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Biology and bioinformatics research

Start with the biological question, sample design and data provenance. For single-cell work, record quality-control thresholds and batch handling before interpreting clusters or marker genes.
Try: “Review this AnnData object and propose a single-cell QC workflow. Explain each threshold and save plots before filtering.” Validate gene annotations and statistical conclusions against the underlying data. For a review of the literature, use the systematic review workflow.