Syntactic parser for English. Outputs dependency relations. Also outputs parts-of-speech for each token. The tool is provided as a UIMA component, specifically as Java archive (jar) file, which can be incorporated within any UIMA workflow. However, it is particularly designed use in the U-Com...

Web service created by exporting UIMA-based workflow from the U-Compare text mining system. Functionality: Identifies biological named entities and disambiguates them according to species, by assigning a species ID from the NCBI taxonomy. Also identifies sentences and tokens. Tools in workflow...

Tokenisation is one of the functionalities of the GENIA tagger, which additionally outputs the base forms, part-of-speech tags, chunk tags, and named entity tags. The tagger is specifically tuned for biomedical text such as MEDLINE abstracts. The tool is a UIMA component, which forms part of th...

The resource constitues of a hierarchically-structured system of data types, which is intended to be suitable for describing the inputs and output annotation types of a wide range of natural language processing applications which operate within the UIMA Framework. It is being developed in conjunc...

The GENIA tagger analyzes English sentences and outputs the base forms, part-of-speech tags, chunk tags, and named entity tags. The tagger is specifically tuned for biomedical text such as MEDLINE abstracts.

Enju is a syntactic parser for English. The grammar used by the parser is based on Head Driven Phrase Structure Grammar (HPSG). Enju can analyse syntactic/semantic structures of English sentences can output phrase structure and predicate-argument structures.

The corpus consists of 1000 MEDLINE abstracts. It is a subset of the original GENIA POS & term corpus, which was selected using the three MeSH terms human, blood cells and transcription factors. In each sentence, three types of information are annotated 1) biomedical terms are identified and assi...

PhenoCHF is an annotated corpus consisting of documents belonging to two different text types (i.e., narrative reports from electronic health records (EHRs) and literature articles). It is manually annotated by medical doctors with detailed information relating to mentions of phenotype concepts a...

Web service created by exporting UIMA-based workflow from the U-Compare text mining system. Functionality: Identifies biomedical named entities (genes and proteins) in plain text. Also identifies sentences. Tools in workflow: Cafetiere Sentence Splitter (University of Manchester), NEMine (Univ...

The HIMERA annotated corpus contains a set of published historical medical documents that have been manually annotated with semantic information that is relevant to the study of medical history and public health. Specifically, annotations correspond to seven different entity types and two differe...