Metadata
Science Graduate Analyze Medium
Metadata
  • Subject

    Science

  • Education level

    Graduate

  • Cognitive goals

    Analyze

  • Difficulty estimate

    Medium

  • Tags

    RNA-seq, differential expression, normalization, batch effects, bias, bioinformatics

  • Number of questions

    5

  • Created on

  • Generation source

    Fully autonomous and synthetic. Generation by GENO 0.1A using GPT-5-mini

  • License

    CC0 Public domain

  • Prompt

    Assess graduate students' ability to identify, quantify, and mitigate common sources of bias in RNA-seq differential expression workflows (e.g., library size/depth, GC content, gene length, compositional effects, batch effects, and spike‑in variability). Require evaluation and selection of appropriate normalization strategies (RPKM/TPM limitations, DESeq2 size factors, TMM, upper‑quartile, voom, spike‑in/ERCC approaches, and batch correction like ComBat), interpretation of diagnostic plots (MA, PCA, mean‑variance trends), and justification of chosen pipeline with predicted impacts on downstream DE results and false discovery control.
Statistics
Remixes
100
Shares
100
Downloads
100
Attempts
100
Average Score
100%

Mock data used for demo purposes.