Biomedical Research Employs Monitoring Technology
Open-Source Software Mentions Dataset in Biomedical Research Now Available
Researchers at the Chan Zuckerberg Initiative (CZI) have curated a dataset that tracks mentions of open-source software in biomedical research papers. This dataset, part of CZI’s Essential Open Source Software for Science (EOSS) program, can provide valuable insights into the use of open-source software in the biomedical field.
The dataset was compiled using an AI system that scoured through 3.9 million open access biomedical research papers and an additional 16.9 million papers provided to the team. In the first subset, the AI system found over 19 million total mentions and 1.6 million unique mentions of software in 2.5 million papers. In the second subset, the number of total mentions increased to 48 million, with 934,704 unique mentions found in 2.9 million papers.
While the dataset does not provide information about the specific software mentioned in the papers, it does allow researchers to identify successful uses of open-source software in the biomedical field. This can advance science and technology research by offering valuable insights into how open-source software is being utilised in the biomedical research sector.
The team behind the dataset has made 185,000 of the unique software mentions available through a repository link. To access the dataset, visit the EOSS program page on the CZI website (https://chanzuckerberg.com/eoss). There, you can find dataset repositories, publications, or software catalogs linked. If needed, you can reach out to CZI or check associated publications (like the Genome Biology article) for further instructions on accessing the dataset.
It's worth noting that this dataset may be related to efforts to identify software use in biomedical papers using tools like SoftCite and SciScore. However, the dataset itself appears to be independent of the CZI but could be complementary.
In conclusion, the dataset of open-source software mentions by the Chan Zuckerberg Initiative is a valuable resource for researchers seeking to understand the role of open-source software in biomedical research. By visiting the EOSS program page on the CZI website, you can access this dataset and further your research in this exciting field.
Image credit: Flickr user Rede Galega de Biomateriais provides visual representation for this article.
[1] Genome Biology article mentioning open-source workflow management systems in relation to CZI’s EOSS program. [2] arXiv preprint discussing the construction of datasets of biomedical paper annotations for software mentions.
- The dataset, compiled by an AI system, offers insights into the use of open-source software in biomedical research, enhancing science and technology research.
- This dataset marks a crucial advancement in understanding how artificial intelligence and technology can be utilized in health-and-wellness areas, such as medical-conditions research.
- The team behind the dataset made 185,000 of the unique software mentions accessible through a repository link, allowing researchers to delve deeper into open-source software applications in biomedical research.
- Scientific research, data analysis, and collaboration in the biomedical field may witness revolutionary shifts thanks to the implementation of technology, research, and artificial-intelligence systems based on insights derived from such datasets.
