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Enhancing KCC2 function reduces interictal activity and prevents seizures in temporal lobe epilepsy.

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Paper

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The authors' code

MATLAB · 109 lines · 4.4 KB · GPL-3.0

  1. function BatchResults = Batch_InterictalDetection(filename,threshold,channel,toDenoise)
  3. % USAGE
  4. %
  5. % BatchResults = Batch_InterictalDetection(filename,threshold,channel,toDenoise)
  6. %
  7. % Main function for the interictal detection. Filter the signal, receive
  8. % the interictal peaks, group the peaks to detect an event once and receive
  9. % the amplitude and frequency of the events.
  10. %
  11. %
  12. % filename String ('filename.h5')
  13. % threshold Positive integer - the events above the threshold can
  14. % be interictal events
  15. % channel channel of the MEA ({channel})
  16. % toDenoise 1 if you want to denoise, 0 else.
  17. %
  18. % OUTPUT
  19. %
  20. % BatchResults Matrix which contains :
  21. % -The IIA events (matrix)
  22. % -The mean amplitude of the events (double)
  23. % -The frequency of the events (double)
  24. % -The start point of each events (matrix)
  25. % -The stop point of each events (matrix)
  26. % -The denoised signal if toDenoise = 1 (matrix)
  27. % -The name of the file
  28. % -The channel
  29. % -The threshold
  30. % -The original signal (matrix)
  31. % -The filtered signal (matrix)
  32. % -The normalized and squared signal (matrix)
  35. %Load the signal
  36. LoadHDF5(filename,'channel',channel,'time',[],'export','no');
  38. OriginalSignal = ans;
  39. %OriginalSignal = ans(6000000:18000000,:);
  41. %OriginalSignal(:,1)=OriginalSignal(:,1)-0.1;
  43. %Check parameter 4
  44. %If toDenoise = 1, denoise the signal and then filter. Else, just filter
  46. %hpFilt = designfilt('highpassfir', 'StopbandFrequency', 250, 'PassbandFrequency', 350, 'StopbandAttenuation', 60, 'PassbandRipple', 1, 'SampleRate', 10000, 'DesignMethod', 'equiripple');
  47. hpFilt = designfilt('lowpassiir','FilterOrder',2,'PassbandFrequency',40,'SampleRate', 10000);
  49. if toDenoise == 1
  50. OriginalValue = OriginalSignal(:,2);
  51. OriginalTime = OriginalSignal(:,1);
  52. %filteredSpikes = filtfilt(hpFilt,OriginalSignal);
  53. DenoisedData = wden(OriginalValue,'rigrsure','h','mln',5,'db4');
  54. DenoisedMatrix = [OriginalTime DenoisedData];
  55. %filteredInterIctalActivity = FilterLFP(DenoisedMatrix,'passband',[1,40],'nyquist',5000,'order',2);
  56. filteredInterIctalActivity = filtfilt (hpFilt,DenoisedMatrix);
  57. %noise = std(filteredInterIctalActivity(:,2));
  58. %noise = std(filteredSpikes(:,2));
  59. %threshold = 1.2*noise;
  60. else
  61. %filteredInterIctalActivity = FilterLFP(OriginalSignal,'passband',[1,50],'nyquist',5000,'order',2);
  62. filteredInterIctalActivity = filtfilt (hpFilt,OriginalSignal);
  63. %filteredInterIctalActivity = OriginalSignal;
  64. end
  71. %Receive the interictal peaks
  72. [interictalPeaks,normalizedSquaredSignal,start,stop] = interictalDetection(OriginalSignal,filteredInterIctalActivity,threshold);
  73. length = size(interictalPeaks);
  74. if length ~= 0
  75. %Group the points detected for the same interictal activity
  76. [interictalSinglePeaks,positiveEvent,negativeEvent] = EventsGrouping(interictalPeaks);
  77. interictalSinglePeaks(~any(interictalSinglePeaks'),:) = [];
  79. %If the events are positives, remove the negatives events and reciprocally
  80. finalInterictalSinglePeaks = removePositiveNegative(interictalSinglePeaks,positiveEvent,negativeEvent);
  82. %Calculate the mean amplitude of the IIA
  83. InterictalAmplitude = MeanAmplitude(finalInterictalSinglePeaks);
  85. %Calculate the frequency of the IIA
  86. InterictalFrequency = Frequency(OriginalSignal,finalInterictalSinglePeaks);
  88. %Add results to the batchResult
  89. BatchResults.finalInterictalSinglePeaks = finalInterictalSinglePeaks;
  90. BatchResults.InterictalAmplitude = InterictalAmplitude;
  91. BatchResults.InterictalFrequency = InterictalFrequency;
  93. BatchResults.start = start;
  94. BatchResults.stop = stop;
  96. end
  97. if toDenoise == 1
  98. BatchResults.DenoisedMatrix = DenoisedMatrix;
  99. end
  100. BatchResults.filename = filename;
  101. BatchResults.channel = channel;
  102. BatchResults.threshold = threshold;
  103. BatchResults.OriginalSignal = OriginalSignal;
  104. BatchResults.filteredInterIctalActivity = filteredInterIctalActivity;
  105. %BatchResults.SquaredSignal = squaredSignal;
  106. BatchResults.normalizedSquaredSignal = normalizedSquaredSignal;
  107. %BatchResults.stdsignal = noise;
  108. %BatchResults.filteredspikes = filteredSpikes;
  109. end

