Tuberculosis (TB), caused by Mycobacterium tuberculosis (Mtb), causes 9 million new cases worldwide and 2 million deaths annually. Genetic linkage and association analyses have suggested several chromosomal regions and candidate genes involved in TB susceptibility. This study examines the association of TB disease susceptibility with a selection of biologically relevant genes on regions on chromosomes 7 (IL6 and CARD11) and 20 (CTSZ and MC3R), and fine mapping of the chromosome 7p22-p21 region, identified through our genome scan. We analyzed 565 individuals from Kampala, Uganda who were previously included in our genome-wide linkage scan. Association analyses were conducted for 1417 single-nucleotide polymorphisms (SNPs) that passed quality control. None of the candidate gene or fine mapping SNPs were found significantly associated with TB susceptibility (P > 0.10). When we restricted the analysis to HIV-negative individuals, two SNPs on chromosome 7 were significantly associated with TB susceptibility (P