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The sequence libraries for each sample were processed by using CASAVA version 1.8.2 to produce 100-bp paired-end sequence data in fastq format.
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For immunofluorescence the samples were processed by two methods.
An additional sample was processed by centrifugation.
All serum samples were processed by ELISA for detection of immunoglobulin (Ig) M (3 ).
Sputum samples were processed by the NHLS for routine TB diagnosis by smear microscopy and culture.
All samples were processed by centrifuge (1,000 g for 15 minutes), and the supernatants were stored at −80°C until assayed.
Samples were processed by TDH Laboratory Services according to standard methods for culture isolation of mycobacteria (11 ).
The scoria samples were processed by identification and characterization tests.
Plasma samples were processed by liquid-liquid extraction (LLE).
Blood samples were processed by standard laboratory procedures.
Samples were processed by FACS analysis.
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