PenDA

PenDA (Personalized Differential Analysis) is an innovative methodology designed to advance the goals of precision medicine by enabling the personalized diagnosis and treatment of patients based on their unique genomic profiles. This novel tool performs differential analysis on a single-sample scale by leveraging the local ordering of gene expressions within individual cases. It compares the deregulation status of genes in a sample of interest against a reference dataset, thus identifying molecular defects at an individual level.

Topic

Biomarkers;Oncology;Personalised medicine;RNA-Seq;Gene expression

Detail

  • Operation: Essential dynamics;Standardisation and normalisation;Differential gene expression analysis

  • Software interface: -

  • Language: R,C++

  • License: CeCILL

  • Cost: -

  • Version name: 0.1.0

  • Credit: ITMO Cancer, University Grenoble-Alpes, French National Research Agency, Plan Cancer, Pitcher, LIFE program of University Grenoble Alpes, Fondation ARC, and project PGA1.

  • Input: -

  • Output: -

  • Contact: Magali Richard magali.richard@univ-grenoble-alpes.fr ,Daniel Jost daniel.jost@ens-lyon.fr

  • Collection: -

  • Maturity: -

Publications

  • PenDA, a rank-based method for personalized differential analysis: Application to lung cancer.
  • Richard M, et al. PenDA, a rank-based method for personalized differential analysis: Application to lung cancer. PenDA, a rank-based method for personalized differential analysis: Application to lung cancer. 2020; 16:e1007869. doi: 10.1371/journal.pcbi.1007869
  • https://doi.org/10.1371/JOURNAL.PCBI.1007869
  • PMID: 32392248
  • PMC: PMC7274464

Download and documentation

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