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Models/BioLinkBERT (large)

BioLinkBERT (large)

Reported on 28 benchmarks across 11 tasks · 1 paper · 20 SOTA

Note: results are matched by exact model name. Different papers may use the same name for different model variants.

Natural Language Processing21 results

  • Relation ExtractiononGAD
    F1· 2022-03-29
    84.9
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Relation ExtractiononGAD
    Micro F1· 2022-03-29
    84.9
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Relation ExtractiononDDI
    F1· 2022-03-29
    83.35
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Relation ExtractiononDDI
    Micro F1· 2022-03-29
    83.35
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Relation ExtractiononChemProt
    Micro F1· 2022-03-29
    79.98
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Question AnsweringonBLURB
    Accuracy· 2022-03-29
    83.5
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Question AnsweringonBioASQ
    Accuracy· 2022-03-29
    94.8
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Text ClassificationonBLURB
    F1· 2022-03-29
    84.88
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Text ClassificationonHOC
    F1· 2022-03-29
    88.1
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Text ClassificationonHOC
    Micro F1· 2022-03-29
    84.87
    best: 85.12 (BioGPT)
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Sentence Pair ModelingonBIOSSES
    Pearson Correlation· 2022-03-29
    0.9363
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Document ClassificationonHOC
    F1· 2022-03-29
    88.1
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Document ClassificationonHOC
    Micro F1· 2022-03-29
    84.87
    best: 85.12 (BioGPT)
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Relation ExtractiononChemProt
    F1· 2022-03-29
    79.98
    best: 83.64 (SciBert (Finetune))
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Question AnsweringonPubMedQA
    Accuracy· 2022-03-29
    72.2
    best: 81.6 (Meditron-70B (CoT + SC))
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onNCBI-disease
    F1· 2022-03-29
    88.76
    best: 89.71 (BioBERT)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onBC5CDR-chemical
    F1· 2022-03-29
    94.04
    best: 94.88 (Spark NLP)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onBC5CDR-disease
    F1· 2022-03-29
    86.39
    best: 88.5 (BioMegatron)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onBC2GM
    F1· 2022-03-29
    85.18
    best: 88.75 (Spark NLP)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onBC5CDR
    F1· uses extra data· 2022-03-29
    90.22
    best: 91.9 (BINDER)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Named Entity Recognition (NER)onJNLPBA
    F1· 2022-03-29
    80.06
    best: 82 (KeBioLM)
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827

Methodology4 results

  • ClassificationonBLURB
    F1· 2022-03-29
    84.88
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • ClassificationonHOC
    F1· 2022-03-29
    88.1
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • ClassificationonHOC
    Micro F1· 2022-03-29
    84.87
    best: 85.12 (BioGPT)
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Semantic SimilarityonBIOSSES
    Pearson Correlation· 2022-03-29
    0.9363
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827

Medical3 results

  • Language ModellingonBIOSSES
    Pearson Correlation· 2022-03-29
    0.9363
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Medical Relation ExtractiononDDI extraction 2013 corpus
    F1· 2022-03-29
    83.35
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827
  • Biomedical Information RetrievalonEBM PICO
    Macro F1 word level· 2022-03-29
    74.19
    SOTA
    LinkBERT: Pretraining Language Models with Document LinksarXiv:2203.15827