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Divergent BLA engram circuits orchestrate social preference dynamics in bystander male mice with self-experienced stress.

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Paper

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The authors' code

MATLAB · 94 lines · 2.6 KB · no license

  1. %input filename, output 3 figure,the Gcamp mean for different position, and mouse motive track,and
  2. %track hearmap.
  3. %data(:,1) and data(:,2) are x and y corrdinary of mice,data(:,3) is Gcamp
  4. %CWQ,190618
  5. %eg. filename='1.csv'
  6. file=dir('*.csv')
  7. for i=1:length(file)
  8. filename=file(i).name;
  9. data=importdata(filename);
  10. %data=data.Sheet1;
  11. n=strfind(filename,'.');
  12. fn=filename(1:n-1);
  13. d(:,1)=data(:,1);
  14. d(:,2)=data(:,2);
  15. udata=unique(d,'rows');
  16. xa=max(data(:,1));
  17. xb=min(data(:,1));
  18. ya=max(data(:,2));
  19. yb=min(data(:,2));
  20. x=xa-xb+2;
  21. y=ya-yb+2;
  22. h=zeros(x,y);
  23. f=zeros(x,y);
  24. for ii=1:length(udata)
  25. M=udata(ii,1);
  26. N=udata(ii,2);
  27. [a]=find(data(:,1)==M & data(:,2)==N);%Ñ°ÕÒÏàͬ×ø±êλÖõÄÊýÁ¿£¬²¢½«Æä´¢´æÖÁÏàÓ¦µÄ×ø±êÇø
  28. n=length(a)/30;% ת»¯ÎªÊ±¼ä
  29. M=udata(ii,1)-xb+1;
  30. N=udata(ii,2)-yb+1;
  31. temp=data([a],3);
  32. gcamp=mean(temp);
  33. udata(ii,3)=gcamp;
  34. h(M,N)=gcamp;
  35. f(M,N)=n;
  36. [b]=find(f==0);
  37. f([b])=nan;
  38. h([b])=nan;%½«¶¯Îïδµ½´ïµÄµØ·½ÉèÖÃΪNAN
  39. end
  40. temp=h';
  41. %h=smoothdata(temp,1,'gaussian',4);;%¸ß˹ƽ»¬
  42. %h=smoothdata(h,2,'gaussian',4)
  43. h=temp;
  44. figure
  45. set(gcf,'position',[100,100,500,450]);
  46. set(gcf,'name','Gcamp');
  47. H=heatmap(h);
  48. H.Colormap=jet;
  49. H.ColorScaling='log'
  50. H.GridVisible='off'
  51. %H.MissingDataLabel=[0.00,0.00,0.00];
  52. %H.ColorLimits = [10e-5 10e-3]
  53. % for j=1:length(H.XDisplayLabels)
  54. % H.XDisplayLabels{j}=' ';
  55. % end
  56. % for j=1:length(H.YDisplayLabels)
  57. % H.YDisplayLabels{j}=' ';
  58. % end
  59. fn1=strcat(fn,'-Gcamp.fig');
  60. saveas(gcf,fn1)
  61. temp=f';
  62. f=temp;
  63. %f=smoothdata(temp,1,'gaussian',4);%¸ß˹ƽ»¬
  64. %f=smoothdata(f,2,'gaussian',4);
  65. figure
  66. set(gcf,'position',[100,100,500,450])
  67. set(gcf,'name','Track_heatmap')
  68. F=heatmap(f)
  69. F.Colormap=jet;
  70. F.ColorScaling='log'
  71. F.GridVisible='off'
  72. %F.MissingDataLabel=[0.00,0.00,0.00];
  73. %F.ColorLimits = [0.1 0.1]
  74. % for j=1:length(F.XDisplayLabels)
  75. % F.XDisplayLabels{j}=' ';
  76. % end
  77. % for j=1:length(F.YDisplayLabels)
  78. % F.YDisplayLabels{j}=' ';
  79. % end
  80. fn2=strcat(fn,'-Track_heatmap.fig');
  81. saveas(gcf,fn2);
  82. figure
  83. set(gcf,'position',[100,100,500,450])
  84. set(gcf,'name','Track')
  85. x=data(:,1);
  86. y=data(:,2);
  87. plot(x,y)
  88. set(gca,'YDir','reverse')
  89. axis off;
  90. fn3=strcat(fn,'-Track.fig');
  91. saveas(gcf,fn3)
  92. clear d data
  93. close all
  94. end

heatmapBehaviorGcamp.m at commit 8cb40db, no license · at the source

Overview

Authors: Xue-Ke Yang1, Yu-Long Shi1, Ming Li1, Tong-Xia Li1, Jian Yang1, Jie Lei1, Chi Cui1, Xiang Peng1, Hong-Chu Zha2, Gan-Gan Luo1, Yi-Bo Yao1, Si-Tong Chen1, Jun-Song Du1, Hui-Juan Wang1, Shi-Qi Xu2, Pei Zhang1, Bo Tian2
ORCID iDs: Pei Zhang
  1. Department of Neurobiology, School of Basic Medicine, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei 430000, People’s Republic of China
  2. Hubei Provincial Clinical Research Center for Alzheimer’s Disease, Brain Science and Advanced Technology Institute, Tianyou Hospital, School of Medicine, Wuhan University of Science and Technology, Wuhan, Hubei 430000, People’s Republic of China
Institutions: Huazhong University of Science and Technology (China); Wuhan University of Science and Technology (China)
Journal: Proceedings of the National Academy of Sciences of the United States of America, volume 123, issue 11, article e2516904123
Dates: received 27 June 2025; accepted 27 January 2026; published online 9 March 2026; in print 17 March 2026
Type: Research article · Language: English
License: CC BY-NC-ND
Identifiers: DOI 10.1073/pnas.2516904123 · PMID 41802055 · PMCID PMC12994165 · OpenAlex W7134841174
Open access: hybrid, a free copy (OpenAlex)
Status: code verified
Categories: mouse (organism), systems (subfield)
Keywords: self-experience, social preference dynamics, basolateral amygdala, engram cells, neural circuits
MeSH: Basolateral Nuclear Complex*, Social Behavior*, Stress, Psychological*, Animals, Behavior, Animal, Gyrus Cinguli, Hippocampus, Male, Mice, Mice, Inbred C57BL, Social Defeat (* major topic)
Topic: Memory and Neural Mechanisms (Cognitive Neuroscience, Neuroscience), according to OpenAlex
Funding: MOST | National Natural Science Foundation of China (32171023, 32271036, 32471034, 32571176, 31871073)
Citations: not cited yet (Europe PMC); 39 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.

