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Distributed neural codes of the 3D position in the marmoset frontal cortex and hippocampus.

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Paper

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The authors' code

MATLAB · 84 lines · 1.9 KB · no license

  1. clear
  2. clc
  3. close all
  5. load('Fig1B.mat')
  7. speed=sqrt(sum(speed.*speed,2)); %(mm/s)
  8. speed=smoothdata(speed,'gaussian',5);
  9. temp=sqrt(sum(facedirection(:,1:2).*facedirection(:,1:2),2));
  10. pich=atan2(facedirection(:,3),temp)*180/3.1415926536; %degree
  11. facedirection=atan2(facedirection(:,2),facedirection(:,1))*180/3.1415926536; %degree
  13. isPFCcell=TPallVersion{1};
  14. PFC=[];
  15. for celli=isPFCcell
  17. unitename=unites{celli,2};
  18. temp=unites{celli,1};
  19. spikeatframe=[];
  20. for j=1:length(temp)
  21. [k,b]= min(abs(temp(j)-vediotime));
  22. if k<0.05
  23. spikeatframe=[spikeatframe,b];
  24. end
  25. end
  26. spiketrain=zeros(length(vediotime),1);
  27. for i=1:length(spikeatframe)
  28. spiketrain(spikeatframe(i))=spiketrain(spikeatframe(i))+1;
  29. end
  30. spiketrain= floor(smoothdata((spiketrain*15),'gaussian',15));
  31. PFC=[PFC,spiketrain];
  32. end
  34. isHPCcell=TPallVersion{3};
  35. HPC=[];
  36. for celli=isHPCcell
  37. unitename=unites{celli,2};
  38. temp=unites{celli,1};
  39. spikeatframe=[];
  40. for j=1:length(temp)
  41. [k,b]= min(abs(temp(j)-vediotime));
  42. if k<0.05
  43. spikeatframe=[spikeatframe,b];
  44. end
  45. end
  46. spiketrain=zeros(length(vediotime),1);
  47. for i=1:length(spikeatframe)
  48. spiketrain(spikeatframe(i))=spiketrain(spikeatframe(i))+1;
  49. end
  50. spiketrain= floor(smoothdata((spiketrain*15),'gaussian',15));
  51. HPC=[HPC,spiketrain];
  52. end
  54. CurrentPSD=[pred,speed,facedirection,pich];
  55. reservedCurrentPSD=CurrentPSD;
  60. k=[27181:27231];
  61. %close all
  62. figure('Position',[300,300,900,100])
  64. subplot(141)
  65. plot3(CurrentPSD(k,1),CurrentPSD(k,2),CurrentPSD(k,3))
  66. xlim([0 1500]);ylim([0 1500]);zlim([0 750]);
  67. xticks([]);yticks([]);zticks([]);
  68. daspect([1 1 1]);
  70. subplot(142)
  71. plot(CurrentPSD(k,4))
  72. ylim([0 1600])
  73. yticks([0 800 1600])
  75. subplot(143)
  76. plot(CurrentPSD(k,5))
  77. ylim([-180 180])
  78. yticks([-180 0 180])
  80. subplot(144)
  81. plot(CurrentPSD(k,6))
  82. ylim([-90 90])
  83. yticks([-90 0 90])

Fig1B.m at commit 961246f, no license · at the source

Overview

Authors: Chuanyao Felix Wei1,2, Jiankang Xi1,2, Jingyi Xie1,2, Xiaojia Zhu1,2,3, Haotian Yan1,2,3, Xin Wang1, Zhengtuo Zhao1,2, Cirong Liu1,2,4,5, Chun Xu1,2,6,7
ORCID iDs: Jiankang Xi, Zhengtuo Zhao, Cirong Liu, Chun Xu
  1. Institute of Neuroscience, Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences,Shanghai, China
  2. University of Chinese Academy of Sciences,Beijing, China
  3. Kunming Institute of Zoology, Chinese Academy of Sciences,Kunming, China
  4. State Key Laboratory of Genetic Evolution & Animal Models, Shanghai, China
  5. Shanghai Key Laboratory of Child Brain and Development, Shanghai, China
  6. China-Hungary Brain Science Belt-and-Road Joint Laboratory, Shanghai, China
  7. State Key Laboratory of Brain Cognition and Brain-inspired Intelligence Technology, Shanghai, China
Institutions: Chinese Academy of Sciences (China); University of Chinese Academy of Sciences (China)
Journal: Nature communications, volume 17, issue 1, article 6464
Dates: received 24 April 2025; accepted 5 May 2026; published online 15 May 2026
Type: Research article · Language: English
License: CC BY-NC-ND
Identifiers: DOI 10.1038/s41467-026-73263-1 · PMID 42140983 · PMCID PMC13376620 · OpenAlex W7161248254
Open access: gold, a free copy (OpenAlex)
Status: code verified
Categories: non-human primate (organism), systems (subfield)
Methods: Statistics, Smoothing, state filtering, decompositions, Connectivity, Machine learning, Single-unit activity, calcium imaging
Keywords: Hippocampus, Perception
MeSH: Callithrix*, Frontal Lobe*, Hippocampus*, Animals, Autoencoder, Female, Male, Models, Neurological, Nerve Net, Neurons, Place Cells, Recurrent Neural Networks, Spatial Navigation (* major topic)
Topic: Memory and Neural Mechanisms (Cognitive Neuroscience, Neuroscience), according to OpenAlex
Funding: This work was supported by National Science and Technology Innovation 2030 Major Program (2022ZD0205000), National Natural Science Foundation of China (32530046 to X.C., 32427802 and W2512020 to C.L.), CAS Project for Young Scientists in Basic Research (YSBR-116 to X.C.), the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB1010000 to X.C.), Lingang Lab (LG-TKN-202204-01 to X.C. and LGL-6672-08 to C.L.) and the China Postdoctoral Science Foundation (2025M782821 to W.F.C.)
Citations: not cited yet (Europe PMC); 57 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.