Batch_InterictalDetection.m at commit 24a204d, under GPL-3.0 · at the source

Overview

Authors: Florian Donneger1, Adrien Zanin1, Jeremy Besson1, Delphine Roussel2, Yoness Kadiri1, Carla Pagan1,2, Manisha Sinha1, Nicolas David1, Marion Russeau1, Franck Bielle2,3, Bertrand Devaux4, Bertrand Mathon2,5, Vincent Navarro2,6, Francine Chassoux4, Jean Christophe Poncer1,2
ORCID iDs: Florian Donneger, Delphine Roussel, Carla Pagan, Manisha Sinha, Marion Russeau, Bertrand Mathon, Vincent Navarro, Jean Christophe Poncer
  1. Institut du Fer à Moulin, Inserm, Sorbonne Université, UMR-S 1270, Paris 75005, France
  2. Sorbonne Université, Institut du Cerveau Paris Brain Institute - ICM, Inserm, CNRS, Assistance Publique - Hôpitaux de Paris (AP-HP), Hôpital de la Pitié Salpêtrière, Paris 75013, France
  3. Department of Neuropathology, Assistance Publique - Hôpitaux de Paris (AP-HP), Hôpitaux Universitaires La Pitié Salpêtrière–Charles Foix, Paris 75013, France
  4. Department of Neurosurgery, Sainte-Anne Hospital, Paris 75014, France
  5. Assistance Publique - Hôpitaux de Paris (AP-HP), Department of Neurosurgery, Pitié-Salpêtrière Hospital, Paris 75013, France
  6. Assistance Publique - Hôpitaux de Paris (AP-HP), Epilepsy Unit, Reference Center for Rare Epilepsies, and Department of Clinical Neurophysiology, Pitié-Salpêtrière Hospital, Paris 75013, France
Institutions: Inserm (France); Sorbonne Université (France); Institut du Fer à Moulin (France); Centre National de la Recherche Scientifique (France); Assistance Publique – Hôpitaux de Paris (France); Pitié-Salpêtrière Hospital (France); Institut du Cerveau (France); Centre Hospitalier Sainte-Anne (France); Ste. Anne's Hospital (Canada)
Journal: Proceedings of the National Academy of Sciences of the United States of America, volume 123, issue 10, article e2522722123
Dates: received 19 August 2025; accepted 28 January 2026; published online 3 March 2026; in print 10 March 2026
Type: Research article · Language: English
License: CC BY-NC-ND
Identifiers: DOI 10.1073/pnas.2522722123 · PMID 41774803 · PMCID PMC12974483 · OpenAlex W7133331862
Open access: hybrid, a free copy (OpenAlex)
Status: code verified
Categories: human (organism), mouse (organism), epilepsy (population), cellular / molecular (subfield)
Methods: Statistics
Keywords: chloride transporter, neuropharmacology, hippocampus, resective brain tissue, animal models
MeSH: Epilepsy, Temporal Lobe*, Seizures*, Symporters*, Animals, Anticonvulsants, Disease Models, Animal, Humans, K Cl- Cotransporters, Male, Mice, Mice, Inbred C57BL, Neurons, Receptors, GABA-A (* major topic)
Journal subjects: Biological Sciences, Neuroscience
Topic: Neuroscience and Neuropharmacology Research (Cellular and Molecular Neuroscience, Neuroscience), according to OpenAlex
Funding: Fondation pour la Recherche Médicale (Foundation for Medical Research in France) (FDT202106013286, DEQ20140329539); Agence Nationale de la Recherche (French National Research Agency) (ANR-16-NEU3-0006-02, ANR-11-LABX-0035)
Citations: cited by 3 papers (Europe PMC); 88 references in the paper

Abstract

The abstract is not reproduced here: the paper's license (CC BY-NC-ND) does not allow it. Read it in the paper, at the publisher or on Europe PMC.

