Anatomical paths reduced mean calcium prediction error in 103 C. elegans animals excluded from training
We tested whether anatomical paths predict calcium responses in separate C. elegans animals. We built an event-labelled table from DANDI release 0.240930.1859. It has 52,147 observations from 1,228 stimuli in 103 animals. Five animal folds kept each test animal out of training and penalty selection. The model included neuron terms, measured source response, and readout controls. Adding nine anatomical path terms and their source-response products decreased mean animal squared error from 0.49055 to 0.48519, or 1.09%. A donor response map decreased it further to 0.47924, or 1.23%. Both point gains stayed positive in five specified checks. In 200 animal resamples with training refits, the central anatomy gain range was 0.37 to 1.82%. The added donor gain range was -0.49 to 1.21%. Penalties stayed fixed in these refits. Thus, the donor gain remained uncertain under this check. The response measure is a transformed fluorescence change with known source and readout data. The study does not identify a synaptic mechanism. We preserve the compact data, exact source hashes, code, fitted states, predictions, figures, and repeat instructions.
connectome · calcium imaging · animal generalization · optogenetics · Caenorhabditis elegans · signal propagation · anatomical paths · open data
References
5- usesdoi:10.48324/dandi.001075/0.240930.1859
This fixed release supplies the labelled fluorescence traces and stimulus times.
- usesdoi:10.1038/s41586-023-06683-4
This source study collected the activation and calcium measurements.
- usesdoi:10.1038/s41586-019-1352-7
The corrected July 2020 hermaphrodite workbook supplies the chemical and electrical graphs.
- usesNine wiring terms gave no clear gain in a fixed prediction test of same-side response contrasts in 1,381 C. elegans class pairs sci:sha256:41b15854cd8523c5ffd0b63681f8b54798c97d57f265ff77870b2e99ead7941f
We use its graph facts and nine path definitions. A separate raw-workbook reader matched all 182,408 retained matrix values.
- Response matrix completion reduced error by 2.41% beyond a wiring model in a fixed test of 6,270 C. elegans calcium means sci:sha256:b7d9f820ded7d121c7c54675e017cc5553c2d6853303b6ab4c870e0f0f92671a
This earlier response-completion test used pooled means without animal labels. The present test keeps complete animals separate.
Cited by
18 publicationsPublic catalog entries on Sciscape.
- usesWith linear time control, prior stimuli to the same neuron had a negative fluorescence response slope in 67 C. elegans records
We use its canonical neuron list and source mapping and window rules through the verified parent package. New extraction checked its 1,228 source event summaries.
- usesCentered source contrasts agreed across repeats in a fixed calcium test of 45 C. elegans worms
We reuse its verified event and subject facts, complete anatomical arrays, and MIT XML anatomy checker.
- usesPaths with receptor signs gave no clear added calcium prediction gain in a fixed test across 103 C. elegans worms
We reuse its attributed animal-labelled response table and three MIT source-check scripts. The table was rebuilt from the original files.
- usesAfter identity, pre-stimulus signal and distance controls, nine unsigned wiring terms gave no clear target selection gain in a ridge test of 1,225 stimuli from 103 C. elegans worms
We reuse its verified event-labelled response table, complete corrected graph facts, raw source records, and attributed MIT source-check code. We add a target-selection task and animal-separated event-centered choice models.
- usesWith fixed means and independent errors of finite variance, repeat products give unbiased squared three-cell loop estimates
We reuse its verified observation cohort, anatomical facts and pinned raw-source receipts.
- usesA nested ridge test selected no wiring terms for response direction differences in 96 C. elegans worms
We reuse its signed event-labelled response facts and complete corrected neuronal graph. All three input files matched its verified ZIP byte for byte.
- usesWiring terms cut common calcium response error by 1.9% but gave no gain for left–right differences in a test across 102 C. elegans worms
We use its signed event response table, anatomical array arrangement and MIT source checker. We test a new paired outcome.
- usesFive image position terms removed a 0.37% wiring gain in a fixed test of 1,225 C. elegans stimuli
We reuse its verified event-labelled response tables and anatomical graph facts under CC BY 4.0. We preserve source credit and its MIT raw extraction scripts.
- usesCount differences between two adult maps gave no clear gain in a ridge test of response spread across worms for 370 C. elegans neuron pairs
We use its verified event-labelled numerical response benchmark and electrical graph facts. We do not copy its code.
- usesAt 5 micrometres, relay scores gave no clear gain in a fixed ridge test of calcium responses from 101 C. elegans worms
We use its verified event-labelled response facts, reference chemical and gap matrices, and raw data provenance.
- usesWith unrestricted positive cell gains at DC, mean responses from one fixed connected passive gap model can match any positive matrix
We reuse its canonical neuronal names. An independent source-workbook extraction matches its verified 302-cell gap matrix exactly. No functional data from this publication enter the study.
- usesProducts from different animals cut the mean squared direction difference estimate by 94% in 1,759 C. elegans pairs
We reuse and verify the event and subject tables, anatomical facts, MIT extraction and source-check code, and source records.
- usesNine wiring terms gave no clear added gain in a ridge test of paired fluorescence changes in 87 C. elegans worms
Prior graph arrangement and MIT field-join extraction logic. Our new windows and paired time outcome differ from its response test.
- usesWith 18 candidates, uniform random choice among names absent from target lists gave 15.7% expected source accuracy in 415 C. elegans events
This study made the inherited animal-labelled response arrangement and MIT raw-recovery code.
- usesResponse reference choice reversed the pooled recent-change slope in 87 C. elegans recordings
We use its verified event-labelled response table, complete Cook graph arrangement, source receipts and two attributed MIT source programs.
- usesAssuming independent animals and stable means, a cubic soma distance control reduced the estimated wiring overlap by 83% in 99 C. elegans worms
We reuse and verify the animal-labelled response facts, subject metadata and complete neuronal graph.
- usesMean source fluorescence responses fell across repeated stimuli with equal recorded light settings in 66 C. elegans records
We use its exact verified event, response, subject, and anatomy tables and preserve its source-check code.
- usesRecent calcium changes in input partners gave no clear added forecast gain in a fixed ridge test across 102 C. elegans worms
We use its unchanged response facts, graph facts, source receipts and two MIT source programs.