asset_id	layer	title	identifier	disease	modality	location	state	scale	public_route	purpose
DATA:GSE133344	source	CRISPRa single and combination calibration	GSE133344	Non-muscle method calibration	K562	workspace-local	AVAILABLE	287 perturbations; 112 singles; 132 pairs	/resource/datasets/	Method calibration only; not muscle/DMD overexpression evidence
DATA:GSE233606	source	Single-cell DMD induction response	GSE233606	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GSE264667	source	HepG2 TRADE Perturb-seq training substrate	GSE264667	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GSE272233	source	DMD-locus correction transcript reference	GSE272233	Duchenne muscular dystrophy	Patient-derived and corrected cellular models	workspace-local	AVAILABLE	21 samples; 3 per reported group	/resource/datasets/	Orthogonal disease-correction reference
DATA:GSE277637	source	DMD skeletal-muscle organoid single-cell atlas	GSE277637	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GSE288958	source	Human DMD/BMD/control muscle biopsy atlas	GSE288958	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GSE293514	source	Human myoblast fusion perturbation screen	GSE293514	Muscle context; not DMD rescue	Human myoblast	workspace-local	AVAILABLE	7,197 screen genes; 250 hits; 125 individually validated genes	/resource/datasets/	Observed healthy-myoblast functional perturbation reference (Stage B0), not DMD replication
DATA:GSE297388	source	DMD mouse single-cell and spatial atlas	GSE297388	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GSE52529	source	Human myogenic differentiation trajectory	GSE52529	Non-disease trajectory reference	Primary human skeletal myoblast	workspace-local	AVAILABLE	271 cells	/resource/datasets/	Unperturbed trajectory reference only
DATA:dmd_donor_pseudobulk_v01	source	Dmd Donor Pseudobulk V01	dmd_donor_pseudobulk_v01	DMD	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:multidisease_v01	source	Multidisease V01	multidisease_v01	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:multidisease_v02	source	Multidisease V02	multidisease_v02	Multi-context	processed biological data	workspace-local	AVAILABLE	directory-level family	/resource/datasets/	Source or processed input for a governed NMD-VCell analysis.
DATA:GENCODE50	source	REFERENCE · GENCODE50	GENCODE50	REFERENCE	transcript_to_hgnc_symbol_mapping	workspace-local registry	AVAILABLE	1 registered source files	/resource/diseases/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE143452	source	FSHD · GSE143452	GSE143452	FSHD	patient_myotube_single_nucleus_expression · sample_and_series_metadata	workspace-local registry	AVAILABLE	2 registered source files	/resource/disease/fshd/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE205421	source	FSHD · GSE205421	GSE205421	FSHD	dux4_induction_timecourse_raw_counts · dux4_induction_timecourse_tpm	workspace-local registry	AVAILABLE	3 registered source files	/resource/disease/fshd/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE303359	source	FSHD · GSE303359	GSE303359	FSHD	membrane_repair_ferroptosis_file_registry · sample_and_series_metadata	workspace-local registry	AVAILABLE	2 registered source files	/resource/disease/fshd/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE127296	source	DM1 · GSE127296	GSE127296	DM1	isogenic_repeat_state_expression · isogenic_repeat_state_differential_expression	workspace-local registry	AVAILABLE	8 registered source files	/resource/disease/dm1/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE201255	source	DM1 · GSE201255	GSE201255	DM1	patient_muscle_raw_counts · patient_muscle_sample_order	workspace-local registry	AVAILABLE	4 registered source files	/resource/disease/dm1/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE290979	source	SMA · GSE290979	GSE290979	SMA	spinal_organoid_disease_and_aso_rescue_counts · sample_and_series_metadata	workspace-local registry	AVAILABLE	2 registered source files	/resource/disease/sma/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE290980	source	SMA · GSE290980	GSE290980	SMA	spinal_organoid_single_cell_file_registry · sample_and_series_metadata	workspace-local registry	AVAILABLE	2 registered source files	/resource/disease/sma/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE252128	source	SMA · GSE252128	GSE252128	SMA	treated_patient_muscle_gene_counts · treated_patient_muscle_gene_tpm	workspace-local registry	AVAILABLE	3 registered source files	/resource/disease/sma/	Multi-disease disease-state, rescue or mechanism evidence.
