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Table 2 Sequencing yield

From: The lung tissue microbiota of mild and moderate chronic obstructive pulmonary disease

Subject Site Raw sequences Trimmeda Full data set sequencesb
1 Oral 1,221,461 1,200,471 1,179,919
1 Nasal 894,311 875,853 730,412
1 Bronchial 720,011 697,567 8380
1 Lung tissue 1,995,525 1,917,602 5978
2 Oral 1,756,838 1,718,429 1,682,345
2 Nasal 940,535 916,270 26,571
2 Bronchial 2,268,600 2,130,104 2811
2 Lung tissue 1,965,320 1,849,877 4270
3 Oral 2,011,911 1,973,158 1,907,839
3 Nasal 1,181,978 1,155,811 818,142
3 Bronchial 1,649,122 1,599,897 10,906
3 Lung tissue 1,649,943 1,573,465 4104
4 Oral 720,179 709,279 697,399
4 Nasal 825,382 795,668 342,890
4 Bronchial 1,031,715 404,201 1050
4 Lung tissue 1,065,648 113,879 1068
5 Oral 593,186 581,011 574,101
5 Nasal 602,148 591,781 562,469
5 Bronchial 997,054 232,540 582
5 Lung tissue 716,643 83,992 684
6 Oral 483,289 470,953 463,259
6 Nasal 619,329 365,827 253,711
6 Bronchial 945,424 9583 691
6 Lung tissue 828,782 18,768 563
7 Oral 899,992 885,538 868,523
7 Nasal 624,109 571,341 378,236
7 Bronchial 671,694 56,354 859
7 Lung tissue 781,672 39,506 931
8 Oral 658,356 646,638 638,699
8 Nasal 582,451 451,154 439,653
8 Bronchial 1,063,865 297,224 1103
8 Lung tissue 10,670 1307 35 c
9 Oral 808,428 798,595 789,718
9 Nasal 1,054,717 304,938 264,946
9 Bronchial 1,286,746 275,686 2161
9 Lung tissue 653,161 87,316 1998
Control 1 19,266 274 115
Control 2 79,459 1956 820
Control 3 22,596 232 103
Control 4 24,344 188 75
Control 5 21,875 348 134
Control 6 23,358 254 111
    Total countd 12,667,009
    Mediand 18,739
    Meand 351,861
  1. aNumber of sequences that passed trimming steps
  2. bNumber of sequences that passed trimming, OTU clustering, singleton removal, and removal of taxa not assigned to the 16S rRNA gene. Corresponds to the “Full data set” as noted in Fig. 1
  3. cSample 8-lung tissue was omitted from the analysis due to poor sequencing yield
  4. dFor samples only, not including control samples