Table 1.

The Six North-Eastern Brazil Studies and Results of the Genome-Wide Genotyping Quality Control (QC)

	Gonçalves Dias	Mal-ED Birth	Mal-ED Case Control	Recodisa Case Control	PU Zinc-Arginine Trial	PU Zinc Vitamin A Trial	Total
Study Typea	Birth Cohort	Birth Cohort	Prospective Case-Control	Prospective Case-Control	Randomized Clinical Trial	Randomized Clinical Trial
Location	Fortaleza, Gonçalves Dias Favela	Fortaleza	Fortaleza, IPREDE	6 Cities in 4 North-Eastern States	Fortaleza, Parque Universitário	Fortaleza, Parque Universitário
Enrollment	1989–1993	2010–2014	2010–2014	2010–2014	2006–2010	2000–2006
Samples Genotyped	172	300	368	1044	126	109	2,119
Samples Post-Genotyping QC	110	276	336	658	95	63	1,538
SNP QCb	All Cohorts: SNPs
Total SNPs on Affymetrix Axiom LAT-1 Array 4	818,154
Affymetrix SNP QC: SNPs dropped	62,353
SNPs Remaining	755,801
Call Rate < 99% + MAFc < 5%	−345,629
SNPS Remaining	410,172

^aThe top half of the table shows the number of DNA samples genotyped by study and the number remaining after genome-wide genotyping QC.

^bThe bottom half of the table shows the initial total number of SNPs on the Affymetrix array used and the number remaining after QC. The same SNP results pertain to all studies and are only shown once for clarity.

^cMAF: Minor Allele Frequency.