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causalizeR: a text mining algorithm to identify causal relationships in scientific literature

Authors: Ancin Murguzur, Francisco Javier; Hausner, Vera Helene;

causalizeR: a text mining algorithm to identify causal relationships in scientific literature

Abstract

Complex interactions among multiple abiotic and biotic drivers result in rapid changes in ecosystems worldwide. Predicting how specific interactions can cause ripple effects potentially resulting in abrupt shifts in ecosystems is of high relevance to policymakers, but difficult to quantify using data from singular cases. We present causalizeR ( https://github.com/fjmurguzur/causalizeR ), a text-processing algorithm that extracts causal relations from literature based on simple grammatical rules that can be used to synthesize evidence in unstructured texts in a structured manner. The algorithm extracts causal links using the relative position of nouns relative to the keyword of choice to extract the cause and effects of interest. The resulting database can be combined with network analysis tools to estimate the direct and indirect effects of multiple drivers at the network level, which is useful for synthesizing available knowledge and for hypothesis creation and testing. We illustrate the use of the algorithm by detecting causal relationships in scientific literature relating to the tundra ecosystem.

Country
Norway
Keywords

Literature review, QH301-705.5, Bioinformatics, Natural language processing, R, Big data, Evidence synthesis, Scenarios, VDP::Mathematics and natural science: 400::Zoology and botany: 480, Medicine, Biology (General), VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480

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    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    7
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Top 10%
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
7
Top 10%
Average
Top 10%
Green
gold