Dataset Open Access

ProGene - A Large-scale, High-Quality Protein-Gene Annotated Benchmark Corpus

Faessler, Erik; Modersohn, Luise; Lohr, Christina; Hahn, Udo

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  "publisher": "Zenodo", 
  "DOI": "10.5281/zenodo.3698568", 
  "language": "eng", 
  "title": "ProGene - A Large-scale, High-Quality Protein-Gene Annotated Benchmark Corpus", 
  "issued": {
    "date-parts": [
  "abstract": "<p>The Pro(tein)/Gene corpus was developed at the JULIE Lab Jena under supervision of Prof. Udo Hahn.</p>\n\n<p>The goals of the annotation project were</p>\n\n<ul>\n\t<li>to construct a consistent and (as far as possible) subdomain-independent/-comprehensive protein-annotated corpus</li>\n\t<li>to differentiate between protein families and groups, protein complexes, protein molecules, protein variants (e.g. alleles) and elliptic enumerations of proteins.</li>\n</ul>\n\n<p>The corpus has the following annotation levels / entity types:</p>\n\n<ul>\n\t<li>protein</li>\n\t<li>protein_familiy_or_group</li>\n\t<li>protein_complex</li>\n\t<li>protein_variant</li>\n\t<li>protein_enum</li>\n</ul>\n\n<p>For definitions of the annotation levels, please refer to the Proteins-guidelines-final.doc file that is found in the download package.</p>\n\n<p>To achieve a large coverage of biological subdomains, document from multiple other protein / gene corpora were reannotated. For further coverage, new document sets were created. All documents are abstracts from PubMed/MEDLINE. The corpus is made up of the union of all the documents in the different subcorpora.<br>\nAll document are delivered as MMAX2 ( annotation projects.</p>", 
  "author": [
      "family": "Faessler, Erik"
      "family": "Modersohn, Luise"
      "family": "Lohr, Christina"
      "family": "Hahn, Udo"
  "id": "3698568", 
  "event-place": "Marseille, France", 
  "version": "1.1", 
  "type": "dataset", 
  "event": "12th Language Resources and Evaluation Conference (LREC)"
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