Ten Tips for a Text-mining-ready Article: How to Improve Automated Discoverability and Interpretability

Overview

Journal PLoS Biol

Specialty Biology

Date 2020 Jun 2

PMID 32479517

Citations 7

Authors

Robert Leaman

Chih-Hsuan Wei

Alexis Allot

Zhiyong Lu

Affiliations

Soon will be listed here.

Abstract

Data-driven research in biomedical science requires structured, computable data. Increasingly, these data are created with support from automated text mining. Text-mining tools have rapidly matured: although not perfect, they now frequently provide outstanding results. We describe 10 straightforward writing tips-and a web tool, PubReCheck-guiding authors to help address the most common cases that remain difficult for text-mining tools. We anticipate these guides will help authors' work be found more readily and used more widely, ultimately increasing the impact of their work and the overall benefit to both authors and readers. PubReCheck is available at http://www.ncbi.nlm.nih.gov/research/pubrecheck.

Citing Articles

Chemical identification and indexing in full-text articles: an overview of the NLM-Chem track at BioCreative VII.

Leaman R, Islamaj R, Adams V, Alliheedi M, Almeida J, Antunes R Database (Oxford). 2023; 2023.

PMID: 36882099 PMC: 9991492. DOI: 10.1093/database/baad005.

Toward reporting standards for the pathogenicity of variant combinations involved in multilocus/oligogenic diseases.

Papadimitriou S, Gravel B, Nachtegael C, De Baere E, Loeys B, Vikkula M HGG Adv. 2022; 4(1):100165.

PMID: 36578772 PMC: 9791921. DOI: 10.1016/j.xhgg.2022.100165.

Comprehensively identifying Long Covid articles with human-in-the-loop machine learning.

Leaman R, Islamaj R, Allot A, Chen Q, Wilbur W, Lu Z Patterns (N Y). 2022; 4(1):100659.

PMID: 36471749 PMC: 9712067. DOI: 10.1016/j.patter.2022.100659.

New reasons for biologists to write with a formal language.

Rodriguez-Esteban R Database (Oxford). 2022; 2022.

PMID: 35657112 PMC: 9216469. DOI: 10.1093/database/baac039.

A Second Look at FAIR in Proteomic Investigations.

Caufield J, Fu J, Wang D, Guevara-Gonzalez V, Wang W, Ping P J Proteome Res. 2021; 20(5):2182-2186.

PMID: 33719446 PMC: 8518219. DOI: 10.1021/acs.jproteome.1c00177.

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