Datasets:

cyd0806
/

neuronmimic-data

@@ -87,3 +87,10 @@ wu_20261105_drive_recurrence/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
 wu_20261106_temporal_robustness/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
 wu_20261107_temporal_replicates_20261107/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
 wu_20261106_evidence_synthesis/manuscript.pdf filter=lfs diff=lfs merge=lfs -text

 wu_20261106_temporal_robustness/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
 wu_20261107_temporal_replicates_20261107/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
 wu_20261106_evidence_synthesis/manuscript.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/briefing.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/briefing.pptx filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/figures/ExtendedData5.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/figures/ExtendedData6.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/figures/ExtendedData7.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/figures/Figure1.pdf filter=lfs diff=lfs merge=lfs -text
+wu_20261107_paper_figures/manuscript.pdf filter=lfs diff=lfs merge=lfs -text

wu_20261107_paper_figures/METHODS_RESULTS_zh.md ADDED Viewed

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+# 当前方法与结论：结构—循环—时序—生理
+我们现在回答的是：同一真实结构的网络，其输入整合如何受循环增益和时间组织共同塑造。文章按研究论文组织，围绕这个问题呈现结果，不再按任务轮次堆叠进度。
+方法保留5,177个KC的胞体/骨架、突触位置、方向及伙伴身份，结合条件空模型和两脑结构预测；网络使用原32个KC、两个真实MBON14、1,926个循环接点和144个输出接点。外部和循环电导独立控制，时序分析固定接点、权重及每接点18次事件；以操作性波形、平均电压、潜伏期和连续轨迹表征输出。公开生理比较以Fly-ID作评价单位，训练来源和留出来源分开。
+最核心的结果是：
+1. 在固定外部输入1 nS时，循环电导从0.1升到1 nS，使A条件响应由1个KC/18次波形扩大到32个KC/559次波形。
+2. 相同事件预算下，三种抖动时序的ABC减逐细胞最强单输入计数差依次为+27、+29、−29。时间安排改变了混合比较的方向；成簇时序还使V/L由静默变为响应。
+3. 每一时序内部，32个细胞共享一个二值支持集；连续轨迹仍有差异，第一共享模式占约95.5%能量。
+4. 结构联合特征的表面预测增益主要被区域/分支条件统计复现；两脑预测未表现出稳定联合优势。
+5. 公开生理全部作者QC判定重建一致。固定模型/经验基线全7留出误差为35.216/32.723 mV，通过QC的4留出为15.820/14.192 mV。
+这些结果把结构分类、响应范围和生理迁移拆解成可以直接检验的问题。原32/15/14及未解释14保留；模型条件和细胞不充当独立动物样本。下一步聚焦跨接点独立异步输入、时序配对细化，以及标签与电流校准明确的公开确认数据。
+本轮交付21页英文稿、五张复合主图/21子图、十张扩展图、10页中文汇报、原创脑与回路SVG、全部紧凑源表、图代码及已独立编译的Overleaf包。论文没有以“半成品实验”的方式组织；对证据范围的必要限定集中在方法和对应图注。本轮为论文与图版重组，不新增模拟、动物或湿实验。

