Table 1 Spectrum of omics and non-omics measurements available in the iOmics

From: Establishing multiple omics baselines for three Southeast Asian populations in the Singapore Integrative Omics Study

 

Details

Sample size per ethnicity (C/M/I)

Omics

  

Genomics

● Illumina 2.5M microarray genotyping

● 110/108/105

 

● Illumina exome chip genotyping

● 110/108/105

 

● Pharmacogenomics SNP typing (4032 SNPs)

● 106/112/115

 

● HLA typing (-A, -B, -C, -DPA, -DPB, -DQA, -DQB, -DRB)

● 111/119/120

 

● Deep (30×) whole-genome sequencing

● 0/62/38

Lipidomics

● Mass spectrometry with Multiple Reaction Monitoring of 282 lipid molecules in three major lipid classes (glycerophospholipids, sphingolipids, sterols)

● 122/117/120

Transcriptomics

● Affymetrix HumanGene 1.0 ST array

● 98/75/96

MicroRNA

● mSMRT-qPCR miRNA assay of 274 circulating miRNAs

● 117/115/119

Non-omics

  

Nutrition

● Validated interviewer-directed Food Frequency Questionnaire (199 dietary variables)

● 122/116/120

Lifestyle and environment

● Interviewer-directed questionnaire, including smoking, alcohol consumption, and physical activity (46 lifestyle variables)

● 122/116/120

Clinical measurements

● Clinically assessed measurements and assays, including age, sex, height, weight, BMI, HDLc, LDLc, TG, BP, total cholesterol, HbA1c, fasting glucose (39 clinical variables)

● 122/116/120

  1. Note: The sample sizes stated here refer to the number of subjects that remained after assessment for data quality
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