resource	primary_scope	negative_or_failed_results_queryable	no_effect_baselines_explicit	raw_direction_endpoint_explicit	coverage_limits_explicit	model_cards_or_runtime_provenance	versioned_download_snapshot	programmatic_access	disease_context_boundary	comparison_interpretation	source
NMD-VCell_Audit	direction-aware perturbation-model audit and bounded DMD-guided triage	yes	yes	yes	yes	yes	yes	static JSON plus SQLite/TSV	HepG2 benchmark is not muscle/DMD validation	Adds a fixed audit layer linking failures, baselines, coverage and forbidden conclusions	this_release
DepMap	cancer dependency and functional genomics	platform_specific	no	no	model_and_assay_metadata	platform_specific	yes	portal and downloads	cancer-cell dependency is not DMD efficacy	Complementary functional-dependency source; also audited as a possible outcome proxy	https://depmap.org/portal/
Connectivity_Map_CLUE	chemical and genetic perturbational signatures	limited_for_failed_model_runs	no_not_primary_resource_role	profile_similarity_not_declared_model_direction_gate	assay_coverage_available	platform_specific	yes	portal and downloads	cell-line signatures are not disease efficacy	Perturbation profile source rather than a frozen model-audit package	https://clue.io/
DisGeNET	gene/variant-disease associations	no	not_applicable	not_applicable	association_coverage_available	not_applicable	versioned_releases	portal and API	association is not perturbation response	Disease-annotation resource with a different evidential unit	https://disgenet.com/
Human_Cell_Atlas	human single-cell observational atlases	no	not_applicable	not_applicable	dataset_specific	dataset_specific	yes	portal and data APIs	observational expression is not perturbation validation	Context and cell-state atlas rather than intervention benchmark	https://www.humancellatlas.org/
scvi_tools	probabilistic single-cell modeling software	benchmark_examples_not_fixed_failure_registry	depends_on_user_task	depends_on_user_task	method_specific	software_versions_and_docs	yes	Python API	general software, not DMD evidence	Reusable modeling infrastructure rather than a disease audit snapshot	https://scvi-tools.org/
GEARS	graph-based perturbation prediction method	publication_benchmark_results	depends_on_benchmark	yes_in_task_specific_evaluation	method_support_constraints	source_code_and_model_config	yes	code interface	no inherent DMD validation	NMD-VCell contributes a frozen negative task-specific evaluation with common coverage	https://github.com/snap-stanford/GEARS
scGPT	foundation model for single-cell multi-omics	publication_benchmark_results	depends_on_benchmark	yes_in_task_specific_evaluation	vocabulary_and_interface_constraints	checkpoint_and_source_provenance	yes	code interface	no inherent DMD validation	NMD-VCell contributes a checkpoint-limited negative task-specific evaluation with explicit native coverage	https://github.com/bowang-lab/scGPT