Configuration

MINGLE

MINGLE is a mutual-information-based scATAC-seq annotation comparator in the scLLMDA study.

Sources

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph. (paragraph 5); Discussion (paragraph 1)

1 evaluation · 1 metric row

How it worksEvaluated procedure (conceptual)

Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings.

Sources

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1)

At a glance

Model type

Study-specific predictive method; this record is the paper-specific evaluated configuration.

Sources

Biological inputs

scATAC-seq accessibility data and reference cell annotations

Sources

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Feature extraction from genomic sequences (paragraph 4); Introduction (paragraph 1)

Outputs

Cell-type annotations

Sources

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Results/UMAP visualization comparison across methods (paragraph 5); Results/Intra-platform cell type annotation (paragraph 2)

limited source coverage · Automated source review, 2026-09-16. All specifications and missing details

Evaluations and results

Release 2026-09-17-d277315f7d76 · 1 evaluation · 1 metric row. Different protocols are not a single leaderboard.

Evaluation setupMetricEvidence origin

Results grouped by the exact reported evaluation
Metric and finding	Coverage and uncertainty	Evidence
MINGLE: Cross-platform scATAC cell-type annotation Configuration: MINGLETask: Cross-platform scATAC cell-type annotationDataset: MosA1 reference → WholeBrainA query Cross-platform reference-query comparator. Independent external evaluation · Evaluation metadata: needs review
0.6256 F1 Unit: unitless · Direction: unknown	Uncertainty: not reported in legacy extract Scored: Not reported · Eligible: Not reported	source checkedCell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Table 2, MINGLE row, Ref: MosA1 / Q: WholeBrainA F1 column Source checking is not independent reproduction.

How it works

How the evaluated method works

The method combines cell similarity and topological structure to transfer cell labels; the comparison uses common preprocessing.

Sources

What was evaluated

The linked evaluation record identifies MINGLE: Cross-platform scATAC cell-type annotation. Its dataset, split, adaptation and evidence origin remain attached to the reported results.

Sources

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · The named evaluation’s methods and comparison table; exact preserved evaluation IDs: evaluation-lit-b3-006

Strengths and limitations

Strengths and considerations

Provides a neighbourhood/topology-aware annotation reference.
Sources
Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Results/Cross-platform cell type annotation (paragraph 1); Abstract (paragraph 2)

Limitations and conditions

Performance under cross-platform transfer remains task-dependent; the comparator row does not identify every software or reference revision.
Sources
Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Results/Cross-platform cell type annotation (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1)

Profile review details

Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction.

Stable record: reported-model-f0c630d0565e64

Specifications

Inputs, training, access and other details

Explanatory profile: limited source coverage · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.

Inputs, outputs and configuration
Property	Description and evidence
Model type	Study-specific predictive method; this record is the paper-specific evaluated configuration. Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1)
Architecture / procedure	The method combines cell similarity and topological structure to transfer cell labels; the comparison uses common preprocessing. Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1)
Biological inputs	scATAC-seq accessibility data and reference cell annotations Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods/Feature extraction from genomic sequences (paragraph 4); Introduction (paragraph 1)
Outputs	Cell-type annotations Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Results/UMAP visualization comparison across methods (paragraph 5); Results/Intra-platform cell type annotation (paragraph 2)
Parameters	An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. · Not reported in inspected sources Sources (2) Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation; sheng-guan-2001/scLLMDA README.md · Materials and methods/Benchmark datasets; Materials and methods/Benchmark methods; Materials and methods/Problem definition; Materials and methods/Feature extraction from genomic sequences; Materials and methods/Cell type annotation via graph domain adaptation/Graph construction.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the local consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Feature fusion via attention.; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision
Known versions / configuration	MINGLE is the comparison-table label; that label does not specify an immutable weight revision. · Not reported in inspected sources Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Model identification in the comparison table and corresponding Methods; immutable checkpoint revision is not supplied by the table label.
Training data / fitting	Train on each stated reference scATAC-seq dataset and evaluate transfer to its query dataset. The benchmark states that all methods use SANGO’s preprocessing pipeline; MINGLE-specific optimisation details are not restated. Sources Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Materials and methods / Benchmark methods; Tables 1–3
Context limits	A maximum input/context length for this exact evaluated configuration is not established by the inspected sources. · Not reported in inspected sources Sources (2) Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation; sheng-guan-2001/scLLMDA README.md · Materials and methods/Benchmark datasets; Materials and methods/Benchmark methods; Materials and methods/Problem definition; Materials and methods/Feature extraction from genomic sequences; Materials and methods/Cell type annotation via graph domain adaptation/Graph construction.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the local consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Feature fusion via attention.; inspected for explicit maximum input length (dataset lengths and family-wide limits are not substituted); README.md at pinned repository revision
Access	Official study implementation and usage documentation: https://github.com/sheng-guan-2001/scLLMDA/blob/5e24025710bb068312d50a5749ef6bb838ef5a32/README.md. This pinned documentation revision is not automatically the evaluated weight revision. Sources sheng-guan-2001/scLLMDA README.md · README.md; installation, model download and usage instructions
Code licence	No explicit code licence was established from the paper’s availability statement and inspected repository-root documentation. · Not reported in inspected sources Sources sheng-guan-2001/scLLMDA README.md · README.md and repository-root licence-file search
Weights licence	The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. · Not reported in inspected sources Sources sheng-guan-2001/scLLMDA README.md · README.md; checkpoint/access documentation and licence scope

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.