wu_20261107_paper_figures/README.md ADDED Viewed

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+# Structure-to-dynamics article and vector figures — 7 November 2026
+The article follows one physical substrate from structural representation to recurrent recruitment, timing-dependent mixture responses, continuous heterogeneity and public physiological transfer. It reuses sealed scientific outputs and introduces a complete paper, five new composite main figures (21 panels), source data, original editable brain/circuit illustrations and an accompanying ten-slide briefing.
+- [Article PDF](exports/manuscript.pdf), [English source](manuscript/article.md), [LaTeX](manuscript/main.tex), [separate bibliography](manuscript/references.bib), [Overleaf ZIP](exports/overleaf_submission.zip).
+- [Chinese PPT](exports/吴老师汇报_结构与时序整合_20261107.pptx), [PDF](exports/吴老师汇报_结构与时序整合_20261107.pdf).
+- [Original brain SVG](assets/mushroom_body.svg), [circuit SVG](assets/synapse_circuit.svg), [five main SVG/PDF figures](figures/).
+- [Current findings](当前方法与结论.md), [source tables](source_data/), [provenance](metadata/figure_provenance.json), [checks](validation/), [publication receipt](metadata/publication_receipt.json).
+## Paper and figure design
+Figure 1 links conceptual brain location, measured skeletons/endpoints and the structural benchmark. Figure 2 separates external drive from recurrence. Figure 3 places the fixed-event timing design beside population maps and signed within-cell mixture contrasts. Figure 4 connects the common mode to continuous differences and observed numerical changes. Figure 5 combines physiological design, paired Fly-ID errors and author-QC reconstruction.
+The five main figures are original SVG compositions, not matplotlib exports or flattened screenshots. Every main SVG contains editable text, paths and shapes; there are no embedded raster images. All 32 measured skeletons are included. Concept diagrams are explicitly labelled schematic; measured XZ geometry has its own physical scale. The two original illustrative SVG assets and patch-clamp drawing were authored for this project. No Nature/BioRender illustration was copied. The style-study sources and borrowing limits are documented in `references/DESIGN_SOURCES.md`.
+The manuscript uses a discovery-led abstract, a continuous Results argument, a compact Discussion, detailed Methods, nine verified references and ten retained Extended Data figures. Necessary scope and numerical qualifications appear at the relevant result and in Methods rather than as repeated status disclaimers. The manuscript does not infer authorship, affiliations, subtype physiology, natural stimulus validation or new biological replicates.
+## Reproduce
+Use Python 3.11 with the recorded package versions; LaTeX/pdfLaTeX + BibTeX and LibreOffice are used for paper and slide rendering. From the workspace root:
+```bash
+.venv_fine_structure/bin/python projects/wu_20261107_paper_figures/code/build_figures.py
+.venv_fine_structure/bin/python projects/wu_20261107_paper_figures/code/build_paper.py
+.venv_fine_structure/bin/python projects/wu_20261107_paper_figures/code/build_slides.py
+.venv_fine_structure/bin/python projects/wu_20261107_paper_figures/code/verify_release.py
+```
+`build_figures.py` needs only this project's compact source data and original assets. `build_paper.py` uses the included Extended Data PDFs and verified reference metadata if the historical workspace is absent. The Overleaf ZIP is independently extracted and compiled, with page text checked against the working PDF. `prepare_inputs.py` is the optional original-workspace retrieval step, not a required replay step. This paper revision adds no simulations or animals. The historical correction remains in `wu_20261106_evidence_synthesis/CORRECTION_LEDGER.md` and the linked immutable source release.
+## Data and code update
+Code is published on `ydchen0806/bio_fly_cyber_lateralization`, branch `research/wu-structure-function-20261104`. Data, all SVG/PDF artwork, manuscript, slides and the compiling Overleaf ZIP use the additive dataset prefix `wu_20261107_paper_figures` in `cyd0806/neuronmimic-data`. Publication commits and remote identity/hash checks are recorded in the receipt. Prior source and simulation objects retain their immutable revisions and original third-party terms; no blanket third-party licence is assigned.

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wu_20261107_paper_figures/source_data/association_nulls.csv ADDED Viewed

	@@ -0,0 +1,3 @@

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wu_20261107_paper_figures/source_data/author_QC.csv ADDED Viewed

