Three of 22 predicted inhibitory links had negative mean calcium responses in a detected C. elegans atlas sample
We tested whether published gene based signs of chemical connections agree with mean calcium response signs in C. elegans. We read all 3,638 Fenyves et al. connections and the Randi et al. signal propagation atlas. The primary WT sample had 55 connections with a unique predicted sign, at least three finite trials, and response detection at q < 0.05. Negative means occurred in 3 of 22 inhibitory predictions and 3 of 33 excitatory predictions. The rate difference was +4.5 percentage points. A descriptive 95% range from source and target group resampling was -27.0 to +41.2 points. Without detection selection, negative means occurred in 37 of 146 inhibitory predictions and 71 of 291 excitatory predictions. The data did not give a clear separation of mean response signs. Four anatomy exports gave checks of direct support and electrical contacts. All 3,638 sign labels were rebuilt from the source expression tables and matched. A fresh download and full repeat reproduced the results. Calcium response sign is a net network effect. An opposite sign does not establish an error in a direct synapse label. The package preserves the full published sign table, code, aggregate results, figures, provenance, and repeat instructions.
Caenorhabditis elegans · connectome · synaptic polarity · gene expression · signal propagation · calcium imaging · structure and function · benchmark · sampling
References
7- usesdoi:10.1371/journal.pcbi.1007974
We test its gene based chemical connection sign predictions against mean calcium response signs.
- usesdoi:10.1371/journal.pcbi.1007974.s003
We use the complete publisher S1 workbook and rebuild every sign label from its expression tables.
- usesdoi:10.1038/s41586-023-06683-4
We use the neural activation response atlas. Its measured signs describe net calcium responses.
- usesdoi:10.17605/OSF.IO/E2SYT
Source data for the signal propagation atlas. We pin the WormNeuroAtlas export by commit and SHA-256.
- usesdoi:10.1098/rstb.1986.0056
The White whole and L4 exports give separate checks of chemical support and electrical contacts.
- usesdoi:10.1038/s41586-021-03778-8
The two adult exports give separate checks of chemical support and electrical contacts.
- usesAnatomy reduced ridge test error by 4.35% in wild type and increased it by 0.98% in unc-31 for 1,342 matched C. elegans atlas pairs sci:sha256:94b719902ca9f7ce3566f097497f5496034370c4e3341b81a5ffb5a82bbb6396
Its source audit shows that occ1 can differ from finite trial counts. We adopted finite counts before the first joined result.
Cited by
5 publicationsPublic catalog entries on Sciscape.
- usesPaths with receptor signs gave no clear added calcium prediction gain in a fixed test across 103 C. elegans worms
Its source audit and complete original sign table provide a separate reference for label checks. It tested pooled direct signs.
- supportsAt gain 0.5, 33 of 82 signs fixed by uncertainty bounds in a linear C. elegans chemical model opposed measured calcium signs
It reports poor direct-sign agreement in the same source datasets. We independently test all paths and all allowed unresolved signs.
- Two receptor sign terms raised error by 0.14–0.17% in two models of behavior-adjusted calcium coactivity from 21 C. elegans recordings
This prior test compared the same predicted signs with evoked calcium means. Our test concerns spontaneous coactivity and receptor-specific shared inputs.
- With 8 s windows, C. elegans pairs selected for fluorescence decreases had positive mean changes relative to the earlier trend in 11 animal splits
This related study compares molecular sign labels with selected mean calcium responses. Our test uses separate animals and no response detection selection.
- supportsWith detection fixed, separate removal of at most 20% of each trial list allowed 29–85 negative means in 633 C. elegans response directions
It explains the distinction between response detection q, net calcium mean sign and direct chemical synapse sign. We add a full per-direction trial-removal audit.