Replicability or reproducibility? On the replication crisis in computational neuroscience and sharing only relevant detail
Replicability and reproducibility of computational models has been somewhat understudied
by “the replication movement.” In this paper, we draw on methodological studies into the …
by “the replication movement.” In this paper, we draw on methodological studies into the …
Challenges in reproducibility, replicability, and comparability of computational models and tools for neuronal and glial networks, cells, and subcellular structures
T Manninen, J Aćimović, R Havela… - Frontiers in …, 2018 - frontiersin.org
The possibility to replicate and reproduce published research results is one of the biggest
challenges in all areas of science. In computational neuroscience, there are thousands of …
challenges in all areas of science. In computational neuroscience, there are thousands of …
Reproducibility and comparability of computational models for astrocyte calcium excitability
T Manninen, R Havela, ML Linne - Frontiers in neuroinformatics, 2017 - frontiersin.org
The scientific community across all disciplines faces the same challenges of ensuring
accessibility, reproducibility, and efficient comparability of scientific results. Computational …
accessibility, reproducibility, and efficient comparability of scientific results. Computational …
Computational models of astrocytes and astrocyte–neuron interactions: characterization, reproducibility, and future perspectives
T Manninen, R Havela, ML Linne - Computational glioscience, 2019 - Springer
Astrocytes have been shown to participate in a variety of brain functions. These include
homeostasis, metabolism, neuronal survival in pathological circumstances, and …
homeostasis, metabolism, neuronal survival in pathological circumstances, and …
Comparison of rule-and ordinary differential equation-based dynamic model of DARPP-32 signalling network
EM Wysocka, M Page, J Snowden, TI Simpson - PeerJ, 2022 - peerj.com
Dynamic modelling has considerably improved our understanding of complex molecular
mechanisms. Ordinary differential equations (ODEs) are the most detailed and popular …
mechanisms. Ordinary differential equations (ODEs) are the most detailed and popular …
Reinforcement learning and dopamine in the striatum: A modeling perspective
SM Wanjerkhede, RS Bapi, VD Mytri - Neurocomputing, 2014 - Elsevier
The recent research evidences show that the dopamine (DA) system in the brain is involved
in various functions like reward-related learning, exploration, preparation, and execution in …
in various functions like reward-related learning, exploration, preparation, and execution in …
Connecting Epilepsy and Alzheimer's Disease: Modeling of Normal and Pathological Rhythmicity and Synaptic Plasticity Related to Amyloid (A) Effects
This chapter is motivated by the hidden links between neurodegeneration due to
Alzheimer's disease and temporal lobe epileptic activity. The following argument is based on …
Alzheimer's disease and temporal lobe epileptic activity. The following argument is based on …
Multi-scale modeling of altered synaptic plasticity related to Amyloid β effects
T Matsuzawa, L Zalányi, T Kiss, P Érdi - Neural Networks, 2017 - Elsevier
As suggested by Palop and Mucke (2010) pathologically elevated β-amyloid (A β) impairs
long term potentiation (LTP) and enhances long term depression (LTD) possible underlying …
long term potentiation (LTP) and enhances long term depression (LTD) possible underlying …