DATA:GSE302774	source	SMA · GSE302774	GSE302774	SMA	motor_neuron_smn_loss_differential_expression · induced_neuron_smn_loss_differential_expression	workspace-local registry	AVAILABLE	3 registered source files	/resource/disease/sma/	Multi-disease disease-state, rescue or mechanism evidence.
RESULT:adam10_operating_characteristics_v087	analysis	Adam10 Operating Characteristics V087	adam10_operating_characteristics_v087	Cross-context	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:candidate_dmd_statistical_bridge_v02	analysis	Candidate Dmd Statistical Bridge V02	candidate_dmd_statistical_bridge_v02	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cascade-network/	Traceable local analysis family retained in the project workspace.
RESULT:candidate_pathway_cascade_network_v01	analysis	Candidate Pathway Cascade Network V01	candidate_pathway_cascade_network_v01	Cross-context	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cascade-network/	Traceable local analysis family retained in the project workspace.
RESULT:cellspatialfoundation_frozen_preflight_v01	analysis	Cellspatialfoundation Frozen Preflight V01	cellspatialfoundation_frozen_preflight_v01	Cross-context	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:cellspatialfoundation_gbtissue_gate_v01	analysis	Cellspatialfoundation Gbtissue Gate V01	cellspatialfoundation_gbtissue_gate_v01	Cross-context	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:cellspatialfoundation_gbtissue_preflight_gse297388_v03	analysis	Cellspatialfoundation Gbtissue Preflight Gse297388 V03	cellspatialfoundation_gbtissue_preflight_gse297388_v03	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:cleanroom_measured_dmd_release_v01	analysis	Cleanroom Measured Dmd Release V01	cleanroom_measured_dmd_release_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_causal_perturbation_outcome_reference_v01	analysis	DMD causal perturbation outcome reference v01	dmd_causal_perturbation_outcome_reference_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_core4_target_panels_20260812	analysis	Dmd Core4 Target Panels 20260812	dmd_core4_target_panels_20260812	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_context_truncation_sensitivity_v01	analysis	Dmd Nicheformer Context Truncation Sensitivity V01	dmd_nicheformer_context_truncation_sensitivity_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_frozen_embedding_server_v01	analysis	Dmd Nicheformer Frozen Embedding Server V01	dmd_nicheformer_frozen_embedding_server_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_frozen_embedding_v01	analysis	Dmd Nicheformer Frozen Embedding V01	dmd_nicheformer_frozen_embedding_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_legacy_ckpt_full_v01	analysis	Dmd Nicheformer Legacy Ckpt Full V01	dmd_nicheformer_legacy_ckpt_full_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_legacy_ckpt_smoke_v01	analysis	Dmd Nicheformer Legacy Ckpt Smoke V01	dmd_nicheformer_legacy_ckpt_smoke_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_legacy_input_contract_audit_v01	analysis	Dmd Nicheformer Legacy Input Contract Audit V01	dmd_nicheformer_legacy_input_contract_audit_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_nicheformer_technology_mean_audit_v01	analysis	Dmd Nicheformer Technology Mean Audit V01	dmd_nicheformer_technology_mean_audit_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_official_checkpoint_intake_server_v01	analysis	Dmd Official Checkpoint Intake Server V01	dmd_official_checkpoint_intake_server_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_official_checkpoint_intake_v01	analysis	Dmd Official Checkpoint Intake V01	dmd_official_checkpoint_intake_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_candidate_triage_v01	analysis	Dmd Spatial Candidate Triage V01	dmd_spatial_candidate_triage_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_backend_comparison_v01	analysis	Dmd Spatial Context Backend Comparison V01	dmd_spatial_context_backend_comparison_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_backend_comparison_v02_legacy_nicheformer	analysis	Dmd Spatial Context Backend Comparison V02 Legacy Nicheformer	dmd_spatial_context_backend_comparison_v02_legacy_nicheformer	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_condition_geometry_v01	analysis	Dmd Spatial Context Condition Geometry V01	dmd_spatial_context_condition_geometry_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_condition_geometry_v01_repeat	analysis	Dmd Spatial Context Condition Geometry V01 Repeat	dmd_spatial_context_condition_geometry_v01_repeat	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_embedding_baseline_v01	analysis	Dmd Spatial Context Embedding Baseline V01	dmd_spatial_context_embedding_baseline_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_gbtissue_gpu_embedding_strict_v01	analysis	Dmd Spatial Context Gbtissue Gpu Embedding Strict V01	dmd_spatial_context_gbtissue_gpu_embedding_strict_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_gbtissue_gpu_embedding_strict_v01_repeat	analysis	Dmd Spatial Context Gbtissue Gpu Embedding Strict V01 Repeat	dmd_spatial_context_gbtissue_gpu_embedding_strict_v01_repeat	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_gbtissue_gpu_embedding_v02	analysis	Dmd Spatial Context Gbtissue Gpu Embedding V02	dmd_spatial_context_gbtissue_gpu_embedding_v02	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_geometry_bootstrap_v01	analysis	Dmd Spatial Context Geometry Bootstrap V01	dmd_spatial_context_geometry_bootstrap_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_geometry_bootstrap_v01_repeat	analysis	Dmd Spatial Context