BioLab · analysis studio
Analysis Tools
Explore biology. Audit reproducible analyses.
Every value on these pages is read from a file whose SHA-256 is checked when it is read, and every page says which of three things it shows: an archived result, an executed reanalysis with its record, or an exploration that computes nothing. Nothing runs from the browser.
- Analyses
- 6
- Execution records
- 6
- Verified inputs
- 14
Tools
Two work today; the rest are planned and say so. A planned tool has no action, only a pointer to the archived analysis that already covers part of its ground.
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MVA · BUB1B reanalyses
AvailableThe four reanalyses, the October 24 sensitivity audit and the structure metrics of the case, each with its traceability, execution records and downloads.
Explore results -
Protein Structure Explorer
ExplorationThe predicted BUBR1 model (AlphaFold, UniProt O60566) with residues 1002, 1012 and the L737* position, the archived structure metrics and the public variant evidence.
Open explorer -
Gene Expression Analyzer
PlannedExpression comparisons across public datasets.
Archived: GSE65145 RNA feature reanalysis -
Pathway & Network Explorer
PlannedPathway membership and interaction context for a gene set.
Related: Evidence Graph -
Variant Impact Analyzer
PlannedConsequence, population frequency and clinical annotations of a variant.
Archived: public variant evidence in the Structure Explorer -
Drug & Target Explorer
PlannedApproved and investigational compounds for a target, with their evidence.
Archived: 704-drug NMD screen reanalysis -
Statistical Research Workbench
PlannedReproducible statistical summaries with their code and inputs.
Archived: October 24 sensitivity audit
Analysis history · MVA · BUB1B
The analyses of the case, with the date their archived result was recorded and the date of their latest execution record. Open one to explore its results.
| Analysis | Status | Archived on | Latest execution | Records | |
|---|---|---|---|---|---|
| Rapamycin in human fibroblasts: BUB1B locus RNA signalSnapshot record MVA-RAP-GSE65145-001 |
|
2026-10-10 | Not available | 4 | Explore results |
| 704-drug NMD screen: reporter specificitySnapshot record MVA-NMD-003 |
|
2026-10-09 | Not available | 4 | Explore results |
| L737* readthrough: exact versus nearby contextsSnapshot record MVA-RT-002 |
|
2026-10-09 | Not available | 4 | Explore results |
| BUBR1 functional controls: arrest durationSnapshot record MVA-CTRL-006 |
|
2026-10-09 | Not available | 4 | Explore results |
| Post-hoc sensitivity audit (October 24, 2026) |
|
Not available | 2026-10-24 | 1 | Explore results |
| BUBR1 AlphaFold model: residues 1002, 1012 and the L737* transcript context |
|
Not available | 2026-09-10 | 1 | Explore results |
No analysis matches the search.
Execution records
Every run with a record: the research repository's own checks and the runs made on this platform. Each compares its outputs with the archived SHA-256 values.
| Execution / record time | What ran | Environment | Inputs | Artifacts versus archive | Record |
|---|---|---|---|---|---|
| Execution time unknownRecord packaged The original executedAt value was generated by the packaging script, not captured from the pipeline. It is preserved as recordedAt; the actual execution time is unknown.This platform | Execution on this platform (execution time unknown, CPython 3.13.17)Same fresh inputs, CPython 3.13.17 in a new virtual environment: interpreter deliberately outside the pinned version to show which artifact depends on it. | CPython 3.13.17 not the pinned interpreter pandas 2.2.3 · numpy 2.3.5 · scipy 1.17.0 · openpyxl 3.1.5 Isolated virtual environment | 14 / 14 verified by SHA-256Inputs fetched from the public URLs of input_manifest.json over the network, plus the two bundled public references; every byte count and SHA-256 compared with the manifest. |
|
Record (JSON) |
| Execution time unknownRecord packaged The original executedAt value was generated by the packaging script, not captured from the pipeline. It is preserved as recordedAt; the actual execution time is unknown.This platform | Execution on this platform (execution time unknown, CPython 3.12.3)Fresh network downloads of all 12 public inputs on 2026-10-24, each verified against input_manifest.json; system CPython 3.12.3 in a new virtual environment (the pinned 3.12.14 build was not available on this host). | CPython 3.12.3 not the pinned interpreter pandas 2.2.3 · numpy 2.3.5 · scipy 1.17.0 · openpyxl 3.1.5 Isolated virtual environment | 14 / 14 verified by SHA-256Inputs fetched from the public URLs of input_manifest.json over the network, plus the two bundled public references; every byte count and SHA-256 compared with the manifest. |
|
Record (JSON) |
