Dendritic shaft constrictions shape synaptic integration in neurons.
The 4 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 › Realistic compartmental modeling ↔ src/ball_cell.py, lines 12–75 · score 0.75 · membrane capacitance, axial resistance, ball, cm2, stick, Realistic
- [2] § MATERIALS AND METHODS › Morphological analysis of cortical pyramidal neurons reconstructed by serial EM ↔ notebooks/Serial_EM_Cortical_DSC_864691135693733567.ipynb, lines 260–314 · score 0.55 · MICrONS, dendritic shaft, cortical, distance, serial, diameter
- [3] § MATERIALS AND METHODS › Modeling ↔ src/mod/simplenmdaonset.mod, the whole file · a weak match · score 0.54 · 0.06 mV, biexponential, eta, gamma, decay, rise
- [4] § MATERIALS AND METHODS › Modeling ↔ notebooks/DSC_model.ipynb, lines 101–108 · score 0.51 · unitary synaptic conductance, EPSP ratio, S8C, model, DSCs
Paper
Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC
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The authors' code
Python · 114 lines · 4.2 KB · no license · 1 match
ball_cell.py at commit cf9df64, no license · at the source
Overview
15 affiliations
- Institute for Experimental Epileptology and Cognition Research, Medical Faculty, University of Bonn, Bonn, Germany
- Institut für Physiologie II, Universität Bonn, Bonn, Germany
- Clausius-Institute of Physical and Theoretical Chemistry, University of Bonn, Bonn, Germany
- Department of Electrical and Electronics Engineering, Ariel University, Ariel, Israel
- Interdisciplinary Institute for Neuroscience, UMR 5297 CNRS, Université de Bordeaux, Bordeaux, France
- Brain Research Institute, University of Zurich, Zurich, Switzerland
- Department of Anesthesia, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH, USA
- Institute of Cellular Neurosciences, Medical Faculty, University of Bonn, Bonn, Germany
- Centre for Neuroendocrinology, Department of Physiology, University of Otago, Dunedin, New Zealand
- Department of Neurology, Department of Epileptology, RWTH Uniklinik, RWTH Aachen, Aachen, Germany
- Axonal Growth and Regeneration Group, German Center for Neurodegenerative Diseases (DZNE), Bonn, Germany
- Institute for Neurovascular Cell Biology, Faculty of Medicine, University of Bonn, Bonn, Germany
- Department of Anesthesiology, University of Cincinnati, Cincinnati, OH, USA
- Institut für Anatomie und Zellbiologie, Universitätsmedizin Göttingen, Göttingen, Germany
- Deutsches Zentrum für Neurodegenerative Erkrankungen e.V., Bonn, Germany
Abstract
For nearly 150 years, textbooks have described dendritic morphology as optimized for efficient synaptic voltage transfer from spines to the soma, implemented as a tubular design respecting Rall’s 3/
Reproduced under the paper's license (CC BY), from the paper cited above.
Repositories
Its files are read in the Code ↔ Paper reader above, with 4 matches between paragraphs and lines of code.
tonykelly00/DSC_model
cf9df6483dbb35d16b5715988a5b93e7723cedbe, 21 May 2026Availability: 1 check, the latest on 26 September 2026: the link answers
- 26 September 2026: the link answers
21 files, not copied: shown from their source
OSCR keeps no copy of these files: this repository has no license that allows it. The reader above shows each one from its source, fetched by your browser at commit cf9df64, when its fingerprint is the one OSCR verified. How this works.
- main.py — Python, 6 lines, shown from its source
- notebooks/
DSC_model.ipynb — Jupyter, 147 lines, 1 match, shown from its source - src/
Master_run.py — Python, 200 lines, shown from its source - src/
RunCa.py — Python, 83 lines, shown from its source - src/
ball_cell.py — Python, 114 lines, 1 match, shown from its source - src/
config.py — Python, 18 lines, shown from its source - src/
impedance.py — Python, 101 lines, shown from its source - src/
mod/ — NEURON, 137 lines, shown from its sourceCalcium Mod/ cadif(orig).mod - src/
mod/ — C, 899 lines, shown from its sourceCalcium Mod/ cadif.c - src/
mod/ — C, 919 lines, shown from its sourcecadif.c - src/
mod/ — NEURON, 140 lines, shown from its sourcecadif.mod - src/
mod/ — C, 821 lines, shown from its sourcecapmp.c - src/
mod/ — NEURON, 94 lines, shown from its sourcecapmp.mod - src/
mod/ — C, 26 lines, shown from its sourcemod_func.c - src/
mod/ — C, 514 lines, shown from its sourcesimpleampaonset.c - src/
mod/ — NEURON, 59 lines, shown from its sourcesimpleampaonset.mod - src/
mod/ — C, 619 lines, shown from its sourcesimplenmdaonset.c - src/
mod/ — NEURON, 81 lines, 1 match, shown from its sourcesimplenmdaonset.mod - src/
plotting.py — Python, 142 lines, shown from its source - src/
runG.py — Python, 71 lines, shown from its source - README.md — Text, 73 lines, shown from its source
tonykelly00/DSC_morphology_pipeline
018caebc0d140fb2bc1e5fcc585a97de84d90ad7, 21 May 2026Availability: 1 check, the latest on 26 September 2026: the link answers
- 26 September 2026: the link answers
14 files, not copied: shown from their source
OSCR keeps no copy of these files: this repository has no license that allows it. The reader above shows each one from its source, fetched by your browser at commit 018caeb, when its fingerprint is the one OSCR verified. How this works.
