Garcia-Alonso L, Holland CH, Ibrahim MM, Turei D, Saez-Rodriguez J. 'Benchmark and integration of resources for the estimation of human transcription factor activities.' Genome Research. 2019.<doi:10.1101/gr.240663.118>.

Badia-i-Mompel P., Vélez Santiago J., Braunger J., Geiss C., Dimitrov D., Müller-Dott S., Taus P., Dugourd A., Holland C.H., Ramirez Flores R.O. and Saez-Rodriguez J. 2022. decoupleR: Ensemble of computational methods to infer biological activities from omics data. Bioinformatics Advances. https://doi.org/10.1093/bioadv/vbac016

Müller-Dott S., Tsirvouli E., Vázquez M., Ramirez Flores R.O., Badia-i-Mompel P., Fallegger R., Lægreid A. and Saez-Rodriguez J. 2023. Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities. bioRxiv. https://doi.org/10.1101/2023.03.30.534849

Corresponding BibTeX entries:

  @Article{,
    author = {Luz Garcia-Alonso and Christian H. Holland and Mahmoud M.
      Ibrahim and Denes Turei and Julio Saez-Rodriguez},
    title = {Benchmark and integration of resources for the estimation
      of human transcription factor activities},
    journal = {Genome Research},
    year = {2019},
    doi = {10.1101/gr.240663.118},
  }

  @Article{,
    author = {Pau Badia-i-Mompel and Jesús Vélez Santiago and Jana
      Braunger and Celina Geiss and Daniel Dimitrov and Sophia
      Müller-Dott and Petr Taus and Aurelien Dugourd and Christian H.
      Holland and Ricardo O. Ramirez Flores and Julio Saez-Rodriguez},
    title = {decoupleR: ensemble of computational methods to infer
      biological activities from omics data},
    journal = {Bioinformatics Advances},
    year = {2022},
    doi = {https://doi.org/10.1093/bioadv/vbac016},
  }

  @Article{,
    author = {Sophia Müller-Dott and Eirini Tsirvouli and Miguel
      Vázquez and Ricardo O. Ramirez Flores and Pau Badia-i-Mompel and
      Robin Fallegger and Astrid Lægreid and Julio Saez-Rodriguez},
    title = {Expanding the coverage of regulons from high-confidence
      prior knowledge for accurate estimation of transcription factor
      activities},
    journal = {bioRxiv},
    year = {2023},
    doi = {https://doi.org/10.1101/2023.03.30.534849},
  }