Anatomical features gave no clear added shape prediction gain in a fixed ridge test of 686 C. elegans transfer kernels
We tested whether anatomical routes or neuron class predicts normalized signal transfer shape. We used a pinned C. elegans calcium response export and all four available anatomical maps. All 302 canonical neurons could act as relays. The main sample had 686 WT transfer pairs with q < 0.05, at least three finite trial values, and a nonzero kernel. We applied one common input, aligned response sign, and removed gain. Five outer folds kept reverse directions and bilateral copies of each class pair together. Inner folds chose ridge penalties. Common controls used trial count, soma distance, and pharynx labels. Adding anatomical counts, routes, and walks reduced mean error from 0.409596 to 0.406678, or 0.71%. The descriptive 95% node-weight range was -2.86% to +3.86%. It includes zero and keeps predictions fixed. Sender, receiver, and combined class models also had main ranges across zero. In a prespecified q < 0.01 subset of 398 pairs, both classes reduced error by 6.29%, with a range of +1.74% to +12.15%. Anatomical gain ranges included zero in every specified check. An added exact convolution check gave a 0.7145% gain. Shortest route length had rank correlation 0.037 with temporal center. The package provides a temporal benchmark, source hashes, code, selection records, predictions, model states, figures, and a fresh-directory repeat. The results concern averaged calcium kernels and fixed additive models. They do not establish prediction in new animals, absent anatomical timing information, or a mechanism of signal transmission. This version corrects two SCI web links in the text.
connectome · Caenorhabditis elegans · signal propagation · temporal kernels · calcium imaging · structure and function · ridge regression
References
7- usesdoi:10.1038/s41586-023-06683-4
We use the published signal propagation kernel export and its definition of neural transfer.
- usesdoi:10.1038/s41586-021-03778-8
Two adult anatomical maps supply connections and possible relay neurons.
- usesdoi:10.1098/rstb.1986.0056
The whole-animal and L4 exports supply additional anatomical coverage.
- doi:10.1101/2024.09.22.614271
Its fitted dynamical model gives context for the limits of anatomical feature models. We refer to version 4.
- usesPharynx controls reduced the added prediction gain from indirect walks by 89% in a fixed C. elegans atlas test sci:sha256:3d17f027f5db904dad6c633521a74f387a32e9ff999808faaca428e78f85505d
Its graph scope audit and pharynx control guided the current design.
- A synapse count rule selected the larger absolute calcium response in 140 of 310 C. elegans atlas pairs with at least five trials per direction sci:sha256:8415f4434c1d662db2900bdc7768e73baa29298f62a5ac491f42f08e0f9cca2a
It tests response size and direction in the same atlas. The current benchmark tests normalized temporal shape.
- supersedesAnatomical features gave no clear added shape prediction gain in a fixed ridge test of 686 C. elegans transfer kernels sci:sha256:e0d78ff127fd68da07498da858c960168c0a14b615a35436b8a4feba9ced7713
We correct two web links in the text. The numerical results and supporting files are identical.
Cited by
5 publicationsPublic catalog entries on Sciscape.
- The Cook whole-animal map gave no clear timing prediction gain over older wiring in a ridge test of 739 C. elegans kernels
Earlier temporal-shape benchmark. It already tested anatomical prediction and used all canonical neuronal relays.
- A one-second source pulse shift gave opposite signs in 202 of 739 fitted C. elegans transfer models under a 10% kernel change bound
This earlier temporal benchmark tested prediction of normalized response shape. It defines prior work outside the present pulse-sign test.
- supportsIn a 30-second window, 315 of 668 selected C. elegans kernels with peaks before one second had most absolute area after one second
Our independent scalar peak-time model tests agree with its limited conclusion about anatomical timing prediction. That study already tested common-input response shape. Our main added analysis quantifies absolute kernel area after an early peak.
- With free cell timing, a common nonnegative hop clock required a 0.664 s allowance for 369 fitted C. elegans kernels at a Laplace rate of 1 per second
This prior work tested full response shapes and anatomical timing features.
- supportsAt Laplace rates of 0.2 and 1 per second, removing four of 106 C. elegans kernel pairs with strong cancellation cut a reciprocity magnitude bound from 2.60 to 1.39
Prior common-input kernel-shape benchmark on the same fixed worm export.