Geometry Bootstrap V01 Repeat	dmd_spatial_context_geometry_bootstrap_v01_repeat	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_label_transfer_gate_v01	analysis	Dmd Spatial Context Label Transfer Gate V01	dmd_spatial_context_label_transfer_gate_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_context_stability_v01	analysis	Dmd Spatial Context Stability V01	dmd_spatial_context_stability_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_spatial_input_readiness_v01	analysis	Dmd Spatial Input Readiness V01	dmd_spatial_input_readiness_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_target_panels_20260812	analysis	Dmd Target Panels 20260812	dmd_target_panels_20260812	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_target_panels_disease_compartments_20260812	analysis	Dmd Target Panels Disease Compartments 20260812	dmd_target_panels_disease_compartments_20260812	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_target_panels_disease_compartments_clean_20260812	analysis	Dmd Target Panels Disease Compartments Clean 20260812	dmd_target_panels_disease_compartments_clean_20260812	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:dmd_vs_wt_target_significance_20260812	analysis	Dmd Vs Wt Target Significance 20260812	dmd_vs_wt_target_significance_20260812	DMD	perturbation / target analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:external_dmd_pathway_reversal_v01	analysis	External Dmd Pathway Reversal V01	external_dmd_pathway_reversal_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse233606_single_cell_dmd_induction_v01	analysis	GSE233606 Single Cell Dmd Induction V01	gse233606_single_cell_dmd_induction_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse272233_replicate_aware_reactome_v01	analysis	GSE272233 Replicate Aware Reactome V01	gse272233_replicate_aware_reactome_v01	Cross-context	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse277637_external_dmd_organoid_validation_v01	analysis	GSE277637 External Dmd Organoid Validation V01	gse277637_external_dmd_organoid_validation_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_analyst_celltype_annotation_v01	analysis	GSE297388 Analyst Celltype Annotation V01	gse297388_analyst_celltype_annotation_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_analyst_celltype_annotation_v02	analysis	GSE297388 Analyst Celltype Annotation V02	gse297388_analyst_celltype_annotation_v02	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_analyst_spatial_deconvolution_v01	analysis	GSE297388 Analyst Spatial Deconvolution V01	gse297388_analyst_spatial_deconvolution_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_analyst_spatial_deconvolution_v02	analysis	GSE297388 Analyst Spatial Deconvolution V02	gse297388_analyst_spatial_deconvolution_v02	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_annotation_source_triage_v01	analysis	GSE297388 Annotation Source Triage V01	gse297388_annotation_source_triage_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_annotation_source_triage_v02	analysis	GSE297388 Annotation Source Triage V02	gse297388_annotation_source_triage_v02	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_author_label_contract_v01	analysis	GSE297388 Author Label Contract V01	gse297388_author_label_contract_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_gbtissue_exploratory_geometry_v01	analysis	GSE297388 Gbtissue Exploratory Geometry V01	gse297388_gbtissue_exploratory_geometry_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_gbtissue_strict_descriptive_release_v01	analysis	GSE297388 Gbtissue Strict Descriptive Release V01	gse297388_gbtissue_strict_descriptive_release_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_gbtissue_strict_ortholog_geometry_v01	analysis	GSE297388 Gbtissue Strict Ortholog Geometry V01	gse297388_gbtissue_strict_ortholog_geometry_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_gbtissue_strict_ortholog_stability_v01	analysis	GSE297388 Gbtissue Strict Ortholog Stability V01	gse297388_gbtissue_strict_ortholog_stability_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_mouse_human_ortholog_gate_v01	analysis	GSE297388 Mouse Human Ortholog Gate V01	gse297388_mouse_human_ortholog_gate_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_scrna_reference_preflight_v01	analysis	GSE297388 Scrna Reference Preflight V01	gse297388_scrna_reference_preflight_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_section_replication_audit_v01	analysis	GSE297388 Section Replication Audit V01	gse297388_section_replication_audit_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_spatial_context_embedding_baseline_v01	analysis	GSE297388 Spatial Context Embedding Baseline V01	gse297388_spatial_context_embedding_baseline_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_spatial_context_knn_stability_v01	analysis	GSE297388 Spatial Context Knn Stability V01	gse297388_spatial_context_knn_stability_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_spatial_context_negative_controls_v01	analysis	GSE297388 Spatial Context Negative Controls V01	gse297388_spatial_context_negative_controls_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_spatial_gbtissue_composition_gate_v01	analysis	GSE297388 Spatial Gbtissue Composition Gate V01	gse297388_spatial_gbtissue_composition_gate_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:gse297388_spatial_preflight_v01	analysis	GSE297388 Spatial Preflight V01	gse297388_spatial_preflight_v01	DMD	spatial / representation	workspace results	ANALYSIS_AVAILABLE	result family	/resource/cell-browser/	Traceable local analysis family retained in the project workspace.
