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bioPDFX: preparing PDF scientific articles for biomedical text mining

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My preprint has been published today in @PeerJPreprints https://t.co/EXfItXDRxI #Bioinformatics #DataScience #Databases #DigitalLibraries
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Supplemental Information

Supplemental File 1

The raw data of a list of PubMed Central IDs of the 941 articles.

DOI: 10.7287/peerj.preprints.2993v1/supp-1

Supplemental File 2

The instructions of how to run the bioPDFX service with a PubMed ID.

DOI: 10.7287/peerj.preprints.2993v1/supp-2

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Shitij Bhargava conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, performed the computation work, reviewed drafts of the paper.

Tsung-Ting Kuo conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, performed the computation work, reviewed drafts of the paper.

Ankit Goyal performed the experiments, analyzed the data, wrote the paper, performed the computation work, reviewed drafts of the paper.

Vincent Kuri performed the experiments, analyzed the data, performed the computation work, reviewed drafts of the paper.

Gordon Lin performed the experiments, analyzed the data, performed the computation work, reviewed drafts of the paper.

Chun-Nan Hsu conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, prepared figures and/or tables, reviewed drafts of the paper, conceptualization, data curation, funding acquisition, supervision.

Data Deposition

The following information was supplied regarding data availability:

All PDF files are available from the PubMed Central database (https://www.ncbi.nlm.nih.gov/pmc/). The service is open to access freely at URL: http://textmining.ucsd.edu:9000. A list of PubMed Central IDs of the 941 articles (see Supplemental File 1) used in this study is available for download at the same URL. The instructions of how to run the service with a PubMed ID are described in Supplemental File 2.

Funding

The authors received funding from National Human Genome Research Institute (NHGRI, https://www.genome.gov) with grant number U01HG006894 for this work. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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