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Module meaning contract
Data & API · what this module can change
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Start with fifteen current objects.
The default download page now contains only current release objects. Reproducibility materials and the historical ledger live on separate routes so readers do not have to visually parse every archived file.
Current platform release manifest
The authoritative map for v1.2.0-measured-dmd-evidence: Stage C1+C2, four disease modules, the current Workbench overlay, SQLite, APIs, schemas and checksums. Measured DMD context · 0/21 candidate perturbation outcomes.
- Use
- Current platform authority
- Version
- v1.2.0-measured-dmd-evidence
- Size
- JSON
- SHA
- see checksums
Base publication snapshot manifest
The immutable v1.0.0-database-resource database-paper identity. This object preserves the older bytes and claim boundary; it is not the live platform manifest.
- Use
- Frozen citation base
- Version
- v1.0.0-database-resource
- Size
- JSON
- SHA
- b435f210…
Source-release RO-Crate
One checksummed ZIP is generated and retained with the fixed source release. Direct Sites hosting is excluded; public APIs, current tables, code, QC, the Workbench overlay and checksum manifests remain individually accessible.
- Use
- Portable research snapshot
- Version
- v1.2.0-measured-dmd-evidence
- Size
- Source artifact
- SHA
- see portable manifest
120-table relational database
120 non-empty tables are registered inside the source-release RO-Crate. Direct Sites hosting is excluded while typed JSON APIs remain public.
- Use
- Relational reuse
- Version
- v1.2.0-measured-dmd-evidence
- Size
- 35.4 MB
- SHA
- 874377d9…
Candidate-state tables
Current action, transition history and evidence-state policy; use these instead of historical ranks for current decisions.
- Use
- Current candidate state
- Version
- v1.2.0-measured-dmd-evidence
- Size
- 7.5 KB
- SHA
- 4c3f19d4…
What each candidate is actually for
All 21 governed hypotheses are linked to one research question, one decision available now, one blocking gap, one minimum next action and explicit supportive, null and inconclusive result rules. No target rank is generated.
- Use
- Candidate-to-decision reuse
- Version
- v1.2.0-measured-dmd-evidence
- Size
- JSON + TSV
- SHA
- resource manifest
17,921 typed gene records
Checksum-addressable buckets plus schema 1.1 OpenAPI; no login or generated server-side score.
- Use
- Bulk gene API
- Version
- v1.2.0-measured-dmd-evidence
- Size
- bucketed JSON
- SHA
- per bucket
Checksums and file registry
Verify public bytes, object identities and release boundaries before reuse or deposition.
- Use
- Rebuild / verify
- Version
- v1.2.0-measured-dmd-evidence
- Size
- route bundle
- SHA
- checksums
v09.80 figure-and-manuscript review packet
All six main figures, caption book, LaTeX include, source-bound Figure 3 audit matrix and ARS Figure/Table Trace. Local staging only; not a production deployment or final submission freeze.
- Use
- Reviewer / submission-prep packet
- Version
- v09.80 scientific packet · v09.81 local staging
- Size
- 13.1 MB zip
- SHA
- a840f05b…
21 draft Study Cards
YAML/TSV exports, prediction-card schema and outcome-board schema for prospective registration.
- Use
- Study design scaffold
- Version
- v1.2.0-measured-dmd-evidence
- Size
- YAML/TSV
- SHA
- manifested
Human-myoblast perturbation network
31 published knockout hits connect to ten named complexes plus MYMK, exact fusion-screen effects, 17 individual-validation edges and two qualitative grouped CROP-seq state edges.
- Use
- Observed functional perturbation reuse
- Version
- v1.2.0-measured-dmd-evidence
- Size
- JSON + TSV
- SHA
- source manifest
Candidate pathway cascade release
Measured HepG2 effects for 21 candidates, 1,360 Reactome pathway nodes, topology controls, cross-context DMD projections and explicit abstention states.
- Use
- Pathway cascade reuse and prospective study design
- Version
- PCN-v0.1-20260802
- Size
- JSON + TSV.GZ + PDF
- SHA
- analysis manifest
Competitive pathways and DMD-source heterogeneity
Cell-level exploratory candidate differential expression, 28,938 cameraPR tests, 1,782 direction-robust candidate-pathway pairs, 3,210 projected reversals and a prespecified prospective validation design.
- Use
- Statistical audit and prospective DMD experiment prioritization
- Version
- PCB-v0.2-20260804
- Size
- API + TSV.GZ + PDF
- SHA
- release manifest
Correction and external pathway validation
Biological-repeat-aware GSE272233 Reactome tests, donor/sample pseudobulk validation, sample QC, Figure 8 source data, an explicit candidate-validation limitation and a 16-check clean-room receipt.
- Use
- Measured disease-context analysis and reuse
- Version
- v1.2.0-measured-dmd-evidence
- Size
- API + TSV.GZ + PDF
- SHA
- release manifest
Data, model, distribution and benchmark registries
Dataset Catalog, standardized Model Cards, the G0–G7 Benchmark Suite, a distribution-prediction schema, metric governance and challenge watch are available as typed JSON.
- Use
- AI-system audit and reuse
- Version
- v1.2.0-measured-dmd-evidence
- Size
- JSON + TSV
- SHA
- resource manifest
Eight-module meaning contract
Question, disease scope, evidence unit, output, claim ceiling and next legal handoff for every primary module, plus the disease × module capability matrix.
- Use
- Interpretation and navigation audit
- Version
- v1.2.0-measured-dmd-evidence
- Size
- JSON + TSV
- SHA
- resource manifest
Current identity
Three objects define the current release candidate
FILE:CORE:v0.8.1:v24r1:20260722
nmd_vcell_database_resource_v0.8.1-v24r1-20260722.tar.gz
9,677,910 bytes · SHA b88a3b9f1ae4…
FILE:SQLITE:v0.9.2:schema1.1:20260725
nmd_vcell_sqlite_v0.9.2_schema1.1_20260725.sqlite
37,122,048 bytes · SHA 874377d932b6…
FILE:OVERLAY:v1.2.0-measured-dmd-evidence:stage5.106:20260904
nmd_vcell_research_workbench_overlay_v1.2.0_measured_dmd_evidence_20260904_stage5_106.tar.gz