RESULT:high_quality_upgrade	analysis	High Quality Upgrade	high_quality_upgrade	Cross-context	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:model_intelligence_execution_v01	analysis	Model Intelligence Execution V01	model_intelligence_execution_v01	Cross-context	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:multidisease_release_v01	analysis	Multidisease Release V01	multidisease_release_v01	Multi-disease	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:multidisease_release_v02	analysis	Multidisease Release V02	multidisease_release_v02	Multi-disease	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:nar_measured_dmd_evidence_v01	analysis	Nar Measured Dmd Evidence V01	nar_measured_dmd_evidence_v01	DMD	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
RESULT:site_deployment_v109	analysis	Site Deployment V109	site_deployment_v109	Cross-context	derived analysis	workspace results	ANALYSIS_AVAILABLE	result family	/resource/data-universe/	Traceable local analysis family retained in the project workspace.
MODEL:cellspatialfoundation	model	Cellspatialfoundation	cellspatialfoundation	Cross-context	model code / checkpoint	workspace models	MODEL_ASSET_AVAILABLE	79 files across 2 model families	/resource/models/	Local model or checkpoint asset; execution and disease applicability are audited separately.
MODEL:nicheformer	model	Nicheformer	nicheformer	Cross-context	model code / checkpoint	workspace models	MODEL_ASSET_AVAILABLE	79 files across 2 model families	/resource/models/	Local model or checkpoint asset; execution and disease applicability are audited separately.
PUBLICATION:CURATED-V08-5	publication	Curated v08.5 semantic-contract working package	curated_v08_5	Multi-disease	manuscript · figures · tables · evidence-governance schema	workspace curated release	CURATED_WORKING_NOT_SUBMISSION_READY	6 main figures (36 files) · 31 supplementary figures (114 files) · 44 tables	/resource/diseases/	Current working manuscript, figures, supplement, schema and website consistency contract; not submission-ready.
API:PUBLIC-RESOURCE	api	Public website and typed API	public/resource	Multi-disease	HTML · JSON · TSV · schemas	public release	PUBLISHED	669 API files	/resource/api	Publicly navigable research objects, manifests, schemas and downloads.
GAP:DMD-PERTURBATION-OUTCOME	missing	Matched candidate-level DMD perturbation outcomes	DMD-PERTURBATION-OUTCOME	DMD	planned molecular + functional outcomes	not yet measured	DECISION_CRITICAL_GAP	No governed candidate has matched DMD outcome yet	/resource/planner	Required to pilot-test disease-conditioned virtual-cell counterfactual assignment.
