local p = {}
-- Define biomarkers with their long form and system
local biomarkers = {
{
system = "Cardiovascular System",
data = {
{key = "SBP", name = "Systolic Blood Pressure (SBP)"},
{key = "DBP", name = "Diastolic Blood Pressure (DBP)"},
{key = "PP", name = "Pulse Pressure"},
{key = "MAP", name = "Mean Arterial Pressure"},
{key = "Pulse", name = "Pulse"},
{key = "PWV", name = "Pulse Wave Velocity"},
{key = "HR", name = "Heart Rate"},
{key = "IMT", name = "Intima-Media Thickness"},
{key = "MinIMT", name = "Minimum Intima-Media Thickness"},
{key = "EDV", name = "End Diastolic Velocity"},
{key = "MVEAP", name = "Mitral Valve E/A Peak"},
{key = "MVEL_MVES_MVEA", name = "MVEL, MVES, MVEA"},
{key = "AI", name = "Atherosclerosis Index"},
{key = "NTproBNP", name = "NT-proBNP"},
{key = "CTnI", name = "Cardiac Troponin I"},
{key = "CPK", name = "Creatine Phosphokinase"},
{key = "Homocysteine", name = "Homocysteine"},
}
},
{
system = "Respiratory System",
data = {
{key = "FVC", name = "Forced Vital Capacity (FVC)"},
{key = "FEV1", name = "Forced Expiratory Volume in 1 Second (FEV1)"},
{key = "VC", name = "Vital Capacity"},
{key = "MMFR", name = "Maximal Midexpiratory Flow Rate 75/25"},
{key = "VO2Max", name = "VO2 Max"},
{key = "CR", name = "Chest Radiography"},
}
},
{
system = "Nervous System",
data = {
{key = "MMSE", name = "Mini-Mental State Examination (MMSE)"},
{key = "DST", name = "Digital Symbol Test"},
{key = "NM", name = "Numeric Memory"},
{key = "AM", name = "Associated Memory"},
{key = "TM", name = "Topological Memory"},
{key = "STM", name = "Short-Time Memory"},
{key = "Concentration", name = "Concentration"},
{key = "IMD", name = "Intellectuality - Mental Defect"},
{key = "TMT", name = "Trail Making Test"},
}
},
{
system = "Endocrine Metabolic System",
data = {
{key = "Glucose", name = "Glucose"},
{key = "HBA1C", name = "HBA1C"},
{key = "CPeptide", name = "C-peptide"},
{key = "Insulin", name = "Insulin"},
{key = "TG", name = "Triglyceride"},
{key = "TC", name = "Total Cholesterol (TC)"},
{key = "HDL", name = "High-Density Lipoprotein (HDL)"},
{key = "LDL", name = "Low-Density Lipoprotein (LDL)"},
{key = "ApoA1B", name = "Apolipoprotein A1 and B"},
{key = "TSH", name = "Thyroid-Stimulating Hormone (TSH)"},
{key = "Testosterone", name = "Testosterone"},
{key = "VitaminD", name = "Vitamin D"},
{key = "Calcium", name = "Calcium"},
{key = "Potassium", name = "Potassium"},
{key = "Sodium", name = "Sodium"},
{key = "InorganicPhosphorus", name = "Inorganic Phosphorus"},
{key = "Urea", name = "Urea"},
{key = "Creatinine", name = "Creatinine"},
{key = "eGFR", name = "Estimated Glomerular Filtration Rate (eGFR)"},
{key = "UricAcid", name = "Uric Acid"},
{key = "CystatinC", name = "Cystatin C"},
{key = "CreatinineClearance", name = "Creatinine Clearance"},
{key = "UrineSG", name = "Urine Specific Gravity"},
{key = "UrinepH", name = "Urine pH"},
}
},
{
system = "Digestive System",
data = {
{key = "ALT", name = "Alanine Aminotransferase (ALT)"},
{key = "AST", name = "Aspartate Aminotransferase (AST)"},
{key = "ALP", name = "Alkaline Phosphatase (ALP)"},
{key = "TotalProtein", name = "Total Protein"},
{key = "Albumin", name = "Albumin"},
{key = "AGRatio", name = "Albumin/Globulin Ratio (A/G)"},
{key = "TotalBilirubin", name = "Total Bilirubin"},
{key = "DirectBilirubin", name = "Direct Bilirubin"},
{key = "Amylase", name = "Amylase"},
{key = "LDH", name = "Lactate Dehydrogenase"},
{key = "Alpha2Globulin", name = "Alpha 2 Globulin"},
{key = "GGT", name = "Gamma Glutamyl Transpeptidase"},
}
},
{
system = "Hematologic System",
data = {
{key = "RBC", name = "Red Blood Cell"},
{key = "RDW", name = "Red Blood Cell Volume Distribution Width"},
{key = "Hematocrit", name = "Hematocrit"},
{key = "MCV", name = "Mean Corpuscular Volume"},
{key = "MCH", name = "Mean Corpuscular Hemoglobin"},
