@article{UBHD-69216044,
  author={Badia-i-Mompel, Pau and Wessels, Lorna and M{\"u}ller-Dott, Sophia and Trimbour, Rémi and Ramirez Flores, Ricardo O. and Argelaguet, Ricard and Sáez Rodríguez, Julio},
  title={Gene regulatory network inference in the era of single-cell multi-omics},
  year={2023},
  pages={739-754},
  language={eng},
  issn={1471-0064},
  volume={24},
  number={11 vom: Nov.},
  note={Online ver{\"o}ffentlicht: 26. Juni 2023 ; Gesehen am 21.05.2024},
  journal={Nature reviews},
  doi={10.1038/s41576-023-00618-5},
}
@article{UBHD-68957274,
  author={Dimitrov, Daniel and T{\"u}rei, Dénes and Garrido-Rodriguez, Martin and Burmedi, Paul L. and Nagai, James S. and Boys, Charlotte and Ramirez Flores, Ricardo O. and Kim, Hyojin and Szalai, Bence and Costa, Ivan G. and Valdeolivas, Alberto and Dugourd, Aurélien and Sáez Rodríguez, Julio},
  title={Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data},
  year={2022},
  pages={1-13},
  language={eng},
  issn={2041-1723},
  volume={13},
  number={Artikel-ID 3224},
  note={Gesehen am 25.08.2022},
  journal={Nature Communications},
  doi={10.1038/s41467-022-30755-0},
  url={https://doi.org/10.1038/s41467-022-30755-0},
  library={UB},
}
@article{UBHD-69260053,
  author={Dimitrov, Daniel and Sch{\"a}fer, Philipp and Farr, Elias and Rodriguez Mier, Pablo and Lobentanzer, Sebastian and Badia-i-Mompel, Pau and Dugourd, Aurélien and Tanevski, Jovan and Ramirez Flores, Ricardo O. and Sáez Rodríguez, Julio},
  title={LIANA+ provides an all-in-one framework for cell-cell communication inference},
  year={2024},
  pages={1613-1622},
  language={eng},
  issn={1476-4679},
  volume={26},
  number={9},
  note={Gesehen am 07.10.2024},
  journal={Nature cell biology},
  doi={10.1038/s41556-024-01469-w},
}
@article{UBHD-69055996,
  author={Frede, Annika and Czarnewski, Paulo and Monasterio, Gustavo and Tripathi, Kumar P. and Bejarano, David A. and Ramirez Flores, Ricardo O. and Sorini, Chiara and Larsson, Ludvig and Luo, Xinxin and Geerlings, Laura and Novella-Rausell, Claudio and Zagami, Chiara and Kuiper, Raoul and Morales, Rodrigo A. and Castillo, Francisca and Hunt, Matthew and Mariano, Livia Lacerda and Hu, Yue O. O. and Engblom, Camilla and Lennon-Duménil, Ana-Maria and Mittenzwei, Romy and Westendorf, Astrid M. and H{\"o}velmeyer, Nadine and Lundeberg, Joakim and Sáez Rodríguez, Julio and Schlitzer, Andreas and Das, Srustidhar and Villablanca, Eduardo J.},
  title={B cell expansion hinders the stroma-epithelium regenerative cross talk during mucosal healing},
  year={2022},
  pages={28 S.},
  language={eng},
  issn={1097-4180},
  volume={55},
  note={Online ver{\"o}ffentlicht am 2. Dezember 2022, Artikelversion vom 13. Dezember 2022 ; Gesehen am 28.11.2023},
  journal={Immunity},
  doi={10.1016/j.immuni.2022.11.002},
}
@article{UBHD-69320560,
  author={Lanzer, Jan David and Wienecke, Laura Marie and Ramirez Flores, Ricardo O. and Zylla, Maura Magdalena and Kley, Celina and Hartmann, Niklas and Sicklinger, Florian and Schultz, Jobst-Hendrik and Frey, Norbert and Sáez Rodríguez, Julio and Leuschner, Florian},
  title={Single-cell transcriptomics reveal distinctive patterns of fibroblast activation in heart failure with preserved ejection fraction},
  year={2024},
  pages={1001-1028},
  language={eng},
  issn={1435-1803},
  volume={119},
  number={6},
  note={Gesehen am 20.03.2025},
  journal={Basic research in cardiology},
  doi={10.1007/s00395-024-01074-w},
}
@article{UBHD-69331015,
  author={Lerma Martin, Celia and Badia-i-Mompel, Pau and Ramirez Flores, Ricardo O. and Sekol, Patricia and Sch{\"a}fer, Philipp and Riedl, Christian J. and Hofmann, Annika and Th{\"a}wel, Thomas and W{\"u}nnemann, Florian and Ibarra-Arellano, Miguel A. and Trobisch, Tim and Eisele, Philipp and Schapiro, Denis and Haeussler, Maximilian and Hametner, Simon and Sáez Rodríguez, Julio and Schirmer, Lucas},
  title={Cell type mapping reveals tissue niches and interactions in subcortical multiple sclerosis lesions},
  year={2024},
  pages={2354-2365},
  language={eng},
  issn={1546-1726},
  volume={27},
  number={12 vom: Dez.},
  note={Online ver{\"o}ffentlicht: 5. November 2024 ; Gesehen am 14.04.2025},
  journal={Nature neuroscience},
  doi={10.1038/s41593-024-01796-z},
}
@article{UBHD-69149565,