Repository

Its files are read in the Code ↔ Paper reader above.

jcponcer/poncerlab

License: GPL-3.0
State: the link answers, verified on 30 September 2026
Evidence: files inventoried
Commit: 24a204da94162ade898d91c32d727de1c0fde5db, 17 February 2026
Languages: MATLAB (17)
Size: 21 files, 17 scripts
Software Heritage: not archived
Found in: the references
Holds: license file
Not found: README, CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Signal Processing Toolbox (3 files)
Availability: 1 check, the latest on 30 September 2026: the link answers
  • 30 September 2026: the link answers
18 files
At the source: github.com/jcponcer/PoncerLab/tree/main/Donneger_2026

The paper's code and data availability statement is in the Data section.

Tracing map

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  • 17 scripts, each with its path and the digest of its content;
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Data

Datasets cited

Code and data availability statement

The paper has a code and data availability statement. Its license (CC BY-NC-ND) does not allow reproducing it here; in short, from what the harvester recognized in it:

  • it points to a dataset: Zenodo 18668820
  • it says that the data are available on request

Read it in the paper: doi.org/10.1073/pnas.2522722123.

Versions

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Version 1, 30 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 15 authors, 5 keywords, 13 MeSH terms, 2 funders, 87 references.

Cite

This paper

Donneger, F., Zanin, A., Besson, J., Roussel, D., Kadiri, Y., Pagan, C., Sinha, M., David, N., Russeau, M., Bielle, F., Devaux, B., Mathon, B., Navarro, V., Chassoux, F., & Poncer, J. C. (2026). Enhancing KCC2 function reduces interictal activity and prevents seizures in temporal lobe epilepsy. Proceedings of the National Academy of Sciences of the United States of America, 123(10), e2522722123. https://doi.org/10.1073/pnas.2522722123

BibTeX

@article{donneger2026enhancing,
author = {Donneger, Florian and Zanin, Adrien and Besson, Jeremy and Roussel, Delphine and Kadiri, Yoness and Pagan, Carla and Sinha, Manisha and David, Nicolas and Russeau, Marion and Bielle, Franck and Devaux, Bertrand and Mathon, Bertrand and Navarro, Vincent and Chassoux, Francine and Poncer, Jean Christophe},
title = {{Enhancing KCC2 function reduces interictal activity and prevents seizures in temporal lobe epilepsy}},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
year = {2026},
month = mar,
volume = {123},
number = {10},
pages = {e2522722123},
publisher = {National Academy of Sciences},
issn = {0027-8424},
doi = {10.1073/pnas.2522722123},
url = {https://doi.org/10.1073/pnas.2522722123},
pmid = {41774803},
pmcid = {PMC12974483}
}

RIS

TY - JOUR
AU - Donneger, Florian
AU - Zanin, Adrien
AU - Besson, Jeremy
AU - Roussel, Delphine
AU - Kadiri, Yoness
AU - Pagan, Carla
AU - Sinha, Manisha
AU - David, Nicolas
AU - Russeau, Marion
AU - Bielle, Franck
AU - Devaux, Bertrand
AU - Mathon, Bertrand
AU - Navarro, Vincent
AU - Chassoux, Francine
AU - Poncer, Jean Christophe
TI - Enhancing KCC2 function reduces interictal activity and prevents seizures in temporal lobe epilepsy
T2 - Proceedings of the National Academy of Sciences of the United States of America
J2 - Proc Natl Acad Sci U S A
PY - 2026
DA - 2026/03/03
VL - 123
IS - 10
SP - e2522722123
SN - 0027-8424
PB - National Academy of Sciences
DO - 10.1073/pnas.2522722123
UR - https://doi.org/10.1073/pnas.2522722123
LA - en
ER -

CSL-JSON

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