Abstract

BackgroundAutomated extraction of bibliographic data, such as article titles, author names, abstracts, and references is essential to the affordable creation of large citation databases. References, typically appearing at the end of journal articles, can also provide valuable information for extracting other bibliographic data. Therefore, parsing individual reference to extract author, title, journal, year, etc. is sometimes a necessary preprocessing step in building citation-indexing systems. The regular structure in references enables us to consider reference parsing a sequence learning problem and to study structural Support Vector Machine (structural SVM), a newly developed structured learning algorithm on parsing references.ResultsIn this study, we implemented structural SVM and used two types of contextual features to compare structural SVM with conventional SVM. Both methods achieve above 98% token classification accuracy and above 95% overall chunk-level accuracy for reference parsing. We also compared SVM and structural SVM to Conditional Random Field (CRF). The experimental results show that structural SVM and CRF achieve similar accuracies at token- and chunk-levels.ConclusionsWhen only basic observation features are used for each token, structural SVM achieves higher performance compared to SVM since it utilizes the contextual label features. However, when the contextual observation features from neighboring tokens are combined, SVM performance improves greatly, and is close to that of structural SVM after adding the second order contextual observation features. The comparison of these two methods with CRF using the same set of binary features show that both structural SVM and CRF perform better than SVM, indicating their stronger sequence learning ability in reference parsing.

Highlights

  • Automated extraction of bibliographic data, such as article titles, author names, abstracts, and references is essential to the affordable creation of large citation databases

  • Given a training sample of input-output pairs (x1,y1),...Î X ×Y drawn from an unknown distribution, structural Support Vector Machine (SVM) addresses the general problem of learning a mapping f : X ® Y from input patterns x Î X to discrete outputs y Î Y that has low prediction errors

  • We have compared SVM and structural SVM as methods for parsing references that appear in medical journal articles

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Summary

Introduction

Automated extraction of bibliographic data, such as article titles, author names, abstracts, and references is essential to the affordable creation of large citation databases. References, typically appearing at the end of journal articles, can provide valuable information for extracting other bibliographic data. Parsing individual reference to extract author, title, journal, year, etc. Bibliographic references, typically cited at the end of scientific articles, provide much valuable information. Parsing these references is an essential step for building citation-indexing systems. With the rapid increase of journal literature indexed by MEDLINE every year, it is essential to have automated methods to extract bibliographic data, including article titles, author names, affiliations, abstracts, and many others

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