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Unsupervised word embeddings capture latent knowledge from materials science literature

Author

Listed:
  • Vahe Tshitoyan

    (Lawrence Berkeley National Laboratory
    Google LLC)

  • John Dagdelen

    (Lawrence Berkeley National Laboratory
    University of California)

  • Leigh Weston

    (Lawrence Berkeley National Laboratory)

  • Alexander Dunn

    (Lawrence Berkeley National Laboratory
    University of California)

  • Ziqin Rong

    (Lawrence Berkeley National Laboratory)

  • Olga Kononova

    (University of California)

  • Kristin A. Persson

    (Lawrence Berkeley National Laboratory
    University of California)

  • Gerbrand Ceder

    (Lawrence Berkeley National Laboratory
    University of California)

  • Anubhav Jain

    (Lawrence Berkeley National Laboratory)

Abstract

The overwhelming majority of scientific knowledge is published as text, which is difficult to analyse by either traditional statistical analysis or modern machine learning methods. By contrast, the main source of machine-interpretable data for the materials research community has come from structured property databases1,2, which encompass only a small fraction of the knowledge present in the research literature. Beyond property values, publications contain valuable knowledge regarding the connections and relationships between data items as interpreted by the authors. To improve the identification and use of this knowledge, several studies have focused on the retrieval of information from scientific literature using supervised natural language processing3–10, which requires large hand-labelled datasets for training. Here we show that materials science knowledge present in the published literature can be efficiently encoded as information-dense word embeddings11–13 (vector representations of words) without human labelling or supervision. Without any explicit insertion of chemical knowledge, these embeddings capture complex materials science concepts such as the underlying structure of the periodic table and structure–property relationships in materials. Furthermore, we demonstrate that an unsupervised method can recommend materials for functional applications several years before their discovery. This suggests that latent knowledge regarding future discoveries is to a large extent embedded in past publications. Our findings highlight the possibility of extracting knowledge and relationships from the massive body of scientific literature in a collective manner, and point towards a generalized approach to the mining of scientific literature.

Suggested Citation

  • Vahe Tshitoyan & John Dagdelen & Leigh Weston & Alexander Dunn & Ziqin Rong & Olga Kononova & Kristin A. Persson & Gerbrand Ceder & Anubhav Jain, 2019. "Unsupervised word embeddings capture latent knowledge from materials science literature," Nature, Nature, vol. 571(7763), pages 95-98, July.
  • Handle: RePEc:nat:nature:v:571:y:2019:i:7763:d:10.1038_s41586-019-1335-8
    DOI: 10.1038/s41586-019-1335-8
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    Citations

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    Cited by:

