hiPathia

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====== How to cite HiPathia: ======


Please, use the following convention to cite Hipathia tool:

Rian K, Hidalgo MR, Çubuk C, Falco MM, Loucera C, Esteban-Medina M, Alamo-Alvarez I, Peña-Chilet M, Dopazo J. Genome-scale mechanistic modeling of signaling pathways made easy: A bioconductor/cytoscape/web server framework for the analysis of omic data. Comput Struct Biotechnol J. 2021 May 15;19:2968-2978. doi: 10.1016/j.csbj.2021.05.022. PMID: 34136096; PMCID: PMC8170118.
[[https://doi.org/10.1016/j.csbj.2021.05.022]].

**Article :** {{:paper.pdf| PDF (2.7M)}}

Hidalgo, M. R., Cubuk, C., Amadoz, A., Salavert, F., Carbonell-Caballero, J., & Dopazo, J. (2017). High throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes. Oncotarget, 8(3), 5160–5178. [[http://doi.org/10.18632/oncotarget.14107]]

**Article :** {{:14107-210448-2-pb.pdf| PDF (3.6M)}}

If you use the **Variant Interpreter** option, please, use this instead:

Peña-Chilet M, Esteban-Medina M, Falco MM, Rian K, Hidalgo MR, Loucera C, Dopazo J.(2019) Using mechanistic models for the clinical interpretation of complex genomic variation. Sci Rep. 9(1):18937. [[http://doi.org/10.1038/s41598-019-55454-7]].

**Related papers:**

  * Esteban-Medina, M., Peña-Chilet, M., Loucera, C. et al. Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic models. BMC Bioinformatics 20, 370 (2019). https://doi.org/10.1186/s12859-019-2969-0
  * Loucera, C., Esteban-Medina, M., Rian, K. et al. Drug repurposing for COVID-19 using machine learning and mechanistic models of signal transduction circuits related to SARS-CoV-2 infection. Sig Transduct Target Ther 5, 290 (2020). https://doi.org/10.1038/s41392-020-00417-y