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Mitotic Cdc42 waves encode PI(3,4)P<sub>2</sub> signaling and Golgi morphological state to control spindle scaling.

Code ↔ Paper

6 matches between paragraphs of the paper and lines of its authors' code, computed by the harvester (lexical-v1). Click a colored paragraph or line to see its counterpart.

The 6 matches · 2 of them tie a paragraph to a whole file, not to given lines: weak matches, whose lines are not tinted
  1. [1] § MATERIALS AND METHODS › Wave analysis › Wavelet analysis ↔ src/OS_wavelet_v3_yPeriod.m, the whole file · a weak match · score 0.68 · wavelet power, CWT, minutes, jet, log, transform
  2. [2] § MATERIALS AND METHODS › Wave analysis › Fourier transform ↔ src/OS_fft.m, lines 49–58 · score 0.60 · spectral leakage, Hanning, filtering, FFT, signals, ROI
  3. [3] § MATERIALS AND METHODS › Identification of cell cycle stages ↔ src/OS_fft.m, lines 1–27 · score 0.53 · fast Fourier transform, FFT
  4. [4] § MATERIALS AND METHODS › Monopolar spindle sample preparation, super-resolution imaging, and quantification ↔ Fig 3HI code/panoraa_projection.ipynb, lines 267–332 · score 0.51 · panorama projection, cylindrical, thickness, radial, positions, spindle
  5. [5] § MATERIALS AND METHODS › Monopolar spindle sample preparation, super-resolution imaging, and quantification ↔ Fig 3HI code/alpha_tubulin_radial_density_profile.ipynb, lines 6–59 · score 0.51 · tubulin radial density, density profile, spindle
  6. [6] § MATERIALS AND METHODS › Wave analysis › Fourier transform ↔ src/OS_wavelet_v3_yPeriod.m, the whole file · a weak match · score 0.50 · power spectra, transform, MATLAB, Oscillation, ROI, profile

Paper

Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC

The paper is loaded when this pane is shown.

The authors' code

MATLAB · 60 lines · 1.9 KB · MIT · 2 matches

  1. function OS_wavelet_v3_yPeriod(ROI_profile,name,timeinterval)
  2. % =========================================================================
  3. % Performs a wavlet transform and plots the power spectrum of the period
  4. % over time.
  5. %
  6. % ------
  7. % @param ROI_profile: time series array of ROI intensities
  8. % @param name: name of experiment and ROI number
  9. % @param timeinterval: image stack acquisition time interval (in seconds)
  10. %
  11. % @version 2023/02/26 XJ
  12. % added documentation and comments; improved style and readability;
  13. % removed redundancies
  14. %
  15. % @log
  16. % 22/4/9 MW: version 3 written as function OS_wavelet_v3_yPeriod.m
  17. % 19/8/14 MW: to test wavelet analysis with long-term oscillation data
  18. %
  19. % ------
  20. % All rights and permissions belong to
  21. % Wu Lab, Yale University
  22. % February 26, 2023
  23. % =========================================================================
  25. %% Initialization
  26. X=ROI_profile(~isnan(ROI_profile));
  27. ll=length(X);
  28. time=timeinterval:timeinterval:ll*timeinterval;
  29. % directory for saving plots
  30. savedir = [cd '/0analysis'];
  31. warning off MATLAB:MKDIR:DirectoryExists
  32. warning('off', 'Images:initSize:adjustingMag');
  33. mkdir(savedir);
  35. %% Plot trace with wavelet power spectrum
  36. % cwt() returns the scale-to-frequency conversions f in hertz
  37. % cfs here has been converted to cycles/min
  38. % sampling frequency is acquisition interval converted to cycles/min
  39. [cfs, period] = cwt(X, minutes(timeinterval/60));
  40. figure
  41. subplot(2,1,1)
  42. plot(time/60,X)
  43. axis tight
  44. xlabel('Time (min)')
  45. ylabel('Amplitude')
  46. subplot(2,1,2)
  47. surface(time/60,period,abs(cfs))
  48. axis tight
  49. ylim([minutes(0.11) minutes(5)])
  50. shading flat
  51. colormap jet;
  52. xlabel('Time (min)')
  53. ylabel('Period (min)')
  54. % save figure
  55. cd(savedir);
  56. % print('-depsc','-r150', [name '_wavelet.eps']);
  57. saveas(gca, [name '_wavelet.png']);
  58. cd('..');
  60. close all

