The Cook whole-animal map gave no clear timing prediction gain over older wiring in a ridge test of 739 C. elegans kernels
We tested whether a whole-animal wiring update improves prediction of calcium signal timing. We used 739 selected C. elegans transfer kernels from the Randi atlas and all available neuronal relays in five anatomical maps. The main comparison replaced the older White whole-animal export with the Cook map corrected in July 2020. The timing measure was the mean time weighted by absolute kernel area over 30 seconds. The Cook map changed 327 shortest path results: 304 became shorter and 23 became longer. Five grouped outer folds and training-only penalty selection gave mean squared log-time errors of 0.291177 with older wiring and 0.289994 with Cook wiring. The error reduction was 0.406%. A central 95% class-weight range was -1.92% to +3.11%. This range keeps fitted predictions fixed and does not describe variation across animals. Holding direct weights fixed, changing timing measures, and changing selection rules also gave ranges across zero. Earlier SCI work already showed weak timing prediction from older maps. This exploratory study adds a matched whole-animal map comparison. It does not show that anatomy lacks timing information. Both whole-animal maps combine source material, and their weights have different units. The package preserves code, source versions and hashes, a derived benchmark, fitted models, predictions, weight draws, figures, and repeat instructions. A fresh-source run reproduced all 115 result files exactly.
connectome · Caenorhabditis elegans · signal propagation · transfer kernel · timing · whole-animal wiring · replication
References
10- usesdoi:10.1038/s41586-023-06683-4
Original causal calcium atlas and fitted transfer kernels.
- usesdoi:10.17605/OSF.IO/E2SYT
Original data record. Exact analysis input is the WormNeuroAtlas export at commit b2e13d88b670efcb3438aeacba2ad4bd6c383933.
- usesdoi:10.1038/s41586-019-1352-7
Whole-animal hermaphrodite wiring, using the authors' corrected July 2020 workbook.
- usesdoi:10.1098/rstb.1986.0056
Source material for the older whole-animal and L4 exports.
- usesdoi:10.1038/s41586-021-03778-8
Adult maps 7 and 8 provide separate anatomical checks.
- supportsIn four C. elegans maps with two-way electrical links, route length had rank correlations of 0.03–0.10 with fitted mean kernel peak time sci:sha256:7fa93a5da82b873bd27f65bd0da10e20eea2ea3bdef34dbee9a396c5257671ba
Earlier work found weak path ordering of kernel peak time in the older maps. Our different timing measure and corrected Cook comparison retain weak prediction gains.
- Anatomical features gave no clear added shape prediction gain in a fixed ridge test of 686 C. elegans transfer kernels sci:sha256:cbf5601ea590f4aa83137cc12fde16e083e067cac724ca2680211ee6cfa8ad4e
Earlier temporal-shape benchmark. It already tested anatomical prediction and used all canonical neuronal relays.
- In a 30-second window, 315 of 668 selected C. elegans kernels with peaks before one second had most absolute area after one second sci:sha256:1e50fd4224cd00f6660aaf9f078f8be64a368a1b56525e5d355277ba0c49c955
Earlier work calculated late absolute kernel area and temporal centers. We do not claim those descriptions as new.
- Pharynx controls reduced the added prediction gain from indirect walks by 89% in a fixed C. elegans atlas test sci:sha256:3d17f027f5db904dad6c633521a74f387a32e9ff999808faaca428e78f85505d
Earlier pharynx control and separate-map path analysis motivated the compartment check.
- doi:10.1101/2024.09.22.614271
A fitted connectome-constrained dynamical model is a different and successful approach. Our summary-feature comparison does not test or refute it.
Cited by
3 publicationsPublic catalog entries on Sciscape.
- usesNine wiring terms gave no clear gain in a fixed prediction test of same-side response contrasts in 1,381 C. elegans class pairs
Its source hashes and native name audit guided use of the corrected Cook workbook.
- Direct counts gave no clear gain for early minus late calcium responses in a ridge test of 104 C. elegans records
Earlier SCI work tested anatomical timing prediction using pooled fitted kernels. This study uses individual NWB windows and excludes whole test animals from fitting.
- usesPeptide channel terms gave an uncertain 1.93% timing error reduction in a nested ridge test of 739 C. elegans kernels
We reuse its numerical timing benchmark and corrected Cook and older wiring summaries. We check the joined facts against original data.