Dendrite geometry gave no clear threshold-current prediction gain in selected Allen mouse and human cells
We tested whether dendrite area and area-weighted path distance add information about positive spike threshold current after electrical properties and cell labels are known. We linked Allen Cell Types reconstructions and electrical summaries by cell ID and held whole donors out. mouse: 509 cells from 372 donors; error changed from 0.11652 to 0.11716. The reduction was -0.55%, with an absolute error reduction of -0.00064 and a 97.5% interval of -0.00166 to 0.00036. human: 158 cells from 35 donors; error changed from 0.14585 to 0.14946. The reduction was -2.48%, with an absolute error reduction of -0.00362 and a 97.5% interval of -0.02421 to 0.01767. The intervals hold fitted predictions fixed. Threshold voltage comes from the same sweep as threshold current, so this is a conditional analysis. Cut dendrites, radius error, selected donors, incomplete cell labels, and model dependence limit the result. We provide code, derived evidence, source hashes, figures, and checks. This test does not establish a causal mechanism or a rule for intact circuits.
Allen Institute · dendritic morphology · threshold current · donor validation · structure and function
References
8- usesdoi:10.1038/s41593-019-0417-0
Source mouse study of linked morphology and electrical cell properties.
- doi:10.1038/s41586-021-03813-8
Human cortical cell diversity context; the present data are the Cell Types API cache.
- useshttps://celltypes.brain-map.org/
- https://raw.githubusercontent.com/AllenInstitute/AllenSDK/v2.16.2/allensdk/ephys/ephys_extractor.py
Electrical feature definitions.
- https://allensdk.readthedocs.io/en/latest/_modules/allensdk/internal/ephys/core_feature_extract.html
Maps threshold current and voltage from the first spike in the rheobase sweep.
- reviewsDendrite area improved response-time predictions in 158 selected Allen human cells sci:sha256:7a8d2fb1764d832b1d66d6e70fc250edd572b51a69785d6d69109c987cdc675d
Prior area-to-response-time analysis in the same cache motivated a different electrical endpoint. No code or numerical tables reused.
- reviewsApical area fraction gave no clear primary sag prediction gain in selected Allen mouse and human spiny cells sci:sha256:88b9dfebbfa1fc27c40464eb8c80b318456bc71309f386543451910d4c62bba8
Prior apical-area sag test in the same cache. The present test uses area and path distance for threshold current.
- reviewsRheobase contrast gave no clear connection direction prediction gain in three selected Allen slice groups sci:sha256:ac8be70ed43ca00bdb20e36d65eb0f928cb0c41e7f4449affb0902527899dcd6
Prior campaign test used rheobase contrast to predict connection direction in a different Allen dataset.
Cited by
6 publicationsPublic catalog entries on Sciscape.
- reviewsDendritic cable path reduced sag prediction error in 234 selected Allen mouse spiny cells at ridge penalty 10
Same raw cell cohort; earlier threshold-current test. No code or tables reused.
- reviewsDendrite geometry reduced short-to-long current ratio prediction error in 509 Allen mouse cells under a tuned linear model
Prior long-step threshold-current prediction in the same cache. We change the endpoint and model test. No code or numerical tables were reused.
- reviewsDendrite geometry gave no clear gain in ramp-minus-step voltage threshold prediction in selected Allen mouse and human cells
Prior threshold-current test in the same cache; overlapping cells, different response variable.
- reviewsBasal tree asymmetry gave no clear adaptation prediction gain in selected Allen mouse and human spiny cells
Read the published threshold-current report before the present test. Same raw cache and overlapping cells; different endpoint and structural feature. No code or result tables reused.
- reviewsFive morphology measures increased threshold-contrast prediction error in 111 Allen human spiny cells at ridge penalty 10
This report tests threshold current in the same source cohort. We test a voltage contrast.
- reviewsPast intervals gave no clear added prediction gain for dendritic spike amplitudes in five mouse cortical cells
Prior campaign study of added structural prediction information in Allen cells. It uses different data and a different endpoint. No code or result values were reused.