    1. Ananthan Nambiar & Tobias Rubel & James McCaull & Jon deVries & Mark Bedau, 2021. "Dropping diversity of products of large US firms: Models and measures," Papers 2110.08367, arXiv.org.
    2. Sotaro Shibayama & Deyun Yin & Kuniko Matsumoto, 2021. "Measuring novelty in science with word embedding," PLOS ONE, Public Library of Science, vol. 16(7), pages 1-16, July.
    3. Lin, Yiling & Evans, James A. & Wu, Lingfei, 2022. "New directions in science emerge from disconnection and discord," Journal of Informetrics, Elsevier, vol. 16(1).
    4. Mauricio Toledo-Acosta & Talin Barreiro & Asela Reig-Alamillo & Markus Müller & Fuensanta Aroca Bisquert & Maria Luisa Barrigon & Enrique Baca-Garcia & Jorge Hermosillo-Valadez, 2020. "Cognitive Emotional Embedded Representations of Text to Predict Suicidal Ideation and Psychiatric Symptoms," Mathematics, MDPI, vol. 8(11), pages 1-27, November.
    5. Martín de Diego, Isaac & González-Fernández, César & Fernández-Isabel, Alberto & Fernández, Rubén R. & Cabezas, Javier, 2021. "System for evaluating the reliability and novelty of medical scientific papers," Journal of Informetrics, Elsevier, vol. 15(4).
    6. Jason Youn & Navneet Rai & Ilias Tagkopoulos, 2022. "Knowledge integration and decision support for accelerated discovery of antibiotic resistance genes," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    7. Yonghe Lu & Jiayi Luo & Ying Xiao & Hou Zhu, 2021. "Text representation model of scientific papers based on fusing multi-viewpoint information and its quality assessment," Scientometrics, Springer;Akadémiai Kiadó, vol. 126(8), pages 6937-6963, August.
    8. Aman Kumar & Binil Starly, 2022. "“FabNER”: information extraction from manufacturing process science domain literature using named entity recognition," Journal of Intelligent Manufacturing, Springer, vol. 33(8), pages 2393-2407, December.
    9. Hain, Daniel S. & Jurowetzki, Roman & Buchmann, Tobias & Wolf, Patrick, 2022. "A text-embedding-based approach to measuring patent-to-patent technological similarity," Technological Forecasting and Social Change, Elsevier, vol. 177(C).
    10. Zongrui Pei & Junqi Yin & Peter K. Liaw & Dierk Raabe, 2023. "Toward the design of ultrahigh-entropy alloys via mining six million texts," Nature Communications, Nature, vol. 14(1), pages 1-8, December.
    11. Jarrahi, Mohammad Hossein & Askay, David & Eshraghi, Ali & Smith, Preston, 2023. "Artificial intelligence and knowledge management: A partnership between human and AI," Business Horizons, Elsevier, vol. 66(1), pages 87-99.
    12. Wu, Lingfei & Kittur, Aniket & Youn, Hyejin & Milojević, Staša & Leahey, Erin & Fiore, Stephen M. & Ahn, Yong-Yeol, 2022. "Metrics and mechanisms: Measuring the unmeasurable in the science of science," Journal of Informetrics, Elsevier, vol. 16(2).
    13. Yan Duan & Lorena E. Rosaleny & Joana T. Coutinho & Silvia Giménez-Santamarina & Allen Scheie & José J. Baldoví & Salvador Cardona-Serra & Alejandro Gaita-Ariño, 2022. "Data-driven design of molecular nanomagnets," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    14. Gordana Ispirova & Tome Eftimov & Barbara Koroušić Seljak, 2020. "P-NUT: Predicting NUTrient Content from Short Text Descriptions," Mathematics, MDPI, vol. 8(10), pages 1-21, October.
    15. Shaoshuo Li & Baixing Chen & Hao Chen & Zhen Hua & Yang Shao & Heng Yin & Jianwei Wang, 2021. "Analysis of potential genetic biomarkers and molecular mechanism of smoking-related postmenopausal osteoporosis using weighted gene co-expression network analysis and machine learning," PLOS ONE, Public Library of Science, vol. 16(9), pages 1-18, September.
    16. David Chavalarias & Quentin Lobbé & Alexandre Delanoë, 2022. "Draw me Science," Scientometrics, Springer;Akadémiai Kiadó, vol. 127(1), pages 545-575, January.
    17. Jeong, Yoo Kyung & Xie, Qing & Yan, Erjia & Song, Min, 2020. "Examining drug and side effect relation using author–entity pair bipartite networks," Journal of Informetrics, Elsevier, vol. 14(1).
    18. Shufeng Kong & Francesco Ricci & Dan Guevarra & Jeffrey B. Neaton & Carla P. Gomes & John M. Gregoire, 2022. "Density of states prediction for materials discovery via contrastive learning from probabilistic embeddings," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    19. Jiang, Zhuoren & Lin, Tianqianjin & Huang, Cui, 2023. "Deep representation learning of scientific paper reveals its potential scholarly impact," Journal of Informetrics, Elsevier, vol. 17(1).
    20. Zachary A Pardos & Andrew Joo Hun Nam, 2020. "A university map of course knowledge," PLOS ONE, Public Library of Science, vol. 15(9), pages 1-24, September.
    21. Jianhong Luo & Minjuan Chai & Xuwei Pan, 2021. "Identification of Research Priorities during the COVID-19 Pandemic: Implications for Its Management," IJERPH, MDPI, vol. 18(24), pages 1-15, December.
    22. Pessa, Arthur A.B. & Zola, Rafael S. & Perc, Matjaž & Ribeiro, Haroldo V., 2022. "Determining liquid crystal properties with ordinal networks and machine learning," Chaos, Solitons & Fractals, Elsevier, vol. 154(C).
    23. Lucie Beranová & Marcin P. Joachimiak & Tomáš Kliegr & Gollam Rabby & Vilém Sklenák, 2022. "Why was this cited? Explainable machine learning applied to COVID-19 research literature," Scientometrics, Springer;Akadémiai Kiadó, vol. 127(5), pages 2313-2349, May.
    24. John Dagdelen & Alexander Dunn & Sanghoon Lee & Nicholas Walker & Andrew S. Rosen & Gerbrand Ceder & Kristin A. Persson & Anubhav Jain, 2024. "Structured information extraction from scientific text with large language models," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    25. Lu Liu & Benjamin F. Jones & Brian Uzzi & Dashun Wang, 2023. "Data, measurement and empirical methods in the science of science," Nature Human Behaviour, Nature, vol. 7(7), pages 1046-1058, July.

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