21 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-09-17-d277315f7d76
Property and statement	Original source and location	Review and provenance
Diagram caption Conceptual input–method–output guide. Check the procedure text and linked evaluation for fitted components, additional inputs and exact settings. Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.diagram.caption` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Diagram steps ["scATAC-seq accessibility data and reference cell annotations","MINGLE","Cell-type annotations"] Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.diagram.steps` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Diagram title Evaluated procedure (conceptual) Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.diagram.title` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Model type Study-specific predictive method; this record is the paper-specific evaluated configuration. Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.0.value` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Architecture / procedure The method combines cell similarity and topological structure to transfer cell labels; the comparison uses common preprocessing. Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.1.value` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Weights licence The inspected model-access documentation does not explicitly identify terms for this exact evaluated checkpoint or fitted head; repository code terms are shown separately. Individual claims	sheng-guan-2001/scLLMDA README.md Original source ↗ README.md; checkpoint/access documentation and licence scope Version: 5e24025710bb068312d50a5749ef6bb838ef5a32 Retrieved: 2026-09-16T19:54:22.541360+00:00	unreported automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.10.value` Source artifact SHA-256: `b8327f7bbd867d6e5b7ab369873b59aeba64fe4ca79c879dd54c3b036b127d3b` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Biological inputs scATAC-seq accessibility data and reference cell annotations Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Feature extraction from genomic sequences (paragraph 4); Introduction (paragraph 1) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.2.value` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Outputs Cell-type annotations Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Results/UMAP visualization comparison across methods (paragraph 5); Results/Intra-platform cell type annotation (paragraph 2) Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	source checked automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.3.value` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims	sheng-guan-2001/scLLMDA README.md Original source ↗ Materials and methods/Benchmark datasets; Materials and methods/Benchmark methods; Materials and methods/Problem definition; Materials and methods/Feature extraction from genomic sequences; Materials and methods/Cell type annotation via graph domain adaptation/Graph construction.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the local consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Feature fusion via attention.; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 5e24025710bb068312d50a5749ef6bb838ef5a32 Retrieved: 2026-09-16T19:54:22.541360+00:00	unreported automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.4.value` Source artifact SHA-256: `b8327f7bbd867d6e5b7ab369873b59aeba64fe4ca79c879dd54c3b036b127d3b` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact
Parameters An aggregate parameter total for this exact evaluated configuration is not established by the inspected sources. Individual claims	Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation Original source ↗ Materials and methods/Benchmark datasets; Materials and methods/Benchmark methods; Materials and methods/Problem definition; Materials and methods/Feature extraction from genomic sequences; Materials and methods/Cell type annotation via graph domain adaptation/Graph construction.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the local consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph.; Materials and methods/Cell type annotation via graph domain adaptation/Feature fusion via attention.; inspected for aggregate parameter count (component sizes are not added without an exact configuration); README.md at pinned repository revision Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: version of record Retrieved: 2026-09-16T10:44:03.395850+00:00	unreported automated source review · 2026-09-16 Audit details Primary full text and the available official implementation/model documentation were inspected. Explanatory claims are source-backed; unresolved exact-configuration metadata is labelled explicitly. This is automated review, not a human review or independent benchmark reproduction. Field: `attributes.profile.facts.4.value` Source artifact SHA-256: `f1cdc7d54c6b2d491e4a74a44a1188a3679c555262c988e95a1c0de4614fe3cb` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact

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Sources and history

Release 2026-09-17-d277315f7d76 · Record review: needs review

2 source records and release history

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation · Original source · version of record
sheng-guan-2001/scLLMDA README.md · Original source · 5e24025710bb068312d50a5749ef6bb838ef5a32

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Technical metadata and extraction receipts

Stable ID: reported-model-f0c630d0565e64

areas: cells-tissues
entity level: method
version: Not reported
reported name: MINGLE
historical missing metadata: version: not_reported_in_legacy_extract; checkpoint revision: not_reported_in_legacy_extract; training data: not_reported_in_legacy_extract; licence: not_reported_in_legacy_extract
metadata review scope: historical_missing_metadata preserves the original discovery state. Current descriptive evidence and missingness are recorded in profile.facts; numerical-result review is separate.
legacy kinds: model
entity classification: review date: 2026-09-17; rationale: This source-scoped entry preserves the method/configuration actually named in an evaluation. It is neither a global family identity nor proof of an immutable checkpoint; the linked evaluation retains adaptation, fitting and scoring details.; source ids: scatac-llmda-2026; source locator: Materials and methods/Benchmark methods (paragraph 1); Results/UMAP visualization comparison across methods (paragraph 1) | Materials and methods/Cell type annotation via graph domain adaptation/Capture the global consistency relationship of each graph. (paragraph 5); Discussion (paragraph 1); ambiguities: Configuration means the source-labelled evaluated identity. It does not establish missing checkpoint hashes, default settings or equivalence to same-named records in other papers.

Related records

model: MINGLE: Cross-platform scATAC cell-type annotation

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