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Volume 22 Supplement 1

Recent Progresses with BioNLP Open Shared Tasks - Part 2


Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.

Hong Kong, China4 November 2019

Edited by Jin-Dong Kim, Robert Bossy, Louise Deleger, Claire Nedellec, Martin Krallinger and Kevin Bretonnel Cohen.

  1. Automated assignment of specific ontology concepts to mentions in text is a critical task in biomedical natural language processing, and the subject of many open shared tasks. Although the current state of the...

    Authors: Mayla R. Boguslav, Negacy D. Hailu, Michael Bada, William A. Baumgartner Jr. and Lawrence E. Hunter
    Citation: BMC Bioinformatics 2021 22(Suppl 1):598
  2. Natural language processing (NLP) and text mining technologies for the extraction and indexing of chemical and drug entities are key to improving the access and integration of information from unstructured dat...

    Authors: Pilar López-Úbeda, Manuel Carlos Díaz-Galiano, L. Alfonso Ureña-López and M. Teresa Martín-Valdivia
    Citation: BMC Bioinformatics 2021 22(Suppl 1):599
  3. Biomedical named entity recognition (NER) is a fundamental task of biomedical text mining that finds the boundaries of entity mentions in biomedical text and determines their entity type. To accelerate the dev...

    Authors: Ying Xiong, Shuai Chen, Buzhou Tang, Qingcai Chen, Xiaolong Wang, Jun Yan and Yi Zhou
    Citation: BMC Bioinformatics 2021 22(Suppl 1):600
  4. The volume of biomedical literature and clinical data is growing at an exponential rate. Therefore, efficient access to data described in unstructured biomedical texts is a crucial task for the biomedical indu...

    Authors: Renzo M. Rivera-Zavala and Paloma Martínez
    Citation: BMC Bioinformatics 2021 22(Suppl 1):601
  5. The recognition of pharmacological substances, compounds and proteins is essential for biomedical relation extraction, knowledge graph construction, drug discovery, as well as medical question answering. Altho...

    Authors: Cong Sun, Zhihao Yang, Lei Wang, Yin Zhang, Hongfei Lin and Jian Wang
    Citation: BMC Bioinformatics 2021 22(Suppl 1):602
  6. Named Entity Recognition (NER) and Normalisation (NEN) are core components of any text-mining system for biomedical texts. In a traditional concept-recognition pipeline, these tasks are combined in a serial wa...

    Authors: Lenz Furrer, Joseph Cornelius and Fabio Rinaldi
    Citation: BMC Bioinformatics 2022 22(Suppl 1):623

Annual Journal Metrics

  • 2022 Citation Impact
    3.0 - 2-year Impact Factor
    4.3 - 5-year Impact Factor
    0.938 - SNIP (Source Normalized Impact per Paper)
    1.100 - SJR (SCImago Journal Rank)

    2023 Speed
    19 days submission to first editorial decision for all manuscripts (Median)
    146 days submission to accept (Median)

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