Evidence claim

GEARS: description

Description of GEARS

GEARS predicts transcriptional responses to single- and multi-gene perturbations from single-cell perturbation screens.

Replace a placeholder description with a sourced functional description (issue #88). Historical releases retain the original value.

Evidence

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

Inspect claims, sources and review details

Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.

One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.

28 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-23-5347695500ed
Property and statement	Original source and location	Review and provenance
Claimed field description Context-only references	GEARS official resource Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Not recorded Retrieved: 2026-09-16T10:50:02Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `Not recorded` Hash scope: Hash scope not separately documented; inspect source record
Claimed field description Context-only references	snap-stanford/GEARS: gears/model.py Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f374e43e197b295016d80395d7a54ddb81cc6769 Retrieved: 2026-09-16T19:46:20.191253+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `07fee864bc5020807c90ed5443ff17530116f47f257332466243c233ef2bc857` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	snap-stanford/GEARS: README.md Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f374e43e197b295016d80395d7a54ddb81cc6769 Retrieved: 2026-09-16T19:46:20.191253+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `fe78b7b1ede50c673b8f0d91fb2637707685c78b269ee157edb6cbc4d510d61b` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Claimed field description Context-only references	gears: Journal full-text XML Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied Retrieved: 2026-09-16T20:16:14.422594+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.field` Source artifact SHA-256: `6e9a8f4a2b8ccbc9aa46c43a34701b687f71b797048adf27aae2a99d9e2dcad9` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Previous value Existing candidate catalogue entry; exact checkpoint and metadata require primary-source review. Context-only references	GEARS official resource Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Not recorded Retrieved: 2026-09-16T10:50:02Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.previous_value` Source artifact SHA-256: `Not recorded` Hash scope: Hash scope not separately documented; inspect source record
Previous value Existing candidate catalogue entry; exact checkpoint and metadata require primary-source review. Context-only references	snap-stanford/GEARS: gears/model.py Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f374e43e197b295016d80395d7a54ddb81cc6769 Retrieved: 2026-09-16T19:46:20.191253+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.previous_value` Source artifact SHA-256: `07fee864bc5020807c90ed5443ff17530116f47f257332466243c233ef2bc857` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Previous value Existing candidate catalogue entry; exact checkpoint and metadata require primary-source review. Context-only references	snap-stanford/GEARS: README.md Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f374e43e197b295016d80395d7a54ddb81cc6769 Retrieved: 2026-09-16T19:46:20.191253+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.previous_value` Source artifact SHA-256: `fe78b7b1ede50c673b8f0d91fb2637707685c78b269ee157edb6cbc4d510d61b` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Previous value Existing candidate catalogue entry; exact checkpoint and metadata require primary-source review. Context-only references	gears: Journal full-text XML Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Retrieved page snapshot; no immutable publisher revision supplied Retrieved: 2026-09-16T20:16:14.422594+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.previous_value` Source artifact SHA-256: `6e9a8f4a2b8ccbc9aa46c43a34701b687f71b797048adf27aae2a99d9e2dcad9` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact
Source location Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Context-only references	GEARS official resource Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Not recorded Retrieved: 2026-09-16T10:50:02Z	not individually reviewed No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `Not recorded` Hash scope: Hash scope not separately documented; inspect source record
Source location Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Context-only references	snap-stanford/GEARS: gears/model.py Original source ↗ Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: f374e43e197b295016d80395d7a54ddb81cc6769 Retrieved: 2026-09-16T19:46:20.191253+00:00	not individually reviewed No individual claim review recorded Audit details Field: `attributes.source_locator` Source artifact SHA-256: `07fee864bc5020807c90ed5443ff17530116f47f257332466243c233ef2bc857` Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact Inspected artifact

How to read the evidence

Sources and history

Release 2026-10-23-5347695500ed · Record review: source checked

4 source records and release history

GEARS official resource · Original source · Not reported
snap-stanford/GEARS: README.md · Original source · f374e43e197b295016d80395d7a54ddb81cc6769
snap-stanford/GEARS: gears/model.py · Original source · f374e43e197b295016d80395d7a54ddb81cc6769
gears: Journal full-text XML · Original source · Retrieved page snapshot; no immutable publisher revision supplied

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Technical metadata and extraction receipts

Stable ID: metadata-correction-3fcf23daa4fd7a0a9677

areas: cells-tissues
method types: specialist
field: description
previous value: Existing candidate catalogue entry; exact checkpoint and metadata require primary-source review.
value: GEARS predicts transcriptional responses to single- and multi-gene perturbations from single-cell perturbation screens.
source locator: Reviewed profile summary (2026-09-16): evidence-official-c037e3419c04936262a0, evidence-official-b5e81b2c497214b18f8a, evidence-official-f464cd407a6a9d031720: GEARS paper Methods: Overview, Gene coexpression graph encoder, GO graph, Cross-gene effects and gene-specific decoder; gears/model.py: GEARS_Model
review: method: automated-source-review; ai-assisted-source-review; reviewer: claude; reviewer note: Extractor: Claude integrator agent for issue #88. Reviewer: a separate Claude review agent, independent of the extractor; no human review claimed.; date: 2026-10-11; method note: Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record.; note: Approved. Checked the new sources' licences against the arXiv abstract pages and Europe PMC, the 7 scFoundation pipeline descriptions against their abstracts, the language-model descriptions against their model cards and reports, and the TAPE architecture figures against the TAPE paper; all correct. The catalogue entries reuse reviewed profile summaries.; receipt: data/omics/qa-descriptions-20261011-b/review.json

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subject: GEARS

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