SERVER:DMD-SINGLE-CELL	server	Integrated DMD single-cell analysis	DMD-SINGLE-CELL	DMD	single-cell · pseudobulk	server /share	SERVER_AVAILABLE	annotated objects and cell-type differential results	/resource/data-universe/	annotated objects and cell-type differential results
SERVER:DMD-SEMA3C	server	DMD SEMA3C single-cell and spatial program	DMD-SEMA3C	DMD	single-cell · spatial · NicheNet	server /share	SERVER_AVAILABLE	state-resolved and cell-communication analyses	/resource/data-universe/	state-resolved and cell-communication analyses
SERVER:CROSS-SPECIES	server	Human, mouse and macaque model-validity assets	CROSS-SPECIES	DMD	cross-species h5ad	server /share	SERVER_AVAILABLE	SATURN and TranscriptFormer-ready counts	/resource/data-universe/	SATURN and TranscriptFormer-ready counts
SERVER:VIRTUAL-CELL	server	Virtual-cell execution workspace	VIRTUAL-CELL	Cross-context	STATE · baselines · candidate screens	server /share	SERVER_AVAILABLE	66 result families and 2,278 result files	/resource/data-universe/	66 result families and 2,278 result files
SERVER:CLINICAL-DMD	server	Clinical DMD single-cell matrices	CLINICAL-DMD	DMD	patient 10x matrices	server /share	SERVER_AVAILABLE	four own clinical DMD matrices	/resource/data-universe/	four own clinical DMD matrices
SERVER:RAW-VALIDATION	server	Large external validation archives	RAW-VALIDATION	DMD	FASTQ · STARsolo · SRA	server /share	SERVER_AVAILABLE	retained for reproducibility; not required for current site rendering	/resource/data-universe/	retained for reproducibility; not required for current site rendering
SERVER-PRIORITY:001	server	Celltype Final Pseudobulk Delta De All	SRV-DATA-001	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	50M · priority 1	/resource/data-universe/	Cell-type-level DMD pseudobulk delta/DE table; best first sync.
SERVER-PRIORITY:002	server	Baseline Pseudobulk S Vs C DE All Celltypes	SRV-DATA-002	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	37M · priority 1	/resource/data-universe/	Group-aware baseline pseudobulk DMD-vs-control DE.
SERVER-PRIORITY:003	server	Source State Pseudobulk Counts	SRV-DATA-003	DMD	tsv	server /share · storage path withheld	READY_FOR_ANALYSIS	6.4M · priority 1	/resource/data-universe/	Source-state pseudobulk counts for state-level DMD signal.
SERVER-PRIORITY:004	server	Target State Dmd Vs Wt De Summary	SRV-DATA-004	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	3.7M · priority 1	/resource/data-universe/	Compact DMD-vs-WT target-state DE summary.
SERVER-PRIORITY:005	server	Target State All Gene Pseudobulk	SRV-DATA-005	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	24M · priority 1	/resource/data-universe/	All-gene target-state pseudobulk matrix.
SERVER-PRIORITY:006	server	Limma Delta DiD All Celltypes	SRV-DATA-006	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	50M · priority 2	/resource/data-universe/	Alternative limma delta-DiD table.
SERVER-PRIORITY:007	server	*	SRV-DATA-007	DMD	rds	server /share · storage path withheld	READY_FOR_ANALYSIS	many · priority 2	/resource/data-universe/	Cell-type-specific pseudobulk count RDS files.
SERVER-PRIORITY:008	server	DESeq2 * DMD Vs WT	SRV-DATA-008	DMD	csv	server /share · storage path withheld	READY_FOR_ANALYSIS	many · priority 2	/resource/data-universe/	State-specific DMD-vs-WT DESeq2 outputs.
SERVER-PRIORITY:009	server	Seurat Qc Harmony Annotated Final V1	SRV-DATA-009	DMD	rds	server /share · storage path withheld	SERVER_AVAILABLE	2.19G · priority 2	/resource/data-universe/	Main annotated integrated DMD Seurat object; useful but larger and R-dependent.
SERVER-PRIORITY:010	server	Seurat Raw Merged	SRV-DATA-010	DMD	rds	server /share · storage path withheld	SERVER_AVAILABLE	838M · priority 3	/resource/data-universe/	Raw merged Seurat object.
SERVER-PRIORITY:011	server	GSE156497 Merged Raw Rebuilt 20260604	SRV-DATA-011	DMD	h5ad	server /share · storage path withheld	READY_FOR_ANALYSIS	238M · priority 2	/resource/data-universe/	External validation AnnData object.
SERVER-PRIORITY:012	server	Prjna772047 Human Muscle Phase41 Ready	SRV-DATA-012	DMD	h5ad	server /share · storage path withheld	READY_FOR_ANALYSIS	179M · priority 2	/resource/data-universe/	Human muscle DMD/healthy ready AnnData.
