- Can answer now
- Which disease, donor, tissue and cell-state contexts are represented well enough to frame a DMD question.
- Cannot answer alone
- Whether one candidate perturbation changes a DMD muscle outcome.
- Model or experiment handoff
- Open Disease Atlas or Cell Browser before selecting a perturbation.
Data Universe · scientific inventory workbench
Know what exists, what qualifies, and what is still missing.
Storage presence, analysis coverage, public mapping and prediction qualification answer different scientific questions. This page preserves their real units and lets you inspect one governed object at a time.
Summary matrix
One platform, four non-interchangeable questions.
Each row declares the object type, counting unit and inclusion rule before showing a value.
| Scientific question | Object type | Counting unit | Inclusion rule | Current state |
|---|---|---|---|---|
| What is stored? | Source collection | Family | Present in audited workspace or governed /share inventory | 12 workspace + 80 server families |
| What has been analyzed? | Result collection | Analysis family | Derived output family exists; not an independent validation | 65 workspace + 66 server families |
| What is publicly mapped? | Inventory record / API object | Public summary or file | Released through a stable public route | 126 inventory records · 712 API files |
| What qualifies a prediction? | Dataset Card + ModelRun + Outcome | Task-qualified evidence chain | Matched context, frozen task, baseline gate and measured outcome | Not yet qualified for DMD candidate response |
5 task-audited datasets⊂126 public inventory records⊂92+ stored family-level collections
Data value map
What can this data answer now, and where should it go next?
The inventory is useful when each data family is routed to the right scientific task. This map turns storage into decision flow without pretending that coverage is calibration.
- Can answer now
- Which observed perturbation substrates and contextual screens are reusable for baseline, transfer or assay design.
- Cannot answer alone
- A calibrated DMD rescue, toxicity or fusion prediction without matched disease-context outcomes.
- Model or experiment handoff
- Open Dataset Cards, then ask the target in Virtual Cell.
- Can answer now
- Which model runs executed, which benchmarks are permanent controls and which task gates failed or remain locked.
- Cannot answer alone
- A disease-conditioned counterfactual when the required outcome edge is absent.
- Model or experiment handoff
- Open ModelRun Registry or Benchmark Center before interpreting model-like outputs.
- Can answer now
- Which experiment would convert an evidence gap into a reusable outcome object.
- Cannot answer alone
- A positive or negative biological effect before the registered study exists.
- Model or experiment handoff
- Use Planner or Study Cards to freeze assay, controls, endpoint and decision rule.
Shared reading grammar
Evidence metadata fields—never one confidence score.
Every state uses text plus a shape or border. Missing evidence and a equivalent-null result are different states.
Scientific datasets · default view
Start with five datasets audited for a defined computational role.
Each Dataset Card states context, task, units and claim boundary. Derived analyses and storage inventory remain available below for Audit use.
Same-assay response substrate and permanent baseline context.
Open Dataset Card →Patient-derived and corrected cellular reference with biological units preserved.
Open Dataset Card →Healthy-myoblast fusion perturbation evidence; contextual, not DMD replication.
Open Dataset Card →Unperturbed human differentiation reference across physical time.
Open Dataset Card →Non-muscle CRISPRa method calibration; no inherited DMD claim.
Open Dataset Card →Technical inventory — Audit · 126 governed records
Table + inspector
126 governed inventory records
Select a row to inspect what the object proves, what it cannot prove and where its public object lives.
Showing all 126 mapped assets.
| Object | Layer | Disease | Modality | State | Scale |
|---|---|---|---|---|---|
| source | Non-muscle method calibration | K562 | AVAILABLE | 287 perturbations; 112 singles; 132 pairs | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Duchenne muscular dystrophy | Patient-derived and corrected cellular models | AVAILABLE | 21 samples; 3 per reported group | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Muscle context; not DMD rescue | Human myoblast | AVAILABLE | 7,197 screen genes; 250 hits; 125 individually validated genes | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Non-disease trajectory reference | Primary human skeletal myoblast | AVAILABLE | 271 cells | |
| source | DMD | processed biological data | AVAILABLE | directory-level family | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | Multi-context | processed biological data | AVAILABLE | directory-level family | |
| source | REFERENCE | transcript_to_hgnc_symbol_mapping | AVAILABLE | 1 registered source files | |
| source | FSHD | patient_myotube_single_nucleus_expression · sample_and_series_metadata | AVAILABLE | 2 registered source files | |
| source | FSHD | dux4_induction_timecourse_raw_counts · dux4_induction_timecourse_tpm | AVAILABLE | 3 registered source files | |