- notebooks/
.ipynb_checkpoints/ — Jupyter, 57 lines, shown from its sourceExM_analysis-checkpoint. ipynb - notebooks/
.ipynb_checkpoints/ — Jupyter, 141 lines, shown from its sourceanalysis-checkpoint.ipyn b - notebooks/
.ipynb_checkpoints/ — Jupyter, 10 lines, shown from its sourcetoubleshoot-checkpoint.i pynb - notebooks/
Combined_analysis.ipynb — Jupyter, 411 lines, shown from its source - notebooks/
EM_analysis.ipynb — Jupyter, 181 lines, shown from its source - notebooks/
ExM_analysis.ipynb — Jupyter, 390 lines, shown from its source - notebooks/
STED_analysis.ipynb — Jupyter, 181 lines, shown from its source - notebooks/
Serial_EM_Cortical_DSC_8 — Jupyter, 440 lines, 1 match, shown from its source64691135693733567.ipynb - notebooks/
serial_EM_Cortical_DSC_g — Jupyter, 191 lines, shown from its sourceraphs.ipynb - src/
Branch_analysis.py — Python, 439 lines, shown from its source - src/
Summary_analysis.py — Python, 271 lines, shown from its source - src/
histograms.py — Python, 77 lines, shown from its source - src/
plots.py — Python, 112 lines, shown from its source - readme.md — Text, 76 lines, shown from its source
The paper's code and data availability statement is in the Data section.
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Data
Datasets cited
- zenodo:14037025 — at Zenodo; found in “Data, code, and materials availability:”
Data, code, and materials availability
All data and code needed to evaluate and reproduce the results in the paper are present in the paper and the Supplementary Materials. This study did not generate new materials. Data used to generate the figures are available at Zenodo (https://
Reproduced under the paper's license (CC BY), from the paper cited above.
Versions
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Version 1, 27 September 2026: the first record
Recorded: type, language, journal, volume, issue, pages, dates, 23 authors, 7 MeSH terms, 1 funder, 49 references.
Cite
This paper
Kelly, T., Döngi, M., Rodriguez-Gatica, J. E., Ofer, N., Wert-Carvajal, C., Cissewski, N., Barboni, M., Bethge, P., Godale, C. M., Yaser, S., Herde, M. K., Tillmann, J., Peter, S. I., Dupraz, S., Koch, H., Stein, V., Bradke, F., Danzer, S. C., Tchumatchenko, T., . . . Beck, H. (2026). Dendritic shaft constrictions shape synaptic integration in neurons. Science advances, 12(37), eaec4911. https://
BibTeX
@article{kelly2026dendri
author = {Kelly, Tony and Döngi, Michael and Rodriguez-Gatica, Juan Eduardo and Ofer, Netanel and Wert-Carvajal, Carlos and Cissewski, Niclas and Barboni, Michela and Bethge, Philipp and Godale, Christin M and Yaser, Sarah and Herde, Michel K and Tillmann, Jens and Peter, Sabrina Ingrid and Dupraz, Sebastian and Koch, Henner and Stein, Valentin and Bradke, Frank and Danzer, Steve C and Tchumatchenko, Tatjana and Schwarz, Martin K and Kubitscheck, Ulrich and Nägerl, U Valentin and Beck, Heinz},
title = {{Dendritic shaft constrictions shape synaptic integration in neurons}},
journal = {Science advances},
year = {2026},
month = sep,
volume = {12},
number = {37},
pages = {eaec4911},
publisher = {American Association for the Advancement of Science},
issn = {2375-2548},
doi = {10.1126/
url = {https://
pmid = {42726865},
pmcid = {PMC13564900}
}
RIS
TY - JOUR
AU - Kelly, Tony
AU - Döngi, Michael
AU - Rodriguez-Gatica, Juan Eduardo
AU - Ofer, Netanel
AU - Wert-Carvajal, Carlos
AU - Cissewski, Niclas
AU - Barboni, Michela
AU - Bethge, Philipp
AU - Godale, Christin M
AU - Yaser, Sarah
AU - Herde, Michel K
AU - Tillmann, Jens
AU - Peter, Sabrina Ingrid
AU - Dupraz, Sebastian
AU - Koch, Henner
AU - Stein, Valentin
AU - Bradke, Frank
AU - Danzer, Steve C
AU - Tchumatchenko, Tatjana
AU - Schwarz, Martin K
AU - Kubitscheck, Ulrich
AU - Nägerl, U Valentin
AU - Beck, Heinz
TI - Dendritic shaft constrictions shape synaptic integration in neurons
T2 - Science advances
J2 - Sci Adv
PY - 2026
DA - 2026/
VL - 12
IS - 37
SP - eaec4911
SN - 2375-2548
PB - American Association for the Advancement of Science
DO - 10.1126/
UR - https://
LA - en
ER -
CSL-JSON
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