Improve NER

[Maddocent]

General docs:

spaCy

Add new entities Improve granularity of PHENOTYPE entitity Ideas to improve NER for AOP data extraction:

• [x] Add AOP Wiki MIE and KIE as seeds to en-tox
• [x] #38
• [ ] Retrain en-tox model on Ontox - Sysrev train data (phase II systematic review - extracted data)
• [ ] Add proteome as seeds
• [ ] Add genome as seeds
• [ ] Add key metabolism entities as seeds
• [ ] Add all PubChem synonyms as seeds
• [ ] Add physiological maps data
• [ ] Add data from EPA Dashboard
• [ ] Add data from Tox21/Toxcast
• [ ] Investigate how we can leverage 'reinforcement learning' to increase model performance
• [ ] How can we use existing models in the loop

[Maddocent]

@Larsdegroot, @amdehaan, @MarieCo: Please, When considering taking on tasks, please look at the list above and cross off if you think you have addressed an item.

Please, If you take on an issue in the bulleted list above, please choose "convert to issue" to isolate the bullet as a dedicated issue to work on.

Please add a comment/add resources in the issue, showing the updated respource, results, experiment etc as proof of the 'optimization'.

[Larsdegroot]

A separate repository; improve-ner has been made for these tasks.