StemTextSearch: Stem cell gene database with evidence from abstracts

Chen, Chou Cheng; Ho, Chung Liang

doi:10.1016/j.jbi.2017.03.008

Cited by 2 publications

(1 citation statement)

References 27 publications

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“…It is impractical to screen all the documents returned by Google Scholar and PMC, so human curation limits the possibility of collecting data comprehensively. Therefore, an auto-updating database would be a better way to solve this problem [3], [4]. The auto-updating database would need to collect documents, read the content, extract text features, and classify the text by itself on a regular basis.…”

Section: Introductionmentioning

confidence: 99%

ATTRACTIVE – An Auto-Updating Database for Experimental Protocols in Regenerative Medicine

et al. 2021

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Many research articles are published on regenerative medicine every year. However, only a small proportion of these articles provide experimental methods on organ/tissue differentiation. Therefore, we developed a database -ATTRACTIVE (An auTo-updating daTabase foR experimentAl protoCols in regeneraTIVe mEdicine) -that collects journal articles with differentiation methods in regenerative medicine and updates itself automatically on a regular basis. Since the number of articles in regenerative medicine was insufficient and unbalanced, which limited the performance of the supervised learning algorithms, we proposed an algorithm that combines cosine similarity and linear discriminant functions to classify articles based on their titles and abstracts more efficiently. The results show that our proposed methods out-performed other machine learning algorithms such as k-nearest neighbors, support vector machine, and long short-term memory methods. The classification accuracy reached 94.62%, even with a small and unbalanced dataset. Lastly, we incorporated our classifier into the database for automatic updates. The database is available at http://attractive.cgm.ntu.edu.tw/.

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Section: Introductionmentioning

confidence: 99%