OS_wavelet_v3_yPeriod.m at commit f37490c, under MIT · at the source

Overview

Authors: Suet Yin Sarah Fung1, Shengping Xiao2, Yujin Bao1,3, Morven Graham1, Maohan Su1, Xinran Liu1, Joerg Bewersdorf1,4, Min Wu1
ORCID iDs: Suet Yin Sarah Fung, Shengping Xiao, Yujin Bao, Morven Graham, Maohan Su, Xinran Liu, Joerg Bewersdorf, Min Wu
  1. Department of Cell Biology, Yale University School of Medicine, New Haven, CT, USA
  2. Centre for Bioimaging Sciences, National University of Singapore, Singapore, Singapore
  3. Department of Applied Physics, Yale University, New Haven, CT, USA
  4. Department of Biomedical Engineering, Yale University, New Haven, CT, USA
Institutions: Yale University (United States); National University of Singapore (Singapore)
Journal: Science advances, volume 12, issue 25, article eaec7705
Dates: received 1 October 2025; accepted 8 May 2026; published online 19 June 2026; in print June 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1126/sciadv.aec7705 · PMID 42319936 · PMCID PMC13281794 · OpenAlex W7165405424
Open access: gold, a free copy (OpenAlex)
Status: code verified
Categories: human (organism), cellular / molecular (subfield)
Methods: Spectral & time-frequency, Machine learning, Preprocessing, Evoked potentials, fMRI & imaging
MeSH: Golgi Apparatus*, Mitosis*, Phosphatidylinositol Phosphates*, Signal Transduction*, Spindle Apparatus*, Cell Membrane, Humans, Phosphoric Monoester Hydrolases (* major topic)
Topic: Microtubule and mitosis dynamics (Cell Biology, Biochemistry, Genetics and Molecular Biology), according to OpenAlex
Funding: NIGMS NIH HHS (R01 GM151344)
Citations: cited by 1 paper (Europe PMC); 118 references in the paper
Research resources: RBL-2H3 cell RRID:CVCL_0591

Abstract

Self-organizing waves are observed in numerous biological systems and may encode spatial and temporal information for cellular organization in the absence of prepatterns. In mitotic mast cells, periodic cortical waves emerge before spindle assembly with wave periods that are proportional to cell size. Here, we investigate the mechanisms that govern cortical wave scaling and examine the consequence of wave perturbation on mitotic spindle size scaling. We find that the periods of mitotic waves are regulated by the turnover of phosphatidylinositol 3,4-bisphosphate [PI(3,4)P2] on the plasma membrane, which depends on inositol polyphosphate-4-phosphatase type II (INPP4B). Genetic depletion of INPP4B increases cortical wave period and spindle length. Intriguingly, we observed mitotic wave periods that tunes continuously during mitosis, indicating the existence of a fast, posttranslational regulatory mechanism for wave scaling. We further find that the regulation of mitotic waves on the plasma membrane is controlled by the sequestering of INPP4B and PI(3,4)P2 upon mitotic Golgi fragmentation. On the basis of these findings, we propose a cell size–sensing mechanism in which cortical waves act like sonar waves, adjusting their timing and propagation based on the shuttling of signaling proteins between the cell cortex and intracellular organelles. This rapid communication scheme allows the cell to adjust spindle scaling dynamically, ensuring accurate cell division.

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 6 matches between paragraphs and lines of code.

min-wu-lab

License: none: the authors keep all their rights
State: the link answers, verified on 27 September 2026
Evidence: the link answers
Software Heritage: not checked
Found in: “Data, code, and materials availability:”
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Availability: 1 check, the latest on 27 September 2026: the link answers (HTTP 200)
  • 27 September 2026: the link answers (HTTP 200)
At the source: github.com/min-wu-lab

min-wu-lab/2023-Tong-et-al

License: MIT
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: f37490c2c29eb5d07f3469dceb1ef06d22f7eea2, 13 March 2024
Languages: MATLAB (10)
Size: 13 files, 10 scripts
Software Heritage: not archived
Found in: “Data, code, and materials availability:”
Holds: README, license file
Not found: CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Signal Processing Toolbox (2 files), Wavelet Toolbox (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
12 files
At the source: github.com/min-wu-lab/2023-Tong-et-al

min-wu-lab/2026-Fung-et-al

License: none: the authors keep all their rights
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: fafc84dcdfa1063571bf4b994129cd6988144ce4, 27 February 2026
Languages: Jupyter (2)
Size: 11 files, 2 scripts
Software Heritage: not archived
Found in: “Data, code, and materials availability:”
Holds: 2 notebooks
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Matplotlib (2 files), NumPy (2 files)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
2 files, not copied: shown from their source

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At the source: github.com/min-wu-lab/2026-Fung-et-al

doi:10.5061/dryad.cfxpnvxn7

License: none: the authors keep all their rights
State: the link answers, verified on 27 September 2026
Evidence: the link answers
Software Heritage: not checked
Found in: “Data, code, and materials availability:”
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Availability: 1 check, the latest on 27 September 2026: the link answers (HTTP 200)
  • 27 September 2026: the link answers (HTTP 200)
At the source: doi.org/10.5061/dryad.cfxpnvxn7

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

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

What the map holds:

  • 4 repositories of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 12 scripts, each with its path and the digest of its content;
  • 6 matches between paragraphs of the paper and lines of the code (method lexical-v1);
  • neither the text of the paper nor the code itself.

Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.

Data

No dataset and no data link were found in the paper.

Data, code, and materials availability

All data and code needed to evaluate and reproduce the conclusions in the paper are present in the paper and/or the Supplementary Materials. All source data are provided with this paper. The newly generated cell lines and plasmids in this study are described in Materials and Methods and are available from the corresponding author upon reasonable request. Requests for materials should be directed to the corresponding author: . The data and MATLAB code used to generate the figures have been deposited in a permanent, publicly accessible repository at Dryad (https://doi.org/10.5061/dryad.cfxpnvxn7). The MATLAB codes used to generate figures are also publicly available on GitHub (https://github.com/min-wu-lab, including https://github.com/min-wu-lab/2023-Tong-et-al and https://github.com/min-wu-lab/2026-Fung-et-al) and are provided as an additional resource.

Reproduced under the paper's license (CC BY), from the paper cited above.

Versions

The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 8 authors, 8 MeSH terms, 1 funder, 117 references, 1 RRID.

Cite

This paper

Fung, S. Y. S., Xiao, S., Bao, Y., Graham, M., Su, M., Liu, X., Bewersdorf, J., & Wu, M. (2026). Mitotic Cdc42 waves encode PI(3,4)P<sub>2</sub> signaling and Golgi morphological state to control spindle scaling. Science advances, 12(25), eaec7705. https://doi.org/10.1126/sciadv.aec7705

BibTeX

@article{fung2026mitotic,
author = {Fung, Suet Yin Sarah and Xiao, Shengping and Bao, Yujin and Graham, Morven and Su, Maohan and Liu, Xinran and Bewersdorf, Joerg and Wu, Min},
title = {{Mitotic Cdc42 waves encode PI(3,4)P\<sub\>2\</sub\> signaling and Golgi morphological state to control spindle scaling}},
journal = {Science advances},
year = {2026},
month = jun,
volume = {12},
number = {25},
pages = {eaec7705},
publisher = {American Association for the Advancement of Science},
issn = {2375-2548},
doi = {10.1126/sciadv.aec7705},
url = {https://doi.org/10.1126/sciadv.aec7705},
pmid = {42319936},
pmcid = {PMC13281794}
}

RIS

TY - JOUR
AU - Fung, Suet Yin Sarah
AU - Xiao, Shengping
AU - Bao, Yujin
AU - Graham, Morven
AU - Su, Maohan
AU - Liu, Xinran
AU - Bewersdorf, Joerg
AU - Wu, Min
TI - Mitotic Cdc42 waves encode PI(3,4)P<sub>2</sub> signaling and Golgi morphological state to control spindle scaling
T2 - Science advances
J2 - Sci Adv
PY - 2026
DA - 2026/06/19
VL - 12
IS - 25
SP - eaec7705
SN - 2375-2548
PB - American Association for the Advancement of Science
DO - 10.1126/sciadv.aec7705
UR - https://doi.org/10.1126/sciadv.aec7705
LA - en
ER -

CSL-JSON

{
"id": "10.1126/sciadv.aec7705",
"type": "article-journal",
"title": "Mitotic Cdc42 waves encode PI(3,4)P<sub>2</sub> signaling and Golgi morphological state to control spindle scaling",
"container-title": "Science advances",
"author": [
{
"family": "Fung",
"given": "Suet Yin Sarah"
},
{
"family": "Xiao",
"given": "Shengping"
},
{
"family": "Bao",
"given": "Yujin"
},
{
"family": "Graham",
"given": "Morven"
},
{
"family": "Su",
"given": "Maohan"
},
{
"family": "Liu",
"given": "Xinran"
},
{
"family": "Bewersdorf",
"given": "Joerg"
},
{
"family": "Wu",
"given": "Min"
}
],
"container-title-short": "Sci Adv",
"volume": "12",
"issue": "25",
"page": "eaec7705",
"DOI": "10.1126/sciadv.aec7705",
"PMID": "42319936",
"PMCID": "PMC13281794",
"ISSN": "2375-2548",
"publisher": "American Association for the Advancement of Science",
"URL": "https://doi.org/10.1126/sciadv.aec7705",
"language": "en",
"issued": {
"date-parts": [
[
2026,
6,
19
]
]
}
}

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