Uniform loss of about half the channel labels raised expected mean marker distances by 37% and 55% in 46 cerebellar maps from one mouse
We tested how incomplete calcium-channel labeling changes a distance used to constrain models of synaptic release. We used paired Munc13-1 and Cav2.1 coordinates from Rebola et al., dataset version 3. The main set had 26 granule-cell and 20 stellate-cell membrane profiles from one mouse. Uniform source samples kept floor(N/2) of N channel labels and all marker labels. Exact expected mean nearest-label distance rose from 59.38 to 81.26 nm and from 95.80 to 148.06 nm. The mean fraction of markers within 50 nm fell from 48.04% to 30.23% and from 29.38% to 18.13%. Including shared-label covariance gave group-mean sampling variances 1.799 and 1.791 times an independence approximation. The package provides an exact distance and proximity calculator, proofs, 111 paired maps from two mice, and every source path and hash. The formulas passed 1,296 exhaustive small-map checks and 20,000 sample draws per main profile. Outline filters and separate protocol groups kept the distance rise. A source area mismatch, an unmatched summary statistic, and alternate annotations remain documented. One profile had 9 alternate channel labels versus 19 main labels. These are conditional results for extra sampling of recorded coordinates. They do not recover an unknown complete map or estimate physical calcium coupling, release probability or variation across animals. Code, permitted source files, all results, figures and offline repeat steps are preserved.
synaptic release · calcium channels · Munc13-1 · molecular maps · sampling bias · nearest neighbor distance · measurement precision
References
6- usesdoi:10.1016/j.neuron.2019.08.014
The source study supplies the paired molecular maps and the structure-to-function context.
- usesdoi:10.17632/fjmp63fgnw.3
Uses every paired coordinate map from Exp7_GC, Exp7_SC, Exp5_GC, Exp6_GC and Exp6_SC in the version 3 archive, plus source workbooks and metadata.
- usesUniform samples of six labels reduced 40 nm pair clustering calls to 54% in 102 mouse stellate cell profiles with conservative ties sci:sha256:35cc1247cd0ee868f687cc62fd04da8029fd2942317c3908812e45bdeea12c37
Used its archive-format and outline audit to guide source inspection. The new test uses different paired maps, new code and new calculations.
- supportsdoi:10.2307/1934145
Provides the established finite-sampling absence probability used in rarefaction.
- supportsdoi:10.2307/1934716
Provides prior exact mean and variance calculations for finite rarefaction. The present application uses overlapping source neighborhoods around molecular labels.
- doi:10.1016/j.neuron.2021.08.037
Records the indexed source-article erratum. The numerical input remains pinned to dataset version 3.
Cited by
2 publicationsPublic catalog entries on Sciscape.
- usesWith at least two labels per type, uniform label loss preserved the expected pair contrast in 46 fixed cerebellar maps
We reuse its verified paired-coordinate arrangement, selected raw files, source audit, and MIT extraction code. Our independent parser checks every raw coordinate array. We extend its label-sampling question to pair statistics.
- usesCav2.1–Munc13-1 pairs within 50 nm were below random label means in five cerebellar map groups from two mice
We reuse its verified paired-coordinate arrangement, source subset, and animal labels. We independently rebuild all coordinates and test a new marker mixing reference.