Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Peter Brown, RELISH Consortium , Yaoqi Zhou

    Research output: Contribution to journalArticlepeer-review

    6 Citations (Scopus)

    Abstract

    Document recommendation systems for searching relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium of more than 1,500 scientists in 84 countries, who have collectively annotated the relevance of over 180,000 PubMed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data covers 76% of all unique PubMed MESH descriptors. No systematic biases were observed across different experience levels, research fields, or even time spent on annotations. More importantly, the same document pairs annotated by different researchers are highly consistent with each other. We further show that three representative baseline methods [Okapi Best Matching 25 (BM25), Term Frequency–Inverse Document Frequency (TF-IDF), and PubMed Related Articles (PMRA)] have similar overall performance. The database server located at https://relishdb.ict.griffith.edu.au is freely available for data downloading and blind testing of new methods.
    Original languageEnglish
    Article numberbaz085
    Number of pages66
    JournalDatabase
    Volume2019
    DOIs
    Publication statusPublished - 29 Oct 2019

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