome sequencing data from individuals with severe mental illness to identify genes under positive selection and their biological functions.

This study shows that loss of Lhx2 in cortical progenitors leads to premature thalamocortical innervation due to altered subplate neuron development.

The paper presents a database of bistable biochemical reaction networks and provides a web interface for analyzing their stability and parameters.

The paper investigates how different forms of robustness in chemical switches - noise, topology, and rates - are largely independent, with some topologies showing higher robustness across multiple dimensions.

The paper examines the relationship between adverse childhood experiences (ACEs) and the age of onset of psychiatric diagnoses in individuals from families with multiple affected members.

This study shows that FMRP KO in mice leads to increased spiking variability in CA1 neurons of adult hippocampus but not juveniles, linked to elevated SK currents.

The paper shows that precise excitation-inhibition balance and dynamic delays control input gating and subthreshold gain in hippocampal circuits.

The paper develops a database of coding variations from the Indian population to aid in understanding genotype-phenotype correlations and disease mechanisms.

This study shows subunit exchange in CaMKII enhances information retention by stabilizing its switch in the PSD and slowing activity decay in the spine cytosol.

The paper shows that reaction-diffusion pathways in dendrites can perform sequence discrimination on behavioral time-scales through aligned and amplified chemical waves from synaptic inputs.