To cite package ‘GENIE3’ in publications use:

  Huynh-Thu et al. (2010) Inferring regulatory networks from expression
  data using tree-based methods. PLoS ONE 5(9): e12776.

A BibTeX entry for LaTeX users is

  @Article{,
    author = {Van Anh Huynh-Thu and Alexandre Irrthum and Louis Wehenkel and Pierre Geurts},
    title = {Inferring regulatory networks from expression data using tree-based methods},
    journal = {PLoS ONE},
    volume = {5},
    number = {9},
    pages = {e12776},
    year = {2010},
    doi = {10.1371/journal.pone.0012776},
  }

  Aibar et al. (2017) SCENIC: single-cell regulatory network inference
  and clustering. Nature Methods. doi: 10.1038/nmeth.4463

A BibTeX entry for LaTeX users is

  @Article{,
    author = {Sara Aibar and Carmen {Bravo Gonzalez-Blas} and Thomas Moerman and Van Anh Huynh-Thu and Hana Imrichova and Gert Hulselmans and Florian Rambow and Jean-Christophe Marine and Pierre Geurts and Jan Aerts and Joost {van den Oord} and Zeynep {Kalender Atak} and Jasper Wouters and Stein Aerts},
    title = {SCENIC: Single-Cell Regulatory Network Inference And Clustering},
    journal = {Nature Methods},
    year = {2017},
    doi = {10.1038/nmeth.4463},
    volume = {14},
    pages = {1083-1086},
  }