Contact area controls reduced excess overlap of electrical and two-way chemical links in JSH and N2U maps of 175 neurons
We tested overlap between electrical links and chemical links in both directions. We used revised JSH L4 and N2U adult maps for 175 neurons. These maps came from two animals. Only pairs with measured membrane contact were used. The maps had 34 and 88 mixed pairs. In a control with one contact group, these counts were 1.75 and 2.27 times the expected counts. With 20 groups by contact area, the ratios were 0.94 and 1.09. The controls fixed electrical pair counts within each group. They left each neuron's degree free. Exact graph reference ranges included both measured counts with 20 groups. A separate test trained a fixed logistic model on one map and scored the other. The baseline used contact area, neuron identity and left/right homology. Adding chemical direction status changed Brier error by less than 0.00007 in each transfer. Fixed-prediction node-weight ranges included zero. The result agrees with Durbin's 1987 anatomy-based analysis. The revised maps use the same EM archives, so this is not a test in new animals. The contribution adds exact reference distributions, a prediction benchmark and reusable code. It does not show biological independence or rule out functional interactions. The package preserves source versions, hashes, derived data, models, figures, checks and repeat instructions.
Caenorhabditis elegans · connectome · gap junction · chemical synapse · membrane contact · multiplex network · conditional reference · reproducibility
References
7- usesdoi:10.5281/zenodo.4383277
Pinned source databases for membrane contacts and both synapse types in JSH and N2U.
- usesdoi:10.1038/s41586-021-03284-x
Source study for the nerve-ring contact reconstruction and reference cell lists.
- usesdoi:10.1038/s41586-019-1352-7
Synapse annotations integrated into the source databases.
- usesdoi:10.1098/rstb.1986.0056
Original JSH and N2U electron microscopy archives. This analysis adds no new animals.
- doi:10.1371/journal.pcbi.1001066
Prior analysis of electrical and chemical overlap. It also discusses Durbin's adjacency control. Our analysis uses a restricted set of pairs and revised contact data.
- supportsContact area controls reduced excess two-way chemical links relative to fixed-degree models of 162 neurons in seven C. elegans brain maps sci:sha256:cb6521f9a7ca217bc005add76a9ca7d31d146de09e7d928cda907d4b662a6988
The earlier SCI study showed that membrane contact controls change the reference for chemical reciprocity. We test overlap of electrical and chemical links in different annotations and with different reference rules.
- doi:10.1038/s41586-021-03778-8
Its gap junction annotations are partial. That source limitation guided the choice of the main data.
Cited by
7 publicationsPublic catalog entries on Sciscape.
- Contact area adjustment reversed pooled gap junction score differences at chemical sites under local count models in two C. elegans maps
It tested contact controls for electrical and two-way chemical overlap. We test electrical links between two targets at one chemical record.
- With gap counts by partner type, side and chemical state fixed, 311 of 327 pairs were forced among 163 Ciona neurons
This study shows why structural constraints matter for mixed-link comparisons. Our analysis uses a different species, statistic and exact control. No code or graph draws are reused.
- usesElectrical links marked positive calcium coactivity after behavior projection in 21 C. elegans baseline recordings
We reuse its CC BY 4.0 derived JSH and N2U pair table for measured contact controls. Source notices are preserved.
- usesCo-target count deviations at gap links were within target contact reference ranges in JSH and N2U nerve-ring maps
Its contact control study motivates the target-pair reference. Its MIT SQL literal reader is reused through the credited extraction code.
- usesInnexin pair terms raised gap junction prediction error for class pairs excluded from training in a fixed test of two C. elegans maps
We reuse its verified JSH and N2U pair table and MIT anatomy extraction code. We rebuild the table from the pinned source archive and obtain an exact byte match.
- usesWith equal pair weights and fixed sites and type counts, chemical–electrical axial distance ratios were 11.4% and 10.1% above independent shuffle means in JSH and N2U NR maps
Adapts its MIT SQL literal reader and uses its source provenance. The present test concerns positions within pairs rather than pooled edge overlap.
- With partner counts by cell type fixed, side constraints cut chemical input cosine excess by 86% at 350 putative electrical pairs in one Ciona map
This related nematode study shows how anatomy controls can change comparisons of electrical and chemical links. We use no data or code from it.