Calmodulin controls spatial and temporal specificity of calcium-induced calcium release.
The 2 matches · 1 of them tie a paragraph to a whole file, not to given lines: a weak match, whose lines are not tinted
- [1] § Materials and methods › Analysis ↔ scripts/run_fig_9_a_b_c_d.py, lines 203–263 · score 0.57 · peak duration, peak frequency, spatial spread, Amplitude, Figure 9
- [2] § Materials and methods › Analysis ↔ scripts/reg_analysis_temporal_decay.py, the whole file · a weak match · score 0.57 · linear regression, temporal decay, RyR2, fits, buffers, ctrl
Paper
Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC
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The authors' code
Python · 321 lines · 12 KB · CC-BY-4.0 · 1 match
run_fig_9_a_b_c_d.py at commit 3367f34, under CC-BY-4.0 · at the source
Overview
- Nencki Institute of Experimental Biology Polish Academy of Sciences, Warszawa, Poland
- Roy J. Carver Department of Biomedical Engineering and Iowa Neuroscience Institute, University of Iowa, Iowa City, Iowa, United States of America
Abstract
Calcium dynamics controls learning and memory, and abnormal calcium dynamics have been implicated in neurodegenerative disorders, such as Alzheimer’s disease (AD). Calcium dynamics are influenced by calcium-induced calcium release (CICR), which is mediated by ryanodine receptors (RyR) located on endoplasmic reticulum (ER) membrane. Calmodulin, one of the most abundant proteins in the brain, inhibits RyR2, expressed in the dendrites of hippocampal CA1 neurons, with several reported consequences: relief of this inhibition is responsible for heart failure, and enhancing calmodulin to RyR binding alleviates cell loss and AD-like neuronal hyperexcitability. To investigate the role of calmodulin in aging and AD, we built a sophisticated reaction-diffusion model of a dendritic branch with ER. We showed that relieving calmodulin inhibition of RyR2 increased spatial and temporal spread of calcium transients in the dendrite. This effect was also visible in a model of old age, where disinhibition of half of the RyR2 population increased spatial spread of calcium transients by a factor of 2, and disinhibition of RyR2 combined with increased concentration of calcium buffering molecules increased duration of calcium transients. Lower activation of plasma membrane calcium ATPase (PMCA), which is also activated by calmodulin and inhibited by β-Amyloid oligomers, and not RyR2 disinhibition, led to an increase in resting intracellular calcium concentration as observed in AD. Overall, our research demonstrates that changes in calmodulin that are associated with AD and aging, by regulation of RyR2 (in old age) and PMCA (in AD), underlie changes in calcium dynamics that might have consequences for learning and memory.
Reproduced under the paper's license (CC BY), from the paper cited above.
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asiaszmek/stochastic_ER
3367f34a82c441f107f2eb0ee47f4aab639e1bf7, 15 June 2026Availability: 1 check, the latest on 26 September 2026: the link answers
- 26 September 2026: the link answers
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- RyR2_assay/
run_assay.py — Python, 446 lines, shown from its source - RyR2_assay/
run_assay_RyR2_Mukherjee — Python, 438 lines, shown from its source.py - RyR2_assay/
run_assay_RyR2_Mukherjee — Python, 439 lines, shown from its source_CaM.py - generate_rxn_files.py — Python, 226 lines, shown from its source
- make_zips.py — Python, 12 lines, shown from its source
- make_zips_long_sims.py — Python, 12 lines, shown from its source
- neurord_RyR2_fit_constra
in.py — Python, 87 lines, shown from its source - scripts/
anova_ols.py — Python, 15 lines, shown from its source - scripts/
anova_posthock_pingouin. — Python, 10 lines, shown from its sourcepy - scripts/
calculate_ancova.py — Python, 47 lines, shown from its source - scripts/
make_ca_dend_figs.py — Python, 107 lines, shown from its source - scripts/
make_ic.py — Python, 37 lines, shown from its source - scripts/
make_propagation_figs.py — Python, 60 lines, shown from its source - scripts/
reg_analysis.py — Python, 66 lines, shown from its source - scripts/
reg_analysis_temporal_de — Python, 65 lines, 1 match, shown from its sourcecay.py - scripts/
run_fig_10.py — Python, 43 lines, shown from its source - scripts/
run_fig_11.py — Python, 54 lines, shown from its source - scripts/
run_fig_3_a.py — Python, 56 lines, shown from its source - scripts/
run_fig_3_b.py — Python, 58 lines, shown from its source - scripts/
run_fig_4.py — Python, 46 lines, shown from its source - scripts/
run_fig_4_for_reviewers. — Python, 46 lines, shown from its sourcepy - scripts/
run_fig_4_suppl.py — Python, 39 lines, shown from its source - scripts/
run_fig_5_a.py — Python, 60 lines, shown from its source - scripts/
run_fig_5_b.py — Python, 63 lines, shown from its source - scripts/
run_fig_6_a.py — Python, 58 lines, shown from its source - scripts/
run_fig_6_a_suppl.py — Python, 58 lines, shown from its source - scripts/
run_fig_6_b.py — Python, 57 lines, shown from its source - scripts/
run_fig_6_b_suppl.py — Python, 57 lines, shown from its source - scripts/
run_fig_7.py — Python, 71 lines, shown from its source - scripts/
run_fig_7_inset.py — Python, 69 lines, shown from its source - scripts/
run_fig_8.py — Python, 122 lines, shown from its source - scripts/
run_fig_9_a_b_c_d.py — Python, 321 lines, 1 match, shown from its source - scripts/
spatial_spread_for_compa — Python, 71 lines, shown from its sourcerizons.py - scripts/
spatial_spread_for_compa — Python, 71 lines, shown from its sourcerizons_cond_stim.py - scripts/
temporal_decay_for_compa — Python, 78 lines, shown from its sourcerizons.py - scripts/
temporal_decay_for_compa — Python, 76 lines, shown from its sourcerizons_cond_stim.py - scripts/
utility_functions.py — Python, 848 lines, shown from its source - stacked_ER/
get_initial_specie_infor — Python, 1,314 lines, shown from its sourcemation.py - README.md — Text, 1,353 lines, shown from its source
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Recorded: type, language, journal, volume, issue, pages, dates, 2 authors, 14 MeSH terms, 117 references.
Cite
This paper
Jędrzejewska-Szmek, J., & Blackwell, K. T. (2026). Calmodulin controls spatial and temporal specificity of calcium-induced calcium release. PLoS computational biology, 22(9), e1013752. https://
BibTeX
@article{jedrzejewskaszm
author = {Jędrzejewska-Szmek, Joanna and Blackwell, Kim T.},
title = {{Calmodulin controls spatial and temporal specificity of calcium-induced calcium release}},
journal = {PLoS computational biology},
year = {2026},
month = sep,
volume = {22},
number = {9},
pages = {e1013752},
publisher = {PLOS},
issn = {1553-734X},
doi = {10.1371/
url = {https://
pmid = {42721222},
pmcid = {PMC13581220}
}
RIS
TY - JOUR
AU - Jędrzejewska-Szmek, Joanna
AU - Blackwell, Kim T.
TI - Calmodulin controls spatial and temporal specificity of calcium-induced calcium release
T2 - PLoS computational biology
J2 - PLoS Comput Biol
PY - 2026
DA - 2026/
VL - 22
IS - 9
SP - e1013752
SN - 1553-734X
PB - PLOS
DO - 10.1371/
UR - https://
LA - en
ER -
CSL-JSON
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