pearson_delta_de_target_gene: perturbation-response-20261009-protocol-csendes2025-norman-pex
Descriptive fact transcribed from the pinned source.
Evidence
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Evidence table
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6 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| attributes.field pearson_delta_de_target_gene Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.source_locator Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| attributes.value The CRISPR target gene of a perturbation was frequently among the top 20 DE genes; since scGPT's perturbation token is tied to the gene token, predicting the target gene's change is close to trivial, and removing target genes from the top 20 lowered scGPT's Pearson Delta DE. Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| description Descriptive fact transcribed from the pinned source. Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Relationship: subject perturbation-response-20261009-protocol-csendes2025-norman-pex Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| name pearson_delta_de_target_gene: perturbation-response-20261009-protocol-csendes2025-norman-pex Context-only references | Benchmarking foundation cell models for post-perturbation RNA-seq prediction Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8 Version: BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-10-10-6e93f504adfc · Record review: source checked
1 source records and release history
- Benchmarking foundation cell models for post-perturbation RNA-seq prediction · Original source · BMC Genomics 26:393, published 2025-04-23; PMC12016270 full-text XML
Technical metadata and extraction receipts
Stable ID: perturbation-response-20261009-claim-csendes2025-target-gene-in-de
- field
- pearson_delta_de_target_gene
- value
- The CRISPR target gene of a perturbation was frequently among the top 20 DE genes; since scGPT's perturbation token is tied to the gene token, predicting the target gene's change is close to trivial, and removing target genes from the top 20 lowered scGPT's Pearson Delta DE.
- source locator
- Results 'Benchmarking of post-perturbation RNA-seq prediction methods' paragraph 8
- review
- method: source-hash-verification; ai-assisted-source-review; reviewer: claude; reviewer note: Separate Claude review agent, independent of the extractor; no human review claimed; date: 2026-10-09; artifact sha256: b59088e4169385c602d0b7a51253d7c1131688666e64e95c06fb54950a514c19; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12016270/fullTextXML; method note: Compared the claim with the cited cells or paragraph of the re-downloaded sources.; note: Transcribed from the pinned source. Pending independent review. Independent review 2026-10-09: matches the source.