	@@ -0,0 +1,25 @@

+condition,fly,inferred_source_excel_row,mapping_basis,author_R_GOhm,reconstructed_R_GOhm,relative_R_difference,tau_ms,negative_step_fit_RMSE_mV,author_excluded,reconstructed_excluded,monitor_delta_pA,nominal_DAC_pA,onset_ms
+WT,1,74,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.414825561520021,0.41482535941488274,4.872051218018925e-07,7.900715515642889,1.259379958287453,True,True,-20.1416015625,-40,231.26
+WT,2,75,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,3.09802985984673,3.098028894748135,3.115201075987173e-07,46.207768791720156,13.60266054191366,False,False,-20.1416015625,-40,231.26
+WT,3,76,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.268968531319347,0.2689685252618688,2.2521140841114118e-08,3.213517802541524,0.3100224784305743,True,True,-20.1416015625,-40,231.26
+WT,4,77,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.0259887340761,1.0259911969025521,2.4004420031698004e-06,6.289053538772674,34.640841427753294,False,False,-19.83642578125,-40,231.26
+WT,5,78,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.63283385466921,1.632833808877508,2.8044311983776993e-08,28.32576134384206,4.981681104337597,False,False,-20.1416015625,-40,231.26
+WT,6,79,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.80336235952451,0.8033623392397684,2.5249803248250657e-08,16.033757517569413,4.177336399306763,False,False,-20.1416015625,-40,231.26
+WT,7,80,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.436521744129391,0.43652173450416365,2.204982330056282e-08,5.722568494916409,0.6458197578326936,True,True,-20.1416015625,-40,231.26
+WT,8,81,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.28981251120351,1.2898124876391266,1.8269619150856897e-08,18.434534193154697,1.7331733559718976,False,False,-20.1416015625,-40,231.26
+WT,9,82,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.09934918692818,1.0993485032939996,6.218535371083078e-07,14.65783479839107,4.964906256413454,False,False,-20.1416015625,-40,231.26
+WT,10,83,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.35560245083886,1.3556024197571355,2.292834788697462e-08,23.267138587080517,1.0877538583497626,False,False,-20.1416015625,-40,231.26
+NaChBac,1,29,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.295389783740758,0.29538977073224937,4.403845144107521e-08,3.623043616611295,0.2073128786959268,True,True,-20.1416015625,-40,231.26
+NaChBac,2,30,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.646970062133017,0.646969927249873,2.0848436721454533e-07,7.767632893435204,5.983315571916739,True,True,-19.83642578125,-40,231.26
+NaChBac,3,31,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,2.16287206000063,2.162871999031595,2.8188923306693425e-08,28.8313254823468,2.1991206870772273,False,False,-20.1416015625,-40,231.26
+NaChBac,4,32,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.592717337718566,0.5927147249384301,4.408138533529282e-06,2.09410079649728,15.195931286839668,True,True,-20.1416015625,-40,231.26
+NaChBac,5,33,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.607413540989338,0.6074135816078371,6.687124409765488e-08,4.906498798713186,1.4550680887070575,True,True,-20.1416015625,-40,231.26
+NaChBac,6,34,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.226205266525797,0.22620523164887207,1.5418263887845285e-07,5.742920581759393,0.33232897894425323,True,True,-20.1416015625,-40,231.26
+NaChBac,7,35,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.593269960894926,0.5932699489915764,2.0063968264594223e-08,6.5039379380659295,0.8114237884876729,True,True,-20.1416015625,-40,231.26
+NaChBac,8,36,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.57645888268982,1.5764607564447348,1.1885847042147901e-06,17.540646166755028,7.817592029631036,False,False,-20.1416015625,-40,231.26
+NaChBac,9,37,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.92168431186752,1.9216841799585669,6.864236345993646e-08,34.98461122278199,2.7471828233890183,False,False,-20.1416015625,-40,231.26
+NaChBac,10,38,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,2.3743599817375,2.3743599661979724,6.5447226527126645e-09,33.32560122911819,2.109211900740331,False,False,-20.1416015625,-40,231.26
+NaChBac,11,39,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,2.06771207512855,2.067713580967968,7.282635896554979e-07,44.83478565940745,5.533784334615831,False,False,-20.1416015625,-40,231.26
+NaChBac,12,40,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.270572480095479,0.270572454557122,9.438638037817526e-08,2.759709119477294,0.5649965496353587,True,True,-20.1416015625,-40,231.26
+NaChBac,13,41,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,0.991253363074116,0.9912533137279451,4.97815924038747e-08,18.107870601590754,1.014371716849287,False,False,-20.1416015625,-40,231.26
+NaChBac,14,42,Condition plus within-condition source row order; checked against full fitted R fingerprint. No explicit file ID in workbook.,1.50964716524111,1.5096471285095803,2.433120183109594e-08,25.724114935615177,1.9155390319322756,False,False,-20.1416015625,-40,231.26

wu_20261107_paper_figures/source_data/cell_contrasts.csv ADDED Viewed

	@@ -0,0 +1,161 @@

+schedule,gid,root_id,eligible,voltage_ABC_minus_mean_mV,voltage_ABC_minus_best_mV,count_ABC_minus_mean,count_ABC_minus_best,responsive_masks
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+synchronous,3,720575940618341952,True,10.686555827702193,-0.2505424861447878,0.6666666666666667,0,"1,7"
+synchronous,4,720575940618662939,False,11.553244103089192,-0.03222030817536137,12.0,0,"1,7"
+synchronous,5,720575940619077217,False,11.150266593166045,-0.0479242855831572,12.0,0,"1,7"
+synchronous,6,720575940619897734,False,11.160827675044949,0.005063430261117219,12.0,0,"1,7"
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+synchronous,8,720575940621606755,False,10.717263393905768,-0.033392068064010516,12.0,0,"1,7"
+synchronous,9,720575940621770010,True,11.829570466312497,-0.07241692492983987,12.0,0,"1,7"
+synchronous,10,720575940622003316,False,11.587834947002477,0.12033034036145551,12.0,0,"1,7"
+synchronous,11,720575940622412838,False,14.301445420216645,-0.11736264802905083,12.0,0,"1,7"
+synchronous,12,720575940622836455,True,10.800507280819104,-0.07390804368284165,12.0,0,"1,7"
+synchronous,13,720575940623973961,False,11.561708335963957,-0.11247503226394429,12.0,0,"1,7"
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+synchronous,20,720575940629319106,True,9.54091605129203,-0.11660656161233618,12.0,0,"1,7"
+synchronous,21,720575940629507706,True,12.025640205140476,0.20358685312002223,12.0,0,"1,7"
+synchronous,22,720575940630331244,True,9.92279520603445,0.108801958826092,12.0,0,"1,7"
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wu_20261107_paper_figures/source_data/figure5_summary.csv ADDED Viewed

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