{"id":"VC0056","type":"paper","title":"Systematic evaluation of single-cell foundation model interpretability: attention-derived edge scores add no incremental value over gene-level features for perturbation-target prediction.","authors_or_org":"Kendiukhov I.","date":"2026-07-22","year":"2026","venue":"BMC genomics","url":"https://doi.org/10.1186/s12864-026-12965-8","doi":"10.1186/s12864-026-12965-8","pmid":"42482180","brain_tumor_focus":"no","tags":["interpretability","critique"],"tag_slugs":["interpretability","critique"],"tag_labels":["Interpretability","Critique"],"tag_labels_zh":["可解释性","批评与反证"],"unmapped_tags":[],"one_line_summary_en":"Attention-derived edge scores in scFMs add no GRN information beyond baselines.","one_line_summary_zh":"单细胞基础模型注意力边得分未增加调控网络信息。","verified":"yes","verification_source":"Europe PMC","page_url":"https://gliostate.com/library/VC0056/","api_url":"https://gliostate.com/api/items/VC0056.json","sameAs":["https://doi.org/10.1186/s12864-026-12965-8","https://pubmed.ncbi.nlm.nih.gov/42482180/"],"is_preprint":false,"facets":{"type":"https://gliostate.com/library/type/paper/","year":"https://gliostate.com/library/year/2026/","tags":["https://gliostate.com/library/tag/interpretability/","https://gliostate.com/library/tag/critique/"]},"cited_by":[{"id":"validation-benchmarks","type":"validation","title_en":"Validating virtual cells: benchmarks, baselines and critiques","title_zh":"虚拟细胞的验证：基准、基线与批评","url":"https://gliostate.com/validation/benchmarks-and-baselines/","api_url":"https://gliostate.com/api/topics/validation-benchmarks.json"}],"related":[{"id":"VC0017","title":"Disentanglement of single-cell data with biolord.","shared_tags":["interpretability"],"page_url":"https://gliostate.com/library/VC0017/","api_url":"https://gliostate.com/api/items/VC0017.json"},{"id":"VC0078","title":"Biological domain shift and statistical nesting concerns in generative AI-based spatial tumor growth prediction for pediatric diffuse midline glioma.","shared_tags":["critique"],"page_url":"https://gliostate.com/library/VC0078/","api_url":"https://gliostate.com/api/items/VC0078.json"},{"id":"VC0048","title":"Deep-learning-based gene perturbation effect prediction does not yet outperform simple linear baselines.","shared_tags":["critique"],"page_url":"https://gliostate.com/library/VC0048/","api_url":"https://gliostate.com/api/items/VC0048.json"},{"id":"VC0049","title":"Benchmarking foundation cell models for post-perturbation RNA-seq prediction.","shared_tags":["critique"],"page_url":"https://gliostate.com/library/VC0049/","api_url":"https://gliostate.com/api/items/VC0049.json"},{"id":"VC0050","title":"Zero-shot evaluation reveals limitations of single-cell foundation models.","shared_tags":["critique"],"page_url":"https://gliostate.com/library/VC0050/","api_url":"https://gliostate.com/api/items/VC0050.json"}]}