| Research repository | Sensitivity audit validation by the research repository (October 24, 2026)11 tests passed, 0 failed; a second run into a separate directory was byte-identical (9 files). | CPython 3.12.14 Existing environment, not isolated | 14 / 14 verified by SHA-256Previously downloaded public cache inputs, each verified against unchanged original manifest; not a fresh network download. |
|
Record (JSON) At the commit |
| Research repository | Deterministic replay by the research repository (October 24, 2026)Run in the existing, non-isolated Python 3.12.14 environment before the sensitivity audit. | CPython 3.12.14 pandas 2.2.3 · numpy 2.3.5 · scipy 1.17.0 · openpyxl 3.1.5 Existing environment, not isolated | 14 / 14 verified by SHA-256Previously downloaded public cached bytes, each verified against the unchanged manifest; not a fresh network download. |
|
Record (JSON) At the commit |
| Research repository | Clean reproduction by the research repository (October 22, 2026)Recorded in the research repository. Successful computational reproduction under the stated input boundaries, not biological validation. | CPython 3.12.14 pandas 2.2.3 · numpy 2.3.5 · scipy 1.17.0 · openpyxl 3.1.5 Isolated virtual environment | 12 / 12 verified by SHA-256All 12 remote inputs fetched sequentially into a brand-new isolated virtual environment and verified against input_manifest.json. |
|
Record (JSON) At the commit |
| Research repository | Structure analysis reproduction by the research repository (September 10, 2026)Initial native runtime exited 135. Installed pinned dependencies in a clean directory using GCC; downloaded truncated public PAE reference again and verified its original hash. Final execution succeeded. | Not recorded | 4 / 4 verified by SHA-256Public reference files (AlphaFold model, PAE, UniProt entry, RefSeq transcript) verified against audited SHA-256 values. |
|
Record (JSON) At the commit |
Datasets
The public inputs of the four reanalyses, as the research repository's input manifest records them (retrieval verified on 2026-10-22). No patient data and no restricted genomic files.
| Input | Source | Size | SHA-256 |
|---|---|---|---|
gse65145/GSE65145_RAW.tar |
ftp.ncbi.nlm.nih.gov | 9.7 MB | cb4be4c47a7926722374b3caea84c46c75b8d30161111b118f5e4bbf3791ff57 |
gse65145/GSM1588051.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | d7d47c2df0f85b1bc21a2fab8092dca004d8f9e2c353d1548f23471324357ffd |
gse65145/GSM1588052.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | fcc03cc8656173a625d4d88ec52a053a989f8cf45a41404299b188c80f163843 |
gse65145/GSM1588053.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | 58f75c0c0635eb9af3cd156768ec12be1357237673e022ac930115c779d16d4b |
gse65145/GSM1588054.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | 149482fa5b3da2bf7c83af91c42a6cc613095d958736bdfec1612825298440ce |
gse65145/GSM1588055.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | 8ffb2fb9e2414d96e08892a560b6daa3f29028e03e197cc2c8f5a9630bcca74e |
gse65145/GSM1588056.soft |
www.ncbi.nlm.nih.gov | 2.3 KB | 150e67baf0258a5d5b8f5a9a26bf989d25da1d8a4bc9255620addaaf6b455cdb |
nmd/inputs/table_S1.xlsx |
ars.els-cdn.com | 60.9 KB | 14c3c7c3c7344c365285eec39a53fd93d4a333eec83bbbbdab7eaa4348dcaf69 |
nmd/inputs/table_S2.xlsx |
ars.els-cdn.com | 485.7 KB | f7107fa8e401cc6d1d2adbb68adca5baefe63472cfaf2f178e667d678c3b0007 |
nmd/inputs/table_S4.xlsx |
ars.els-cdn.com | 113.9 KB | 613713a81e0944d28e1b01f07a6e144ff286726d8686778efca6b1294f749e9b |
ptc/supp_tables.xlsx |
media.springernature.com | 9.8 MB | 83b4661d839e7450abb3a4266a0dc7e94260fd100f9a6efcc6e2bd77683a5b64 |
checkpoint/cache/source_data.xlsx |
media.springernature.com | 40.4 KB | d793bc309981fefad4a7bc5a8de852054563b0c29b1212d0221519674f9f5f90 |
gse65145/hg19_chr15_refseq.jsonBundled public reference: Archived public annotation input. Live response includes changing download timestamp; preserve source bytes, not a regenerated analysis output. |
api.genome.ucsc.edu | Not recorded | 1a0ccb6acb42734032645c6e13ddb79bd23d046689e7a5a3a17469a7475fff98 |
ptc/prediction_extracts.tsvBundled public reference: Archived exact-coordinate extract; not freshly re-extracted in this reproduction. |
doi.org | Not recorded | 5db3ac1925af814552fad15153299e2dbafee484c00680a5369f7d7613a5ab5f |
No dataset matches the search.
Export
Machine-readable views of the same records. Dates in them are execution or snapshot dates; the moment a document was generated is labelled as such.
- Catalogue (JSON) — analyses, statuses, execution records, datasets.
- Provenance manifest · GSE65145 RNA feature
- Provenance manifest · NMD screen (704 drugs)
- Provenance manifest · PTC readthrough contexts
- Provenance manifest · Checkpoint controls (Zhang)
- Provenance manifest · Sensitivity audit
- Provenance manifest · Structure metrics (AlphaFold)
- Frozen October 17 evidence snapshot (JSON) — unchanged by this workspace.