SERVER-PRIORITY:013	server	Human Saturn Ready Counts	SRV-DATA-013	DMD	h5ad	server /share · storage path withheld	READY_FOR_ANALYSIS	38M · priority 3	/resource/data-universe/	Human SATURN/TranscriptFormer-ready counts.
SERVER-PRIORITY:014	server	Mouse Saturn Ready Counts	SRV-DATA-014	DMD	h5ad	server /share · storage path withheld	READY_FOR_ANALYSIS	26M · priority 3	/resource/data-universe/	Mouse SATURN/TranscriptFormer-ready counts.
SERVER-PRIORITY:015	server	Macaque Saturn Ready Counts	SRV-DATA-015	DMD	h5ad	server /share · storage path withheld	READY_FOR_ANALYSIS	70M · priority 3	/resource/data-universe/	Macaque SATURN/TranscriptFormer-ready counts.
SERVER-PRIORITY:016	server	*	SRV-DATA-016	DMD	h5ad	server /share · storage path withheld	SERVER_AVAILABLE	21M-688M · priority 3	/resource/data-universe/	Human dystrophinopathy Visium/CellxGene spatial assets.
SERVER-PRIORITY:017	server	GSE135893 Matrix.Mtx	SRV-DATA-017	DMD	mtx.gz	server /share · storage path withheld	SERVER_AVAILABLE	1.08G · priority 3	/resource/data-universe/	Large public DMD matrix; requires metadata harmonization.
SERVER-PRIORITY:018	server	GSE288958 RAW	SRV-DATA-018	DMD	tar	server /share · storage path withheld	SERVER_AVAILABLE	360M · priority 3	/resource/data-universe/	GSE288958 raw package.
SERVER-PRIORITY:019	server	Human Gse288958 Counts Genes By Cells	SRV-DATA-019	DMD	mtx	server /share · storage path withheld	SERVER_AVAILABLE	178M · priority 3	/resource/data-universe/	GSE288958 exported counts matrix.
SERVER-PRIORITY:020	server	Restricted clinical DMD matrix 20	SRV-DATA-020	DMD	mtx.gz	server /share · storage path withheld	SERVER_AVAILABLE	109M · priority 3	/resource/data-universe/	Restricted clinical matrix; public metadata summary only.
SERVER-PRIORITY:021	server	Restricted clinical DMD matrix 21	SRV-DATA-021	DMD	mtx.gz	server /share · storage path withheld	SERVER_AVAILABLE	134M · priority 3	/resource/data-universe/	Restricted clinical matrix; public metadata summary only.
SERVER-PRIORITY:022	server	Restricted clinical DMD matrix 22	SRV-DATA-022	DMD	mtx.gz	server /share · storage path withheld	SERVER_AVAILABLE	117M · priority 3	/resource/data-universe/	Restricted clinical matrix; public metadata summary only.
SERVER-PRIORITY:023	server	Restricted clinical DMD matrix 23	SRV-DATA-023	DMD	mtx.gz	server /share · storage path withheld	SERVER_AVAILABLE	69M · priority 3	/resource/data-universe/	Restricted clinical matrix; public metadata summary only.
SERVER-PRIORITY:024	server	DS03 PRJNA772047	SRV-DATA-024	DMD	fastq+starsolo	server /share · storage path withheld	SERVER_AVAILABLE	197G · priority 4	/resource/data-universe/	Human Duchenne vs healthy; avoid first full sync.
SERVER-PRIORITY:025	server	DS02 PRJNA1218493	SRV-DATA-025	DMD	fastq+starsolo	server /share · storage path withheld	SERVER_AVAILABLE	235G · priority 4	/resource/data-universe/	Human DMD/normal; avoid first full sync.
SERVER-PRIORITY:026	server	Prjna771932 Lite Rescue 20260612	SRV-DATA-026	DMD	sra	server /share · storage path withheld	SERVER_AVAILABLE	45G · priority 4	/resource/data-universe/	Mouse mdx/WT SRA; use only if reprocessing is needed.
SERVER-PRIORITY:027	server	Matrix	SRV-DATA-027	DMD	mtx	server /share · storage path withheld	SERVER_AVAILABLE	15M · priority 4	/resource/data-universe/	Mouse mdx STARsolo raw matrix.
SERVER-PRIORITY:028	server	Matrix	SRV-DATA-028	DMD	mtx	server /share · storage path withheld	SERVER_AVAILABLE	7.6M · priority 4	/resource/data-universe/	Mouse mdx STARsolo raw matrix.