| Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ... Nature biotechnology 37 (8), 852-857, 2019 | 15261 | 2019 |
| A communal catalogue reveals Earth’s multiscale microbial diversity LR Thompson, JG Sanders, D McDonald, A Amir, J Ladau, KJ Locey, ... Nature 551 (7681), 457-463, 2017 | 2359 | 2017 |
| Normalization and microbial differential abundance strategies depend upon data characteristics S Weiss, ZZ Xu, S Peddada, A Amir, K Bittinger, A Gonzalez, C Lozupone, ... Microbiome 5, 1-18, 2017 | 1783 | 2017 |
| Best practices for analysing microbiomes R Knight, A Vrbanac, BC Taylor, A Aksenov, C Callewaert, J Debelius, ... Nature Reviews Microbiology 16 (7), 410-422, 2018 | 1555 | 2018 |
| Deblur rapidly resolves single-nucleotide community sequence patterns A Amir, D McDonald, JA Navas-Molina, E Kopylova, JT Morton, Z Zech Xu, ... MSystems 2 (2), 10.1128/msystems. 00191-16, 2017 | 1431 | 2017 |
| QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science E Bolyen, JR Rideout, MR Dillon, NA Bokulich, C Abnet, GA Al-Ghalith, ... PeerJ Preprints, 2018 | 979 | 2018 |
| Meta-analyses of human gut microbes associated with obesity and IBD WA Walters, Z Xu, R Knight FEBS letters 588 (22), 4223-4233, 2014 | 954 | 2014 |
| Microbiome-wide association studies link dynamic microbial consortia to disease JA Gilbert, RA Quinn, J Debelius, ZZ Xu, J Morton, N Garg, JK Jansson, ... Nature 535 (7610), 94-103, 2016 | 752 | 2016 |
| American gut: an open platform for citizen science microbiome research D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ... Msystems 3 (3), 10.1128/msystems. 00031-18, 2018 | 697 | 2018 |
| Correlation detection strategies in microbial data sets vary widely in sensitivity and precision S Weiss, W Van Treuren, C Lozupone, K Faust, J Friedman, Y Deng, ... The ISME journal 10 (7), 1669-1681, 2016 | 695 | 2016 |
| Advancing Our Understanding of the Human Microbiome Using QIIME. JA Navas-Molina, JM Peralta-Sanchezl, A Gonzalezl, PJ McMurdieI, ... Methods in Enzymology, 371, 2013 | 650 | 2013 |
| Subsistence strategies in traditional societies distinguish gut microbiomes AJ Obregon-Tito, RY Tito, J Metcalf, K Sankaranarayanan, JC Clemente, ... Nature communications 6 (1), 6505, 2015 | 543 | 2015 |
| Dietary effects on human gut microbiome diversity Z Xu, R Knight British Journal of Nutrition 113 (S1), S1-S5, 2015 | 521 | 2015 |
| Microbial community assembly and metabolic function during mammalian corpse decomposition JL Metcalf, ZZ Xu, S Weiss, S Lax, W Van Treuren, ER Hyde, SJ Song, ... Science 351 (6269), 158-162, 2016 | 514 | 2016 |
| Antibiotic-induced microbiome depletion alters metabolic homeostasis by affecting gut signaling and colonic metabolism A Zarrinpar, A Chaix, ZZ Xu, MW Chang, CA Marotz, A Saghatelian, ... Nature communications 9 (1), 2872, 2018 | 448 | 2018 |
| Preservation methods differ in fecal microbiome stability, affecting suitability for field studies SJ Song, A Amir, JL Metcalf, KR Amato, ZZ Xu, G Humphrey, R Knight MSystems 1 (3), 10.1128/msystems. 00021-16, 2016 | 407* | 2016 |
| Phylogenetic placement of exact amplicon sequences improves associations with clinical information S Janssen, D McDonald, A Gonzalez, JA Navas-Molina, L Jiang, ZZ Xu, ... Msystems 3 (3), 10.1128/msystems. 00021-18, 2018 | 371 | 2018 |
| Gut microbiota from green tea polyphenol-dosed mice improves intestinal epithelial homeostasis and ameliorates experimental colitis Z Wu, S Huang, T Li, N Li, D Han, B Zhang, ZZ Xu, S Zhang, J Pang, ... Microbiome 9, 1-22, 2021 | 360 | 2021 |
| Normalization and microbial differential abundance strategies depend upon data characteristics. Microbiome 5: 27 S Weiss, ZZ Xu, S Peddada, A Amir, K Bittinger, A Gonzalez, C Lozupone, ... | 312 | 2017 |
| A gut microbiome signature for cirrhosis due to nonalcoholic fatty liver disease C Caussy, A Tripathi, G Humphrey, S Bassirian, S Singh, C Faulkner, ... Nature communications 10 (1), 1406, 2019 | 281 | 2019 |
Rob KnightWolfe Family Chair at Rady Children's; Director, Center for Microbiome Innovation; Professor, UCSDVerified email at ucsd.edu
