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Journal of Biomedical Semantics
H-index 10

Journal of Biomedical Semantics

Ranking & Metrics

Discipline name Position Best Scientists Publications D-Index
Computer Science 569 33 37 10

Additional Metrics

Number of Best Scientists*: 48
Documents by Best Scientists*: 45
Top 100 Ranked Scientists*: 0
SCIMAGO H-index: 48
SCIMAGO SJR: 0.491
Impact Factor: 2

Overview

Top Research Topics at Journal of Biomedical Semantics?

The objective of Journal of Biomedical Semantics is to combine knowledge in the areas of Ontology (information science), Data science, Information retrieval, Artificial intelligence and Natural language processing. The Ontology (information science) study tackled is a key component of adjacent topics in the area of Annotation. The journal holds forums on Data science that merges themes from other disciplines such as Semantic Web, Basic Formal Ontology, Data integration, Biological Ontologies and Interoperability.

The journal tackles topics on Semantic Web, which can potentially contribute to the wider field of World Wide Web. The research on Information retrieval tackled can also make contributions to studies in the areas of Domain (software engineering), Semantics and Metadata. In addition to Artificial intelligence research, it aims to explore topics under Context (language use), Machine learning, Named-entity recognition and Data mining.

While the primary focus in it is Data mining, it also dissects topics surrounding Computational biology and Gene as a whole. It tackles research in Information extraction and Semantic similarity as part of the general discipline of Natural language processing, however, it also discusses concepts in Structure (mathematical logic). It connects research in RDF with the related topic of Linked data.

  • Ontology (information science) (43.25%)
  • Data science (33.40%)
  • Information retrieval (32.76%)

What are the most cited papers published in the journal?

  • The environment ontology: contextualising biological and biomedical entities (159 citations)
  • Extraction of potential adverse drug events from medical case reports (141 citations)
  • The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery (126 citations)

Research areas of the most cited articles at Journal of Biomedical Semantics:

Ontology (information science), Information retrieval, Data science, Open Biomedical Ontologies and Semantic Web are the main subjects of interest in the published articles. Aside from discussions in Ontology (information science), the published papers also deal with the subject of World Wide Web which intersects with Software versioning disciplines. The studies on Information retrieval discussed at the most cited papers can also contribute to research in the domains of Annotation, Semantics and Set (abstract data type).

What topics the last edition of the journal is best known for?

  • Artificial intelligence
  • Programming language
  • Gene

The previous edition focused in particular on these issues:

The journal focuses largely on the fields of Ontology (information science), Artificial intelligence, Natural language processing, Data science and Domain (software engineering). The presentations focused mostly on Ontology (information science) in an attempt to further explore topics in Information retrieval. The presented Information retrieval study covers related areas such as Semantic enhancement and also touches on topics like Semi automatic.

The featured Artificial intelligence research zeroes in on concepts in Deep learning and Annotation but also tackles themes under Sequence. Topics in Natural language processing explored in the journal were investigated in conjunction with research in Artificial neural network, Recall and Multiple kernel learning. The work on Data science tackled in Journal of Biomedical Semantics brings together disciplines like Precision medicine, Turing, Biological Ontologies, Web Ontology Language and Phenomics.

The most cited articles from the last journal are:

  • The Infectious Disease Ontology in the age of COVID-19. (10 citations)
  • An ontology-based approach for developing a harmonised data-validation tool for European cancer registration. (5 citations)
  • Improved characterisation of clinical text through ontology-based vocabulary expansion. (3 citations)

Papers citation over time

A key indicator for each journal is its effectiveness in reaching other researchers with the papers published at that venue.

The chart below presents the interquartile range (first quartile 25%, median 50% and third quartile 75%) of the number of citations of articles over time.

The top authors publishing in Journal of Biomedical Semantics (based on the number of publications) are:

  • Yongqun He (27 papers) published 1 paper at the last edition,
  • Robert Hoehndorf (23 papers) published 2 papers at the last edition, 1 more than at the previous edition,
  • Michel Dumontier (19 papers) published 2 papers at the last edition,
  • Robert Stevens (15 papers) absent at the last edition,
  • Christopher J. Mungall (14 papers) absent at the last edition.

The overall trend for top authors publishing in this journal is outlined below. The chart shows the number of publications at each edition of the journal for top authors.

Only papers with recognized affiliations are considered

The top affiliations publishing in Journal of Biomedical Semantics (based on the number of publications) are:

  • University of Manchester (34 papers) absent at the last edition,
  • European Bioinformatics Institute (33 papers) absent at the last edition,
  • Stanford University (31 papers) published 1 paper at the last edition,
  • University of Cambridge (25 papers) published 2 papers at the last edition,
  • University of Michigan (23 papers) published 1 paper at the last edition.

The overall trend for top affiliations publishing in this journal is outlined below. The chart shows the number of publications at each edition of the journal for top affiliations.

Publication chance based on affiliation

The publication chance index shows the ratio of articles published by the best research institutions in the journal edition to all articles published within that journal. The best research institutions were selected based on the largest number of articles published during all editions of the journal.

