Illumina Genome Analyzer IIx sequencing; qiita_ptid_72:550.L4S133.s.4.sequence
Sample collection and DNA isolation were performed as described in Costello et al. [6]; and PCR, sequencing, and quality filtering of reads were performed as described in Caporaso et al. [14]. Samples were not collected on days 422 through 437. To facilitate massively parallel sequencing (1967 samples), barcodes were reused across six lanes in a single Illumina GAIIx, with 374, 372, 364, 271, 265, and 323 samples in lanes one through six, respectively (differing from Caporaso et al. [14], where samples were pooled and run over seven lanes). Sixteen samples were ultimately excluded from the analysis as fourteen samples were identified as potentially mislabeled (discussed below), and the barcodes for two samples were not found in the sequencing output, likely indicating a problem with amplification for those two samples.
EMP V4 515f,806rbc protocol
barcode
GATCTATCCGAG
center_name
CCME
center_project_name
Moving pictures of the human microbiome
illumina_technology
GAIIx
linker
GT
pcr_primers
FWD:GTGCCAGCMGCCGCGGTAA; REV:GGACTACHVGGGTWTCTAAT
primer
GTGTGCCAGCMGCCGCGGTAA
run_center
CGS-GL
run_date
8/27/10
run_prefix
s_4_sequence
runid
/illumina_hiseq_ucb/illumina_washu_moving_pictures
samp_size
1, swab
sample_center
CCME
sequencing_meth
Sequencing by synthesis
target_gene
16S rRNA
target_subfragment
V4