XuChunLab/Marmoset3D

License: none: the authors keep all their rights
State: the link answers, verified on 28 September 2026
Evidence: files inventoried
Commit: 961246fc413c18774fe200f7fad319367a40c716, 29 April 2026
Languages: MATLAB (45)
Size: 111 files, 45 scripts
Software Heritage: not archived
Found in: “Data availability”
Holds: README
Not found: license file, CITATION.cff, environment file, tests, continuous integration, documentation
Tools: Statistics and Machine Learning Toolbox (29 files), Image Processing Toolbox (4 files), Violinplot-Matlab (4 files)
Availability: 1 check, the latest on 28 September 2026: the link answers
  • 28 September 2026: the link answers
46 files
At the source: github.com/XuChunLab/Marmoset3D

Code availability statement

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

Read it in the paper: doi.org/10.1038/s41467-026-73263-1.

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:

  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 45 scripts, each with its path and the digest of its content;
  • no match between paragraphs and code yet;
  • 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.

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:

Read it in the paper: doi.org/10.1038/s41467-026-73263-1.

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, 28 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 9 authors, 2 keywords, 13 MeSH terms, 1 funder, 56 references.

Cite

This paper

Wei, C. F., Xi, J., Xie, J., Zhu, X., Yan, H., Wang, X., Zhao, Z., Liu, C., & Xu, C. (2026). Distributed neural codes of the 3D position in the marmoset frontal cortex and hippocampus. Nature communications, 17(1), 6464. https://doi.org/10.1038/s41467-026-73263-1

BibTeX

@article{wei2026distributed,
author = {Wei, Chuanyao Felix and Xi, Jiankang and Xie, Jingyi and Zhu, Xiaojia and Yan, Haotian and Wang, Xin and Zhao, Zhengtuo and Liu, Cirong and Xu, Chun},
title = {{Distributed neural codes of the 3D position in the marmoset frontal cortex and hippocampus}},
journal = {Nature communications},
year = {2026},
month = may,
volume = {17},
number = {1},
pages = {6464},
publisher = {Nature Publishing Group},
issn = {2041-1723},
doi = {10.1038/s41467-026-73263-1},
url = {https://doi.org/10.1038/s41467-026-73263-1},
pmid = {42140983},
pmcid = {PMC13376620}
}

RIS

TY - JOUR
AU - Wei, Chuanyao Felix
AU - Xi, Jiankang
AU - Xie, Jingyi
AU - Zhu, Xiaojia
AU - Yan, Haotian
AU - Wang, Xin
AU - Zhao, Zhengtuo
AU - Liu, Cirong
AU - Xu, Chun
TI - Distributed neural codes of the 3D position in the marmoset frontal cortex and hippocampus
T2 - Nature communications
J2 - Nat Commun
PY - 2026
DA - 2026/05/15
VL - 17
IS - 1
SP - 6464
SN - 2041-1723
PB - Nature Publishing Group
DO - 10.1038/s41467-026-73263-1
UR - https://doi.org/10.1038/s41467-026-73263-1
LA - en
ER -

CSL-JSON

{
"id": "10.1038/s41467-026-73263-1",
"type": "article-journal",
"title": "Distributed neural codes of the 3D position in the marmoset frontal cortex and hippocampus",
"container-title": "Nature communications",
"author": [
{
"family": "Wei",
"given": "Chuanyao Felix"
},
{
"family": "Xi",
"given": "Jiankang"
},
{
"family": "Xie",
"given": "Jingyi"
},
{
"family": "Zhu",
"given": "Xiaojia"
},
{
"family": "Yan",
"given": "Haotian"
},
{
"family": "Wang",
"given": "Xin"
},
{
"family": "Zhao",
"given": "Zhengtuo"
},
{
"family": "Liu",
"given": "Cirong"
},
{
"family": "Xu",
"given": "Chun"
}
],
"container-title-short": "Nat Commun",
"volume": "17",
"issue": "1",
"page": "6464",
"DOI": "10.1038/s41467-026-73263-1",
"PMID": "42140983",
"PMCID": "PMC13376620",
"ISSN": "2041-1723",
"publisher": "Nature Publishing Group",
"URL": "https://doi.org/10.1038/s41467-026-73263-1",
"language": "en",
"issued": {
"date-parts": [
[
2026,
5,
15
]
]
}
}

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