ENQUIRE automatically reconstructs, expands, and drives enrichment analysis of gene and Mesh co-occurrence networks from context-specific biomedical literature

Luca Musella; Alejandro Afonso Castro; Xin Lai; Max Widmann; Julio Vera

doi:10.1371/journal.pcbi.1012745

Loading metrics

Open Access

Peer-reviewed

ENQUIRE automatically reconstructs, expands, and drives enrichment analysis of gene and Mesh co-occurrence networks from context-specific biomedical literature

Luca Musella ,

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Software, Validation, Visualization, Writing – original draft, Writing – review & editing

* E-mail: luca.musella@uk-erlangen.de (LM); julio.vera-gonzalez@uk-erlangen.de (JV)

Affiliation Laboratory of Systems Tumor Immunology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Deutsches Zentrum Immuntherapie, BZKF, and Uniklinikum Erlangen, Erlangen, Germany

https://orcid.org/0009-0008-1870-5670

⨯
Alejandro Afonso Castro,

Roles Software, Validation, Writing – review & editing

Affiliation Laboratory of Systems Tumor Immunology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Deutsches Zentrum Immuntherapie, BZKF, and Uniklinikum Erlangen, Erlangen, Germany

https://orcid.org/0009-0009-9528-8441

⨯
Xin Lai,

Roles Writing – review & editing

Affiliations Laboratory of Systems Tumor Immunology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Deutsches Zentrum Immuntherapie, BZKF, and Uniklinikum Erlangen, Erlangen, Germany, Faculty of Medicine and Health Technology, Systems and Network Medicine Lab, Biomedicine Unit, Tampere University, Tampere, Finland

https://orcid.org/0000-0003-4913-5822

⨯
Max Widmann,

Roles Data curation, Formal analysis, Software, Validation

Affiliations Laboratory of Systems Tumor Immunology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Deutsches Zentrum Immuntherapie, BZKF, and Uniklinikum Erlangen, Erlangen, Germany, University of Konstanz, Konstanz, Germany
⨯
Julio Vera

Roles Conceptualization, Funding acquisition, Investigation, Project administration, Resources, Supervision, Writing – original draft, Writing – review & editing

* E-mail: luca.musella@uk-erlangen.de (LM); julio.vera-gonzalez@uk-erlangen.de (JV)

Affiliation Laboratory of Systems Tumor Immunology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Deutsches Zentrum Immuntherapie, BZKF, and Uniklinikum Erlangen, Erlangen, Germany
⨯

ENQUIRE automatically reconstructs, expands, and drives enrichment analysis of gene and Mesh co-occurrence networks from context-specific biomedical literature

Luca Musella,
Alejandro Afonso Castro,
Xin Lai,
Max Widmann,
Julio Vera

Published: February 11, 2025
https://doi.org/10.1371/journal.pcbi.1012745

Reader Comments (0)

Post a new comment on this article

Subject Areas
?

For more information about PLOS Subject Areas, click here.
We want your feedback. Do these Subject Areas make sense for this article? Click the target next to the incorrect Subject Area and let us know. Thanks for your help!

Genetic networks
Is the Subject Area "Genetic networks" applicable to this article?

Thanks for your feedback.
Network analysis
Is the Subject Area "Network analysis" applicable to this article?

Thanks for your feedback.
Protein interaction networks
Is the Subject Area "Protein interaction networks" applicable to this article?

Thanks for your feedback.
Graphs
Is the Subject Area "Graphs" applicable to this article?

Thanks for your feedback.
Text mining
Is the Subject Area "Text mining" applicable to this article?

Thanks for your feedback.
Signal transduction
Is the Subject Area "Signal transduction" applicable to this article?

Thanks for your feedback.
Gene regulatory networks
Is the Subject Area "Gene regulatory networks" applicable to this article?

Thanks for your feedback.
Test statistics
Is the Subject Area "Test statistics" applicable to this article?

Thanks for your feedback.