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"_note": "MS acquisition protocol per source paper (hcode), PDF-verified 2026-07-12. Used for condition-aware model ranking (species -> enzyme -> protocol). Vocabulary: nano-LC-MS/MS, UPLC-MS/MS, LC-MS/MS, HPLC-MS/MS, MALDI-TOF/TOF, other.",
"protocol_vocabulary": ["nano-LC-MS/MS", "UPLC-MS/MS", "LC-MS/MS", "HPLC-MS/MS", "MALDI-TOF/TOF", "other"],
"by_hcode": {
"H2": {"protocol": "UPLC-MS/MS", "instrument": "Q Exactive Plus (Orbitrap)", "mode": "DDA"},
"H3": {"protocol": "nano-LC-MS/MS", "instrument": "Orbitrap Elite", "mode": "DDA"},
"H4": {"protocol": "nano-LC-MS/MS", "instrument": "Q Exactive HF", "mode": "DDA"},
"H5": {"protocol": "nano-LC-MS/MS", "instrument": "Q Exactive HF", "mode": "DDA"},
"H6": {"protocol": "LC-MS/MS", "instrument": "Q Exactive (analytical UHPLC)","mode": "not stated"},
"H7": {"protocol": "nano-LC-MS/MS", "instrument": "Orbitrap Fusion Lumos", "mode": "DDA"},
"H8": {"protocol": "nano-LC-MS/MS", "instrument": "Orbitrap Elite", "mode": "DDA"},
"H9": {"protocol": "nano-LC-MS/MS", "instrument": "Orbitrap Fusion", "mode": "not stated"},
"H11": {"protocol": "UPLC-MS/MS", "instrument": "Q Exactive", "mode": "DDA"}
}
}
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