DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genomes

What this source contributed

Records in this release that cite this source. A record can cite several sources.

• 10 configurations
• 1 benchmark
• 29 tasks
• 28 dataset subsets
• 280 evaluations
• 280 results
• 34 evidence claims

Results

Values as the source printed them. Compare results only under compatible protocols, datasets and metrics.

Claims

Statements this source supports, each with where in the source it was checked.

• 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: 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))
• GUE CORE-PROMOTER-DETECTION-ALL: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Core promoter detection))
• GUE CORE-PROMOTER-DETECTION-NOTATA: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Core promoter detection))
• GUE CORE-PROMOTER-DETECTION-TATA: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Core promoter detection))
• GUE COVID-VARIANT-CLASSIFICATION-COVID: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Covid variant classification))
• GUE EPIGENETIC-MARKS-PREDICTION-H3: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K4ME1: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K4ME2: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K4ME3: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K9AC: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K14AC: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K36ME3: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H3K79ME3: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H4: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE EPIGENETIC-MARKS-PREDICTION-H4AC: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Epigenetic marks prediction))
• GUE PROMOTER-DETECTION-ALL: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Promoter detection))
• GUE PROMOTER-DETECTION-NOTATA: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Promoter detection))
• GUE PROMOTER-DETECTION-TATA: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Promoter detection))
• GUE SPLICE-SITE-PREDICTION-RECONSTRUCT: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Splice site prediction))
• GUE TRANSCRIPTION-FACTOR-PREDICTION-HUMAN-0: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Transcription factor prediction (human)))
• GUE TRANSCRIPTION-FACTOR-PREDICTION-HUMAN-1: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Transcription factor prediction (human)))
• GUE TRANSCRIPTION-FACTOR-PREDICTION-HUMAN-2: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Transcription factor prediction (human)))
• GUE TRANSCRIPTION-FACTOR-PREDICTION-HUMAN-3: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Transcription factor prediction (human)))
• GUE TRANSCRIPTION-FACTOR-PREDICTION-HUMAN-4: part of discovery-benchmark-gue: Part of GUE (Table 12, row(Transcription factor prediction (human)))

Models, benchmarks and other records

Evidence

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