MAGICS-LAB/DNABERT_2: README.md

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• 2 models
• 19 evidence claims

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• DNABERT-2 (fine-tuned): family DNABERT-2: Family DNABERT-2 (DART-Eval Table 1 (DNABERT-2, 117M) and adaptation-specific result tables; source-labelled configuration DNABERT-2 (fine-tuned) | Existing reviewed locator: Table 1, row(DNABERT-2))
• DNABERT-2 (further pre-trained on GUE): family DNABERT-2: Family DNABERT-2 (DNABERT-2 paper GUE result tables; further pre-training setting retained; official README GUE benchmark; source-labelled configuration DNABERT-2 (further pre-trained on GUE) | Existing reviewed locator: Table 6, row(DNABERT-2♦))
• DNABERT-2 (probed): family DNABERT-2: Family DNABERT-2 (DART-Eval Table 1 (DNABERT-2, 117M) and adaptation-specific result tables; source-labelled configuration DNABERT-2 (probed) | Existing reviewed locator: Table 1, row(DNABERT-2))
• DNABERT-2 (zero-shot embedding): family DNABERT-2: Family DNABERT-2 (DART-Eval Table 1 (DNABERT-2, 117M) and adaptation-specific result tables; source-labelled configuration DNABERT-2 (zero-shot embedding) | Existing reviewed locator: Table 1, row(DNABERT-2))
• DNABERT-2 (zero-shot): family DNABERT-2: Family DNABERT-2 (DART-Eval Table 1 (DNABERT-2, 117M) and adaptation-specific result tables; source-labelled configuration DNABERT-2 (zero-shot) | Existing reviewed locator: Table 1, row(DNABERT-2))
• DNABERT-2: alias of DNABERT-2: Alias of DNABERT-2 (Official README DNABERT-2-117M model and GUE usage; both catalogue profiles describe the same 117M model family.)
• DNABERT-2: description: Description DNABERT-2 learns DNA representations that can be adapted to genomic prediction tasks. (Reviewed profile summary (2026-09-23): evidence-official-7267eabca7c4a7945878, evidence-official-2cf0a41fec83ee9c5cc9, evidence-official-96b5c3a31a50f7c259d6, evidence-official-a48ae27aa000bdab7442, evidence-official-3aa749d3205c0a768b22: DNABERT-2 paper Sections 3.2, 4.1 and 5.2 (Further Pre-Training); official model card and implementation README; official DNABERT-2-117M checkpoint LICENSE at revision 7bce263b15377fc15361f52cfab88f8b586abda0)
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (DNABERT-2 paper GUE result tables; further pre-training setting retained; official README GUE benchmark; source-labelled configuration DNABERT-2 | Existing reviewed locator: Table 6, row(DNABERT-2))
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (BEND Table 3 row DNABERT-2; Related work DNABERT-2 paragraph; official DNABERT-2 README; source-labelled configuration DNABERT-2 | Existing reviewed locator: Table 3, row(DNABERT-2))
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (DART-Eval Table 1 and model selection paragraph; official DNABERT-2 README; source-labelled configuration DNABERT-2 | Existing reviewed locator: Table 2 (models); Section 3.2 zero-shot analysis; Table 3 regulatory-element identification; Appendix B evaluation procedures)
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (Cited primary paper comparison table and DNABERT-2 methods; official DNABERT-2 README; source-labelled configuration DNABERT-2 | Existing reviewed locator: Results/Model Safety (paragraph 1); Results/GenomeOcean Learns Protein-coding Principles from DNA Alone (paragraph 4))
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (Cited primary paper comparison table and DNABERT-2 methods; official DNABERT-2 README; source-labelled configuration DNABERT-2 | Existing reviewed locator: Experimental setup, results, and discussion/Comparison with state-of-the-art methods (paragraph 12); Experimental setup, results, and discussion/Comparison with state-of-the-art methods (paragraph 2))
• DNABERT-2: family DNABERT-2: Family DNABERT-2 (Cited primary paper comparison table and DNABERT-2 methods; official DNABERT-2 README; source-labelled configuration DNABERT-2 | Existing reviewed locator: Discussion and conclusions (paragraph 6); Results/LLM performance at the genome-wide level (paragraph 4))
• DNABERT-2: version: Version absent; missing_metadata.version is inapplicable for a family record (Records linked to catalog-model-dnabert-2 by configuration_of and family in the canonical store, release 2026-10-14-a2714d701935)
• DNABERT-2†: uses model DNABERT-2: Uses model DNABERT-2 (LAMBDA Table 1 DNABERT-2 and Table 5 DNABERT-2 dagger; genome scanning and filtering methods | Existing reviewed locator: Table 5., row DNABERT-2†, column Precision; XML row18 column2)
• DNABERT2-Enhancer: uses model DNABERT-2: Uses model DNABERT-2 (DNABERT2-Enhancer architecture and methods: fine-tuned DNABERT-2 plus CNN | Existing reviewed locator: Abstract (paragraph 1); Results/Comparison of the proposed model with existing methods (paragraph 4))
• DNABERT2: family DNABERT-2: Family DNABERT-2 (mRNABench Table 2 DNABERT2 row; Appendix model inventory T1 DNABERT2 description; source-labelled configuration DNABERT2 | Existing reviewed locator: Table 2, row(DNABERT2))
• EPBDXDNABERT-2: uses model DNABERT-2: Uses model DNABERT-2 (TransBind introduction EPBD×DNABERT-2 paragraph and Table 2 | Existing reviewed locator: Table 2., row EPBDXDNABERT-2, column AUROC; XML row6 column2)
• finetuned DNABERT-2: family DNABERT-2: Family DNABERT-2 (Cited primary paper comparison table and DNABERT-2 methods; official DNABERT-2 README; source-labelled configuration finetuned DNABERT-2 | Existing reviewed locator: Table 2., row finetuned DNABERT-2, column AUROC; XML row5 column2)

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