{key = "MCHC", name = "Mean Corpuscular Hemoglobin Concentration"},
{key = "Hemoglobin", name = "Hemoglobin"},
{key = "WBC", name = "White Blood Cell"},
{key = "Granulocytes", name = "Granulocytes"},
{key = "Neutrophils", name = "Neutrophils"},
{key = "BasophilsEosinophils", name = "Basophils, Eosinophils"},
{key = "Lymphocytes", name = "Lymphocytes"},
{key = "Monocytes", name = "Monocytes"},
{key = "Platelet", name = "Platelet"},
{key = "MPV", name = "Mean Platelet Volume"},
{key = "PDW", name = "Platelet Distribution Width"},
{key = "ESR", name = "Erythrocyte Sedimentation Rate"},
{key = "DdimerFibrinogen", name = "D-dimer, Fibrinogen"},
{key = "Ferritin", name = "Ferritin"},
{key = "Transferrin", name = "Transferrin"},
}
},
{
system = "Sensory System",
data = {
{key = "VisualAcc", name = "Visual Accommodation"},
{key = "VisualReactTime", name = "Visual Reaction Time"},
{key = "VisualAcuity", name = "Visual Acuity"},
{key = "Hearing", name = "Hearing"},
{key = "Vibrotactile", name = "Vibrotactile"},
{key = "RetinalPhotos", name = "Retinal Photos"},
}
},
{
system = "Inflammatory System",
data = {
{key = "CRP", name = "C-Reactive Protein (CRP)"},
{key = "CMVOptDensity", name = "Cytomegalovirus Optical Density"},
{key = "IL6", name = "Interleukin-6"},
{key = "Pselectin", name = "P-selectin"},
}
},
{
system = "Motion Index",
data = {
{key = "GripStrength", name = "Grip Strength"},
{key = "VerticalJump", name = "Vertical Jump"},
{key = "TUGTest", name = "Timed Up and Go Test"},
{key = "ChairRiseTime", name = "Chair Rise Time"},
{key = "PhysicalActivityWeek", name = "1-Week Physical Activity"},
}
},
{
system = "Body Morphology Index",
data = {
{key = "WC", name = "Waist Circumference (WC)"},
{key = "WaistHipRatio", name = "Waist-to-Hip Ratio"},
{key = "WaistHeightRatio", name = "Waist-to-Height Ratio"},
{key = "BMI", name = "Body Mass Index (BMI)"},
{key = "Weight", name = "Weight"},
{key = "Height", name = "Height"},
{key = "BodyFat", name = "Body Fat"},
{key = "LeanBodyMass", name = "Lean Body Mass"},
{key = "SoftLeanMass", name = "Soft Lean Mass"},
}
},
{
system = "Genetic Index",
data = {
{key = "TelomereLength", name = "Terminal Telomere Restriction Fragment"},
}
},
}
local rows = {
{key = "method", name = "Biological Age Estimation Method"},
{key = "year", name = "Year"}
}
-- Incorporate data directly into studies identified by PMID
local studies = {
{
pmid = "12345",
method = "MLR",
year = "1995",
biomarkers = { SBP = "x", DBP = "x", HDL = "x", LDL = "x" }
},
{
pmid = "67890",
method = "MLR",
year = "1995",
biomarkers = { SBP = "x", DBP = "x", HDL = "x", LDL = "x" }
},
{
pmid = "13579",
method = "MLR",
year = "1995",
biomarkers = { SBP = "x", DBP = "x", HDL = "x", LDL = "x" }
}
}
function p.createCrossTable()
-- Start of the wiki table
local wikitable = '{| class="wikitable"\n!'
-- Column headers: Biomarker and System
wikitable = wikitable .. ' System !! Biomarker'
for _, study in pairs(studies) do
wikitable = wikitable .. ' !! ' .. study.pmid
end
wikitable = wikitable .. '\n'
for i, row in ipairs(rows) do
wikitable = wikitable .. '|-\n'
wikitable = wikitable .. '| ' .. row.name .. ' || ' .. ''
for _, study in ipairs(studies) do
local cellValue = study[row.key] or ""
wikitable = wikitable .. ' || ' .. cellValue
end
wikitable = wikitable .. '\n'
end
-- Generate rows for each biomarker
for _, system in ipairs(biomarkers) do
for _, bm in ipairs(system.data) do
wikitable = wikitable .. '|-\n'
wikitable = wikitable .. '| ' .. system.system .. ' || ' .. bm.name
for _, study in ipairs(studies) do
-- Retrieve data value for the current cell, using the nested structure
local cellValue = study.biomarkers[bm.key] or ""
wikitable = wikitable .. ' || ' .. cellValue
end
wikitable = wikitable .. '\n'
end
end
-- End of the table
wikitable = wikitable .. '\n|}'
return wikitable
end
return p
