rewire.itbenchmarks
Dataset

ALM brain single-cell RNA-seq (scRNA-seq) dataset (Abdelaal et al. 2019, Table 2)

8,758 cells, 42,461 genes, 3/37 (3/34) major/deep-level cell populations (unfiltered, per Table 2's own column header, "No. of cell populations (>10 cells)"), SMART-Seq v4; single-cell RNA-seq, mouse brain (anterior lateral motor area) — distinct from the human MTG single-nucleus RNA-seq sample despite the shared SMART-Seq v4 protocol (Results, "Classification performance across brain datasets": "single-cell RNA-seq (used in VISp and ALM) vs single-nucleus RNA-seq (used in MTG)"). This is the Table 2 dataset-size figure (raw per-dataset total), recorded as context only — it is NOT independently confirmed as the exact scored denominator for any individual Figure S10 train-test experiment or classifier result. Table 2's own population-count column already shows a >10-cell filtering step whose effect on cell-level scored counts is not stated in the retrieved main text or supplement.

Research readiness

These checks assess whether the evidence supports a reproducible investigation. A source-checked score alone does not meet these requirements.

Release 2026-10-07-e11db1d1c586 · Evidence verified: Not verified

Evidence incomplete

Replay metrics

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  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing

Verified: Not verified

Evidence incomplete

Investigate discrepancies

Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing
  • annotations: verification is missing
  • dependence: verification is missing

Verified: Not verified

Evidence incomplete

Run locally

A pinned recipe describes the inputs, environment and resource requirements.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
  • artifact hashes: verification is missing
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Verified: Not verified

Evidence incomplete

Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

  • No verified artifact manifest is linked to this exact record.
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  • independent validation: verification is missing
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Verified: Not verified

Readiness describes the evidence in this release. Availability on your computer is checked separately when an investigation runs. Existing data exposure can prevent independent validation even when files are available.

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No verified artifact manifest is connected to this record yet. The gaps above identify what is needed before analysis can begin.

Read reviewed discrepancy investigations

Evaluation results

3 evaluations · 3 results. Different protocols are not a single leaderboard.

Filter evaluations

Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: SVMrejection — Abdelaal et al. 2019 Table 1Protocol: Abdelaal et al. 2019 inter-dataset brain comparison: VISp/ALM/MTG, 34-population annotation (Figure S10 Panel B)
Dataset: ALM brain single-cell RNA-seq (scRNA-seq) dataset (Abdelaal et al. 2019, Table 2)
84.6% pct-unlabeled
percent · unknown

Uncertainty: Not reported

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

abdelaal brain svmrejection test=ALM train=MTG

Not reported

Aggregation: Not reported

A comparison of automatic cell identification methods for single-cell RNA sequencing data — Additional File 1 (Supplementary Data) · Figure S10, Panel B (page 15 of 18), row "SVMrejection", test set ALM, training set(s) MTG
Configuration: SVMrejection — Abdelaal et al. 2019 Table 1Protocol: Abdelaal et al. 2019 inter-dataset brain comparison: VISp/ALM/MTG, 34-population annotation (Figure S10 Panel B)
Dataset: ALM brain single-cell RNA-seq (scRNA-seq) dataset (Abdelaal et al. 2019, Table 2)
22.2% pct-unlabeled
percent · unknown

Uncertainty: Not reported

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

abdelaal brain svmrejection test=ALM train=VISp & MTG (concatenated)

Not reported

Aggregation: Not reported

A comparison of automatic cell identification methods for single-cell RNA sequencing data — Additional File 1 (Supplementary Data) · Figure S10, Panel B (page 15 of 18), row "SVMrejection", test set ALM, training set(s) VISp & MTG (concatenated)
Configuration: SVMrejection — Abdelaal et al. 2019 Table 1Protocol: Abdelaal et al. 2019 inter-dataset brain comparison: VISp/ALM/MTG, 34-population annotation (Figure S10 Panel B)
Dataset: ALM brain single-cell RNA-seq (scRNA-seq) dataset (Abdelaal et al. 2019, Table 2)
16.4% pct-unlabeled
percent · unknown

Uncertainty: Not reported

Coverage: Not reported scored / Not reported eligible

Author-reported evaluation · Source checked
Methods, coverage and source

abdelaal brain svmrejection test=ALM train=VISp

Not reported

Aggregation: Not reported

A comparison of automatic cell identification methods for single-cell RNA sequencing data — Additional File 1 (Supplementary Data) · Figure S10, Panel B (page 15 of 18), row "SVMrejection", test set ALM, training set(s) VISp

Source checking is not independent reproduction. Release 2026-10-07-e11db1d1c586.

