Literature DB >> 33816888

A systematic review on literature-based discovery workflow.

Menasha Thilakaratne1, Katrina Falkner1, Thushari Atapattu1.   

Abstract

As scientific publication rates increase, knowledge acquisition and the research development process have become more complex and time-consuming. Literature-Based Discovery (LBD), supporting automated knowledge discovery, helps facilitate this process by eliciting novel knowledge by analysing existing scientific literature. This systematic review provides a comprehensive overview of the LBD workflow by answering nine research questions related to the major components of the LBD workflow (i.e., input, process, output, and evaluation). With regards to the input component, we discuss the data types and data sources used in the literature. The process component presents filtering techniques, ranking/thresholding techniques, domains, generalisability levels, and resources. Subsequently, the output component focuses on the visualisation techniques used in LBD discipline. As for the evaluation component, we outline the evaluation techniques, their generalisability, and the quantitative measures used to validate results. To conclude, we summarise the findings of the review for each component by highlighting the possible future research directions. ©2019 Thilakaratne et al.

Entities:  

Keywords:  Knowledge Discovery; Literature Mining; Literature-Based Discovery; Systematic Review

Year:  2019        PMID: 33816888      PMCID: PMC7924697          DOI: 10.7717/peerj-cs.235

Source DB:  PubMed          Journal:  PeerJ Comput Sci        ISSN: 2376-5992


  71 in total

1.  Knowledge discovery by automated identification and ranking of implicit relationships.

Authors:  Jonathan D Wren; Raffi Bekeredjian; Jelena A Stewart; Ralph V Shohet; Harold R Garner
Journal:  Bioinformatics       Date:  2004-01-22       Impact factor: 6.937

2.  Systems literature analysis.

Authors:  Andreas Persidis; Spyros Deftereos; Aris Persidis
Journal:  Pharmacogenomics       Date:  2004-10       Impact factor: 2.533

3.  Literature-based discovery of new candidates for drug repurposing.

Authors:  Hsih-Te Yang; Jiun-Huang Ju; Yue-Ting Wong; Ilya Shmulevich; Jung-Hsien Chiang
Journal:  Brief Bioinform       Date:  2017-05-01       Impact factor: 11.622

4.  Fish oil, Raynaud's syndrome, and undiscovered public knowledge.

Authors:  D R Swanson
Journal:  Perspect Biol Med       Date:  1986       Impact factor: 1.416

Review 5.  Literature Based Discovery: Models, methods, and trends.

Authors:  Sam Henry; Bridget T McInnes
Journal:  J Biomed Inform       Date:  2017-08-31       Impact factor: 6.317

6.  Towards self-learning based hypotheses generation in biomedical text domain.

Authors:  Vishrawas Gopalakrishnan; Kishlay Jha; Guangxu Xun; Hung Q Ngo; Aidong Zhang
Journal:  Bioinformatics       Date:  2018-06-15       Impact factor: 6.937

7.  Discovering New Genes in the Pathways of Common Sporadic Neurodegenerative Diseases: A Bioinformatics Approach.

Authors:  Yong Hwan Kim; Seung Han Beak; Andreas Charidimou; Min Song
Journal:  J Alzheimers Dis       Date:  2016       Impact factor: 4.472

8.  Entitymetrics: measuring the impact of entities.

Authors:  Ying Ding; Min Song; Jia Han; Qi Yu; Erjia Yan; Lili Lin; Tamy Chambers
Journal:  PLoS One       Date:  2013-08-29       Impact factor: 3.240

9.  Anni 2.0: a multipurpose text-mining tool for the life sciences.

Authors:  Rob Jelier; Martijn J Schuemie; Antoine Veldhoven; Lambert C J Dorssers; Guido Jenster; Jan A Kors
Journal:  Genome Biol       Date:  2008-06-12       Impact factor: 13.583

10.  Context-driven automatic subgraph creation for literature-based discovery.

Authors:  Delroy Cameron; Ramakanth Kavuluru; Thomas C Rindflesch; Amit P Sheth; Krishnaprasad Thirunarayan; Olivier Bodenreider
Journal:  J Biomed Inform       Date:  2015-02-07       Impact factor: 6.317

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  6 in total

1.  Combining Literature Mining and Machine Learning for Predicting Biomedical Discoveries.

Authors:  Balu Bhasuran
Journal:  Methods Mol Biol       Date:  2022

2.  Exploration of Shared Themes Between Food Security and Internet of Things Research Through Literature-Based Discovery.

Authors:  Cristian Mejia; Yuya Kajikawa
Journal:  Front Res Metr Anal       Date:  2021-05-13

3.  MeSH and text-word search strategies: precision, recall, and their implications for library instruction.

Authors:  Michelle M DeMars; Carol Perruso
Journal:  J Med Libr Assoc       Date:  2022-01-01

Review 4.  Literature Mining of Disease Associated Noncoding RNA in the Omics Era.

Authors:  Jian Fan
Journal:  Molecules       Date:  2022-07-23       Impact factor: 4.927

5.  Classification of Covid-19 misinformation on social media based on neuro-fuzzy and neural network: A systematic review.

Authors:  Bhavani Devi Ravichandran; Pantea Keikhosrokiani
Journal:  Neural Comput Appl       Date:  2022-09-20       Impact factor: 5.102

6.  Non-Specific Low Back Pain, Dietary Salt Intake, and Posterior Lumbar Subcutaneous Edema.

Authors:  Ronald B Brown
Journal:  Int J Environ Res Public Health       Date:  2022-07-27       Impact factor: 4.614

  6 in total

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