Dataset Open Access

Species abundance information improves sequence taxonomy classification accuracy - Qiita data

Kaehler, Benjamin D; Bokulich, Nicholas A

QIIME 2 Artifacts containing microbiome samples, organised by EMPO 3 classification.

Used to test q2-clawback.

Downloaded from Qiita. Draws from the following Qiita study ids:

11113[1], 11444, 1716, 10369[2], 990[3], 2080, 1713, 894, 1289, 1883, 1673, 1288, 10353, 2192[4], 10323, 678, 1773, 662, 1799, 864, 1481, 1024[5], 1064, 2182, 10934, 1674, 1795[6], 10273, 10283[7], 10422[8], 804, 10308, 1056[9], 2382[5], 1240, 889, 1041, 1717, 1222, 11149, 11669, 807[10], 10245, 1711, 1721, 910, 1001, 895, 550[11], 1747[12], 713[13], 755, 861, 958[14], 11161[15], 11154[16], 945, 723, 1715, 1714, 10798.

References
1. Schulfer, A. F. et al. Nat Microbiol 3, 234–242 (2017).
2. Ruhe, J. et al. Front Plant Sci 7 (2016).
3. O'Brien, S. L. et al. Environ Microbiol 18, 2039–2051 (2016).
4. Lax, S. et al. Science 345, 1048–1052 (2014).
5. Zarraonaindia, I. et al. mBio 6 (2015).
6. Navas-Molina, J. A. et al. in Methods Enzymol 371–444 (2013).
7. Fang, X. et al. Front Microbiol 9 (2018).
8. Tripathi, A. et al. mSystems 3 (2018).
9. Delsuc, F. et al. Mol Ecol 23, 1301–1317 (2013).
10. Gibbons, S. M. et al. PLoS ONE 9, e97435 (2014).
11. Caporaso, J. G. et al. Genome Biol 12, R50 (2011).
12. Hyde, E. R. et al. mSystems 1 (2016).
13. Brazelton, W. J., Nelson, B. & Schrenk, M. O. Front Microbiol 2 (2012).
14. Vitaglione, P. et al. Am J Clin Nutr 101, 251–261 (2014).
15. Spirito, C. M., Marzilli, A. M. & Angenent, L. T. Environ Sci Technol 52, 13438–13447 (2018).
16. Pham, V. T. H. et al. Sci Rep 7 (2017).

Files (213.3 MB)
Name Size
animal-corpus.qza
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animal-distal-gut.qza
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animal-proximal-gut.qza
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7.2 MB Download
animal-secretion.qza
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5.1 MB Download
animal-surface.qza
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plant-corpus.qza
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plant-rhizosphere.qza
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sediment-non-saline.qza
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sediment-saline.qza
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soil-non-saline.qza
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surface-non-saline.qza
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surface-saline.qza
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water-non-saline.qza
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water-saline.qza
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