  author={M{\"u}ller-Dott, Sophia and Tsirvouli, Eirini and Vazquez, Miguel and Ramirez Flores, Ricardo O. and Badia-i-Mompel, Pau and Fallegger, Robin and T{\"u}rei, Dénes and Lægreid, Astrid and Sáez Rodríguez, Julio},
  title={Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities},
  year={2023},
  pages={10934-10949},
  language={eng},
  issn={1362-4962},
  volume={51},
  number={20},
  note={Online verf{\"u}gbar: 16. Oktober 2023 ; Gesehen am 05.12.2023},
  journal={Nucleic acids research},
  doi={10.1093/nar/gkad841},
}
@article{UBHD-68915700,
  author={Parigi, Sara M. and Larsson, Ludvig and Das, Srustidhar and Ramirez Flores, Ricardo O. and Frede, Annika and Tripathi, Kumar P. and Diaz, Oscar E. and Selin, Katja and Morales, Rodrigo A. and Luo, Xinxin and Monasterio, Gustavo and Engblom, Camilla and Gagliani, Nicola and Sáez Rodríguez, Julio and Lundeberg, Joakim and Villablanca, Eduardo J.},
  title={The spatial transcriptomic landscape of the healing mouse intestine following damage},
  year={2022},
  pages={1-16},
  language={eng},
  issn={2041-1723},
  volume={13},
  number={Artikel-ID 828},
  note={Gesehen am 06.05.2022},
  journal={Nature Communications},
  doi={10.1038/s41467-022-28497-0},
}
@article{UBHD-69284021,
  author={Paton, Victor and Ramirez Flores, Ricardo O. and Gabor, Attila and Badia-i-Mompel, Pau and Tanevski, Jovan and Garrido-Rodriguez, Martin and Sáez Rodríguez, Julio},
  title={Assessing the impact of transcriptomics data analysis pipelines on downstream functional enrichment results},
  year={2024},
  pages={8100-8111},
  language={eng},
  issn={1362-4962},
  volume={52},
  number={14 vom: Aug.},
  note={Ver{\"o}ffentlicht: 29 June 2024 ; Gesehen am 16.12.2024},
  journal={Nucleic acids research},
  doi={10.1093/nar/gkae552},
}
@article{UBHD-68740486,
  author={Ramirez Flores, Ricardo O. and Lanzer, Jan David and Holland, Christian H. and Leuschner, Florian and Most, Patrick and Schultz, Jobst-Hendrik and Levinson, Rebecca T. and Sáez Rodríguez, Julio},
  title={Consensus Transcriptional Landscape of Human End‐Stage Heart Failure},
  year={2021},
  pages={1-40},
  language={eng},
  issn={2047-9980},
  volume={10},
  note={Gesehen am 25.05.2021},
  journal={Journal of the American Heart Association},
  doi={10.1161/JAHA.120.019667},
  url={https://doi.org/10.1161/JAHA.120.019667},
  library={UB},
}
@article{UBHD-69221231,
  author={Ramirez Flores, Ricardo O. and Lanzer, Jan David and Dimitrov, Daniel and Velten, Britta and Sáez Rodríguez, Julio},
  title={Multicellular factor analysis of single-cell data for a tissue-centric understanding of disease},
  year={2023},
  pages={1-27},
  language={eng},
  issn={2050-084X},
  volume={12},
  number={Artikel-ID e93161},
  note={Gesehen am 06.06.2024},
  journal={eLife},
  doi={10.7554/eLife.93161},
}
@book{UBHD-69087343,
  author={Ramirez Flores, Ricardo O.},
  title={Multi-scale molecular descriptions of human heart failure using single cell, spatial, and bulk transcriptomics},
  address={Heidelberg},
  year={2023},
  pages={1 Online-Ressource (147 Seiten)},
  language={eng},
  school={Dissertation,  Ruprecht-Karls-University Heidelberg,  2023},
  doi={10.11588/heidok.00033349},
  keywords={Bioinformatik / Genexpression / Kardiologie},
  url={https://nbn-resolving.org/urn:nbn:de:bsz:16-heidok-333493},
  library={UB},
}
@book{UBHD-69100087,
  author={Ramirez Flores, Ricardo O.},
  organization={Universit{\"a}t Heidelberg},
  title={Multi-scale molecular descriptions of human heart failure using single cell, spatial, and bulk transcriptomics},
  address={Heidelberg},
  year={2023},
  pages={147 Seiten},
  language={eng},
  school={Dissertation,  Ruprecht-Karls-University Heidelberg,  2023},
  keywords={Bioinformatik / Genexpression / Kardiologie},
  library={UB [Signatur: 2023 U 599]},
}
@article{UBHD-68919453,
  author={Tanevski, Jovan and Ramirez Flores, Ricardo O. and Gabor, Attila and Schapiro, Denis and Sáez Rodríguez, Julio},
  title={Explainable multiview framework for dissecting spatial relationships from highly multiplexed data},
  year={2022},
  pages={1-31},
  language={eng},
  issn={1474-760X},
  volume={23},
  number={Artikel-ID 97},
  note={Gesehen am 17.05.2022},
  journal={Genome biology},
  doi={10.1186/s13059-022-02663-5},
  url={https://doi.org/10.1186/s13059-022-02663-5},
  library={UB},
}