| source | FSHD | membrane_repair_ferroptosis_file_registry · sample_and_series_metadata | AVAILABLE | 2 registered source files | |
| source | DM1 | isogenic_repeat_state_expression · isogenic_repeat_state_differential_expression | AVAILABLE | 8 registered source files | |
| source | DM1 | patient_muscle_raw_counts · patient_muscle_sample_order | AVAILABLE | 4 registered source files | |
| source | SMA | spinal_organoid_disease_and_aso_rescue_counts · sample_and_series_metadata | AVAILABLE | 2 registered source files | |
| source | SMA | spinal_organoid_single_cell_file_registry · sample_and_series_metadata | AVAILABLE | 2 registered source files | |
| source | SMA | treated_patient_muscle_gene_counts · treated_patient_muscle_gene_tpm | AVAILABLE | 3 registered source files | |
| source | SMA | motor_neuron_smn_loss_differential_expression · induced_neuron_smn_loss_differential_expression | AVAILABLE | 3 registered source files | |
| analysis | Cross-context | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | perturbation / target analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | spatial / representation | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Multi-disease | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Multi-disease | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | DMD | derived analysis | ANALYSIS AVAILABLE | result family | |
| analysis | Cross-context | derived analysis | ANALYSIS AVAILABLE | result family | |
| model | Cross-context | model code / checkpoint | MODEL ASSET AVAILABLE | 79 files across 2 model families | |
| model | Cross-context | model code / checkpoint | MODEL ASSET AVAILABLE | 79 files across 2 model families | |
| publication | Multi-disease | manuscript · figures · tables · evidence-governance schema | CURATED WORKING NOT SUBMISSION READY | 6 main figures (36 files) · 31 supplementary figures (114 files) · 44 tables | |
| api | Multi-disease | HTML · JSON · TSV · schemas | PUBLISHED | 669 API files | |
| missing | DMD | planned molecular + functional outcomes | DECISION CRITICAL GAP | No governed candidate has matched DMD outcome yet | |
| server | DMD | single-cell · pseudobulk | SERVER AVAILABLE | annotated objects and cell-type differential results | |
| server | DMD | single-cell · spatial · NicheNet | SERVER AVAILABLE | state-resolved and cell-communication analyses | |
| server | DMD | cross-species h5ad | SERVER AVAILABLE | SATURN and TranscriptFormer-ready counts | |
| server | Cross-context | STATE · baselines · candidate screens | SERVER AVAILABLE | 66 result families and 2,278 result files | |
| server | DMD | patient 10x matrices | SERVER AVAILABLE | four own clinical DMD matrices | |
| server | DMD | FASTQ · STARsolo · SRA | SERVER AVAILABLE | retained for reproducibility; not required for current site rendering | |
| server | DMD | csv | READY FOR ANALYSIS | 50M · priority 1 | |
| server | DMD | csv | READY FOR ANALYSIS | 37M · priority 1 | |
| server | DMD | tsv | READY FOR ANALYSIS | 6.4M · priority 1 | |
| server | DMD | csv | READY FOR ANALYSIS | 3.7M · priority 1 | |
| server | DMD | csv | READY FOR ANALYSIS | 24M · priority 1 | |
| server | DMD | csv | READY FOR ANALYSIS | 50M · priority 2 | |
| server | DMD | rds | READY FOR ANALYSIS | many · priority 2 | |
| server | DMD | csv | READY FOR ANALYSIS | many · priority 2 | |
| server | DMD | rds | SERVER AVAILABLE | 2.19G · priority 2 | |
| server | DMD | rds | SERVER AVAILABLE | 838M · priority 3 | |
| server | DMD | h5ad | READY FOR ANALYSIS | 238M · priority 2 | |
| server | DMD | h5ad | READY FOR ANALYSIS | 179M · priority 2 | |
| server | DMD | h5ad | READY FOR ANALYSIS | 38M · priority 3 | |
| server | DMD | h5ad | READY FOR ANALYSIS | 26M · priority 3 | |
| server | DMD | h5ad | READY FOR ANALYSIS | 70M · priority 3 | |
| server | DMD | h5ad | SERVER AVAILABLE | 21M-688M · priority 3 | |
| server | DMD | mtx.gz | SERVER AVAILABLE | 1.08G · priority 3 | |
| server | DMD | tar | SERVER AVAILABLE | 360M · priority 3 | |
| server | DMD | mtx | SERVER AVAILABLE | 178M · priority 3 | |
| server | DMD | mtx.gz | SERVER AVAILABLE | 109M · priority 3 | |
| server | DMD | mtx.gz | SERVER AVAILABLE | 134M · priority 3 | |
| server | DMD | mtx.gz | SERVER AVAILABLE | 117M · priority 3 | |
| server | DMD | mtx.gz | SERVER AVAILABLE | 69M · priority 3 | |
| server | DMD | fastq+starsolo | SERVER AVAILABLE | 197G · priority 4 | |
| server | DMD | fastq+starsolo | SERVER AVAILABLE | 235G · priority 4 | |
| server | DMD | sra | SERVER AVAILABLE | 45G · priority 4 | |
| server | DMD | mtx | SERVER AVAILABLE | 15M · priority 4 | |
| server | DMD | mtx | SERVER AVAILABLE | 7.6M · priority 4 |
Why abundant data can coexist with abstention
Coverage and calibration are different questions.
Available: patient disease context, organoids, biopsies, spatial tissue, cross-species objects, observed perturbations, registered ModelRuns and derived pathways.
Not measured yet: matched candidate perturbation outcomes in DMD-relevant muscle with molecular and functional endpoints. This missing calibration edge—not a lack of project data—keeps the disease counterfactual locked.
Public projection contract
Catalog pages now read an approved public field set
122 public metadata records expose only approved catalog fields. 4 controlled clinical records are collapsed to collection-level metadata.