Activities

Year 2019

Oral Presentations:

  • B. Hejblum gave an invited talk at the EcoSta Conference in Taïchung (Taïwan)
  • B. Hejblum gave an talk at the Joint Statistical Meeting in Denver (USA)
  • L. Villain gave a talk at the Journées Statistiques et Santé  meeting in Paris (France)
  • M. Gauthier will give a talk at the StatOmique meeting in Paris (France)

Scientific progress:

  • Completed:
    • preprint introducing dearseq method for robust gene-wise analysis of RNA-seq data
    • implementation of the above method in the dearseq R package (publicly available)
    • development of a method for differential gene expression analysis in single-cell RNA-seq data relying on the estimation of the conditional cumulative distribution function
  • Ongoing:
    • implementation and validation of the above method for scRNA-seq
    • surrogacy analysis in high-dimensional setting for quantifying how much of the immune response can be explained from gene expression RNA-seq measurements in vaccine trials (R21 application to NIH)
    • extension of Gene Set Analysis methods for RNA-seq data to time-to-event outcomes

Visits:

  • SWAGR strategic meeting at the RAND Corporation in Boston (USA) in November 2019 (1 week work agenda)

Supervision:

  • Post-doctoral project: Gene Set Analysis of RNA-seq data for time-to-event response by Laura Villain

 

Year 2018

Oral Presentations:

  • B. Hejblum talk at the International Biometric Conference in Barcelona
  • D. Agniel talk at the Joint Statistical Meeting in Vancouver
  • B. Hejblum invited talk at the Genotoul Biostat Biofinfo day 2018 in Toulouse

Scientific progress:

  • Completed:
    • simulation study examplifying the lack of Type-I error and FDR control from state-of-the-art RNA-seq differential expression methods
    • varseq method for gene-wise analysis of bulk RNA-seq data
    • Effective FDR control method for discrete p-values arising from permutation tests (useful for small sample size studies)
    • implementation of the above method in the tcgsaseq R package

Visits:

  • SWAGR meeting at the RAND Corporation in Santa Monica in July 2018 (10 days)

Supervision:

  • Master 2 thesis: Test en composante de variance pour l’analyse de données RNA-seq by Marine Gauthier

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