The chart below presents the percentage ratio of articles from top institutions (based on their ranking of total papers).Top affiliations were grouped by their rank into the following tiers: top 1-10, top 11-20, top 21-50, and top 51+. Only articles with a recognized affiliation are considered.

During the most recent 2021 edition, 15.79% of publications had an unrecognized affiliation. Out of the publications with recognized affiliations, 31.25% were posted by at least one author from the top 10 institutions publishing in the journal. Another 6.25% included authors affiliated with research institutions from the top 11-20 affiliations. Institutions from the 21-50 range included 18.75% of all publications and 43.75% were from other institutions.

Returning Authors Index

A very common phenomenon observed among researchers publishing scientific articles is the intentional selection of journals they have already attended in the past. In particular, it is worth analyzing the case when the authors participate in the same journal from year to year.

The Returning Authors Index presented below illustrates the ratio of authors who participated in both a given as well as the previous edition of the journal in relation to all participants in a given year.

Returning Institution Index

The graph below shows the Returning Institution Index, illustrating the ratio of institutions that participated in both a given and the previous edition of the conference in relation to all affiliations present in a given year.

The experience to innovation index

Our experience to innovation index was created to show a cross-section of the experience level of authors publishing in a journal. The index includes the authors publishing at the last edition of a journal, grouped by total number of publications throughout their academic career (P) and the total number of citations of these publications ever received (C).

The group intervals were selected empirically to best show the diversity of the authors' experiences, their labels were selected as a convenience, not as judgment. The authors were divided into the following groups:

  • Novice - P < 5 or C < 25 (the number of publications less than 5 or the number of citations less than 25),
  • Competent - P < 10 or C < 100 (the number of publications less than 10 or the number of citations less than 100),
  • Experienced - P < 25 or C < 625 (the number of publications less than 25 or the number of citations less than 625),
  • Master - P < 50 or C < 2500 (the number of publications less than 50 or the number of citations less than 2500),
  • Star - P ≥ 50 and C ≥ 2500 (both the number of publications greater than 50 and the number of citations greater than 2500).

The chart below illustrates experience levels of first authors in cases of publications with multiple authors.

Educational Background of Prominent Researchers

In an academic journal such as this, it can be equally enlightening to consider the educational and professional background of influential authors and researchers in these fields. As this can provide readers with an idea of the pathway to success in Biomedical Semantics, it is a helpful resource for those interested in pursuing a career in any of the discussed subjects. For instance, researchers who are breaking new ground in the merging of Semantic Web studies and Basic Formal Ontology may have graduated from esteemed universities with a degree in biomedical engineering. It's also likely that many have pursued higher education and achieved a master's degree or a Ph.D. in a closely related field. This might inspire prospective researchers to follow a similar academic trajectory. It is also worth noting that these fields often command interdisciplinary expertise. Thus, it's not unusual for these researchers to have knowledge and experience outside of conventional biomedical semantics. For example, a career in Biological Ontologies might involve understanding biology, biomedicine, or even molecular genetics as well as computer science to handle the data integration aspect. We understand that the educational pathway to being a researcher in these areas might be daunting. But don't worry, even a seemingly unrelated career path can lead you to these fields. Take a look at this guide on how to become an art teacher in North Dakota and see how transferable skills and passion can lead to surprising career switches. Understanding these background stories of prominent researchers give readers insights into their career trajectory, and could even inspire others to follow in their footsteps.

Top Publications

  • Applying the FAIR principles to data in a hospital: challenges and opportunities in a pandemic

    Unknown

    (2021)
    76 Citations
  • Semantic modelling of common data elements for rare disease registries, and a prototype workflow for their deployment over registry data

    Unknown

    (2022)
    52 Citations
  • Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation

    (2022)
    27 Citations
  • A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology

    (2022)
    26 Citations
  • Combining lexical and context features for automatic ontology extension.

    Sara Althubaiti;Şenay Kafkas;Marwa Abdelhakim;Robert Hoehndorf

    (2020)
    20 Citations
  • Why and how to engage expert stakeholders in ontology development: insights from social and behavioural sciences.

    Emma Norris;Emma Norris;Janna Hastings;Marta M Marques;Marta M Marques;Ailbhe N Finnerty Mutlu

    (2021)
    19 Citations
  • Improved characterisation of clinical text through ontology-based vocabulary expansion.

    Luke T Slater;William Bradlow;William Bradlow;Simon Ball;Simon Ball;Robert Hoehndorf

    (2021)
    16 Citations
  • Linking common human diseases to their phenotypes; development of a resource for human phenomics

    Şenay Kafkas;Sara Althubaiti;Georgios V Gkoutos;Robert Hoehndorf

    (2021)
    11 Citations
  • An annotated corpus of clinical trial publications supporting schema-based relational information extraction

    (2022)
    10 Citations
  • Assisting nurses in care documentation: from automated sentence classification to coherent document structures with subject headings.

    Hans Moen;Kai Hakala;Laura-Maria Peltonen;Hanna-Maria Matinolli

    (2020)
    10 Citations

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Best Scientists Contributing to This Journal

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