Proteomics — peptide evidence to protein inference
Trace quantitative proteomics from independent samples through peptide identification and protein inference. Shared peptides, missing values and batch effects must remain visible in downstream comparisons.
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{
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{ "id": "prep", "type": "rounded", "label": "Balanced preparation batches", "x": 215, "y": 200, "width": 150, "height": 104, "fill": "#fef3c7", "stroke": "#b45309" },
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{ "id": "pep", "type": "card", "label": "Peptide identification evidence", "x": 565, "y": 200, "width": 150, "height": 104, "fill": "#ccfbf1", "stroke": "#0f766e" },
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{ "id": "protein", "type": "rounded", "label": "Protein inference and quantification", "x": 740, "y": 200, "width": 150, "height": 104, "fill": "#fef3c7", "stroke": "#b45309" },
{ "id": "missing", "type": "octagon", "label": "Missingness / batch diagnostics", "x": 740, "y": 520, "width": 150, "height": 104, "fill": "#e0f2fe", "stroke": "#0369a1" },
{ "id": "comp", "type": "rounded", "label": "Planned protein comparisons", "x": 915, "y": 200, "width": 150, "height": 104, "fill": "#fce7f3", "stroke": "#be185d" },
{ "id": "fdr", "type": "octagon", "label": "Identification / testing error control", "x": 390, "y": 520, "width": 150, "height": 104, "fill": "#e0f2fe", "stroke": "#0369a1" }
],
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