# Drug Named Entity Recognition on i2b2 2009

Source: [Drug Named Entity Recognition on i2b2 2009](<https://www.sota2.com/research/sota/drug-named-entity-recognition-on-i2b2-2009>)

Collection index: [llms.txt](<https://www.sota2.com/research/llms.txt>)

Data updated: 2026-02-26T05:43:04.938Z

Evaluation of Drug Named Entity Recognition performance on the i2b2 2009 dataset, typically measured using F1 score.

A research result applies to its stated dataset, split, metric and evaluation configuration. Compare like-for-like settings, preserve the metric's unit and direction, and distinguish paper-reported results from independent reproduction. The best result recorded here is not a claim of exhaustive, current global coverage.

| Scope | Recorded value |
| --- | --- |
| Task | Drug Named Entity Recognition |
| Dataset (including any stated split) | i2b2 2009 |
| Metric | F1 Score |
| Unit | PERCENT |
| Direction | Higher is better |
| Results loaded | 8 of 8 |
| Coverage | All results currently returned for this benchmark |

Evaluation settings may differ between results. The original papers and recorded configurations are needed to establish comparability. A shared metric name alone does not establish an identical protocol.

## Metrics

- [F1 Score](<https://www.sota2.com/research/sota/drug-named-entity-recognition-on-i2b2-2009.md?metric=F1%20Score>): Higher is better; unit: PERCENT.

## Recorded results

| Method | F1 Score | Result date | Report paper |
| --- | --- | --- | --- |
| Fully supervised BioBERT (FS) | 93.2 | Not recorded | 68fa69ac1e209131cea23436 |
| SOTA | 91.4 | Not recorded | 68fa69ac1e209131cea23436 |
| Weakly supervised BioBERT (WS) | 88.3 | Not recorded | 68fa69ac1e209131cea23436 |
| Label Model (LM) | 85.8 | Not recorded | 68fa69ac1e209131cea23436 |
| Majority Vote (MV) | 82.2 | Not recorded | 68fa69ac1e209131cea23436 |
| Weakly supervised BioBERT (WS) | 79.2 | Not recorded | 68fa69ac1e209131cea23436 |
| Label Model (LM) | 78.6 | Not recorded | 68fa69ac1e209131cea23436 |
| Majority Vote (MV) | 75.3 | Not recorded | 68fa69ac1e209131cea23436 |

### Fully supervised BioBERT (FS)

F1 Score: 93.2. Result ID: 698dcd388b517eb43323d4cf.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Hand-labeled"}. This record does not assert independent reproduction.

### SOTA

F1 Score: 91.4. Result ID: 698dcd388b517eb43323d4d0.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

Recorded evaluation configuration: {"Supervision Source":"Hand-labeled"}. This record does not assert independent reproduction.

### Weakly supervised BioBERT (WS)

F1 Score: 88.3. Result ID: 698dcd388b517eb43323d4ce.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies + Task-specific Rules","LFs":27}. This record does not assert independent reproduction.

### Label Model (LM)

F1 Score: 85.8. Result ID: 698dcd388b517eb43323d4cd.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies + Task-specific Rules","LFs":27}. This record does not assert independent reproduction.

### Majority Vote (MV)

F1 Score: 82.2. Result ID: 698dcd388b517eb43323d4cc.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies + Task-specific Rules","LFs":27}. This record does not assert independent reproduction.

### Weakly supervised BioBERT (WS)

F1 Score: 79.2. Result ID: 698dcd388b517eb43323d4cb.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies","LFs":16}. This record does not assert independent reproduction.

### Label Model (LM)

F1 Score: 78.6. Result ID: 698dcd388b517eb43323d4ca.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies","LFs":16}. This record does not assert independent reproduction.

### Majority Vote (MV)

F1 Score: 75.3. Result ID: 698dcd388b517eb43323d4c9.

[Reporting paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa69ac1e209131cea23436.md>)

[Implementation](<https://github.com/som-shahlab/trove>)

Recorded evaluation configuration: {"Supervision Source":"Ontologies","LFs":16}. This record does not assert independent reproduction.

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