Dataset and evaluation context

A dataset supplies biological observations. The evaluation protocol defines how those observations are split, used and scored.

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

Inspect claims, sources and review details

Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

9 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-07-e11db1d1c586
Property and statementOriginal source and locationReview and provenance
attributes.assay_protocol
SMART-Seq v4 (single-cell RNA-seq)
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.assay_protocol

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.population.cell_populations
3/37 (3/34)
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.population.cell_populations

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.population.cells
8758
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.population.cells

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.population.genes
42461
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.population.genes

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.population.population_scope
Table 2 dataset-size figure (raw per-dataset total), recorded as context only; NOT independently confirmed as the exact scored denominator for any individual Figure S10 train-test experiment or classifier result.
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.population.population_scope

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.source_locator
Table 2, row "ALM"
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.source_locator

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

attributes.species
Mouse
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: attributes.species

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

description
8,758 cells, 42,461 genes, 3/37 (3/34) major/deep-level cell populations (unfiltered, per Table 2's own column header, "No. of cell populations (>10 cells)"), SMART-Seq v4; single-cell RNA-seq, mouse brain (anterior lateral motor area) — distinct from the human MTG single-nucleus RNA-seq sample despite the shared SMART-Seq v4 protocol (Results, "Classification performance across brain datasets": "single-cell RNA-seq (used in VISp and ALM) vs single-nucleus RNA-seq (used in MTG)"). This is the Table 2 dataset-size figure (raw per-dataset total), recorded as context only — it is NOT independently confirmed as the exact scored denominator for any individual Figure S10 train-test experiment or classifier result. Table 2's own population-count column already shows a >10-cell filtering step whose effect on cell-level scored counts is not stated in the retrieved main text or supplement.
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: description

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

name
ALM brain single-cell RNA-seq (scRNA-seq) dataset (Abdelaal et al. 2019, Table 2)
Context-only references
A comparison of automatic cell identification methods for single-cell RNA sequencing data

Original source ↗

Table 2, row "ALM"

Version: 10.1186/s13059-019-1795-z; published article XML
Retrieved: 2026-10-06T23:28:54Z

not individually reviewed

No individual claim review recorded

Audit details

Field: name

Source artifact SHA-256: Not recorded

Hash scope: Hash scope not separately documented; inspect source record

Inspected artifact

Sources and history

View linked audit checks and correction history

Release 2026-10-07-e11db1d1c586 · Record review: source checked

1 source records and release historyDownload this release
Technical metadata and extraction receipts

Stable ID: ucc-research-data-abdelaal-alm

review
method: automated_source_review; actor: Claude Sonnet cell-type-annotation-transfer evidence-research worker; reviewed at: 2026-10-07T07:44:08Z; note: Source-backed primary-text transcription of Abdelaal et al. 2019 (Genome Biology) main-text XML, already catalogued and committed (data/omics/use-case-coverage-20261006/research/artifacts/abdelaal-2019-pmc6734286-fulltext.xml.gz); reused by reference, not re-fetched or modified in this pass. No new model execution, independent experimental replication, or qualified human scientific review.
source locator
Table 2, row "ALM"
population
cells: 8758; genes: 42461; cell populations: 3/37 (3/34); population scope: Table 2 dataset-size figure (raw per-dataset total), recorded as context only; NOT independently confirmed as the exact scored denominator for any individual Figure S10 train-test experiment or classifier result.
assay protocol
SMART-Seq v4 (single-cell RNA-seq)
species
Mouse
missing metadata
scored denominator per experiment: Not stated in the retrieved main text or supplement; the >10-cell population filter noted in Table 2 may also affect cell-level scored counts, in a manner not detailed in the retrieved sources.
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