BehavioralLAB/Fiberphotometry

License: none: the authors keep all their rights
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: 8cb40db2fa56bb3d1f9f57ca6dcb309a0e39d3a7, 16 December 2021
Languages: MATLAB (1)
Size: 1 file, 1 script
Software Heritage: not archived
Found in: “Data, Materials, and Software 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
  • 27 September 2026: the link answers
1 file
At the source: github.com/BehavioralLAB/Fiberphotometry

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:

  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 1 script, 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/10.1073/pnas.2516904123.

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, 30 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 17 authors, 5 keywords, 11 MeSH terms, 1 funder, 38 references.

Cite

This paper

Yang, X.-K., Shi, Y.-L., Li, M., Li, T.-X., Yang, J., Lei, J., Cui, C., Peng, X., Zha, H.-C., Luo, G.-G., Yao, Y.-B., Chen, S.-T., Du, J.-S., Wang, H.-J., Xu, S.-Q., Zhang, P., & Tian, B. (2026). Divergent BLA engram circuits orchestrate social preference dynamics in bystander male mice with self-experienced stress. Proceedings of the National Academy of Sciences of the United States of America, 123(11), e2516904123. https://doi.org/10.1073/pnas.2516904123

BibTeX

@article{yang2026divergent,
author = {Yang, Xue-Ke and Shi, Yu-Long and Li, Ming and Li, Tong-Xia and Yang, Jian and Lei, Jie and Cui, Chi and Peng, Xiang and Zha, Hong-Chu and Luo, Gan-Gan and Yao, Yi-Bo and Chen, Si-Tong and Du, Jun-Song and Wang, Hui-Juan and Xu, Shi-Qi and Zhang, Pei and Tian, Bo},
title = {{Divergent BLA engram circuits orchestrate social preference dynamics in bystander male mice with self-experienced stress}},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
year = {2026},
month = mar,
volume = {123},
number = {11},
pages = {e2516904123},
publisher = {National Academy of Sciences},
issn = {0027-8424},
doi = {10.1073/pnas.2516904123},
url = {https://doi.org/10.1073/pnas.2516904123},
pmid = {41802055},
pmcid = {PMC12994165}
}

RIS

TY - JOUR
AU - Yang, Xue-Ke
AU - Shi, Yu-Long
AU - Li, Ming
AU - Li, Tong-Xia
AU - Yang, Jian
AU - Lei, Jie
AU - Cui, Chi
AU - Peng, Xiang
AU - Zha, Hong-Chu
AU - Luo, Gan-Gan
AU - Yao, Yi-Bo
AU - Chen, Si-Tong
AU - Du, Jun-Song
AU - Wang, Hui-Juan
AU - Xu, Shi-Qi
AU - Zhang, Pei
AU - Tian, Bo
TI - Divergent BLA engram circuits orchestrate social preference dynamics in bystander male mice with self-experienced stress
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 - 2026/03/09
VL - 123
IS - 11
SP - e2516904123
SN - 0027-8424
PB - National Academy of Sciences
DO - 10.1073/pnas.2516904123
UR - https://doi.org/10.1073/pnas.2516904123
LA - en
ER -

CSL-JSON

{
"id": "10.1073/pnas.2516904123",
"type": "article-journal",
"title": "Divergent BLA engram circuits orchestrate social preference dynamics in bystander male mice with self-experienced stress",
"container-title": "Proceedings of the National Academy of Sciences of the United States of America",
"author": [
{
"family": "Yang",
"given": "Xue-Ke"
},
{
"family": "Shi",
"given": "Yu-Long"
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{
"family": "Li",
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},
{
"family": "Li",
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},
{
"family": "Yang",
"given": "Jian"
},
{
"family": "Lei",
"given": "Jie"
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{
"family": "Cui",
"given": "Chi"
},
{
"family": "Peng",
"given": "Xiang"
},
{
"family": "Zha",
"given": "Hong-Chu"
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{
"family": "Luo",
"given": "Gan-Gan"
},
{
"family": "Yao",
"given": "Yi-Bo"
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{
"family": "Chen",
"given": "Si-Tong"
},
{
"family": "Du",
"given": "Jun-Song"
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{
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{
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{
"family": "Zhang",
"given": "Pei"
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{
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}
],
"container-title-short": "Proc Natl Acad Sci U S A",
"volume": "123",
"issue": "11",
"page": "e2516904123",
"DOI": "10.1073/pnas.2516904123",
"PMID": "41802055",
"PMCID": "PMC12994165",
"ISSN": "0027-8424",
"publisher": "National Academy of Sciences",
"URL": "https://doi.org/10.1073/pnas.2516904123",
"language": "en",
"issued": {
"date-parts": [
[
2026,
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9
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]
}
}

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