| 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 | 5308 | 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 | 1376 | 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), 1-18, 2017 | 1100 | 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 | 884 | 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), e00191-16, 2017 | 798 | 2017 |
| Meta-analyses of human gut microbes associated with obesity and IBD WA Walters, Z Xu, R Knight FEBS letters 588 (22), 4223-4233, 2014 | 736 | 2014 |
| 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 | 722 | 2018 |
| 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 | 550 | 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 | 533 | 2013 |
| 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 | 491 | 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), e00031-18, 2018 | 379 | 2018 |
| Subsistence strategies in traditional societies distinguish gut microbiomes AJ Obregon-Tito, RY Tito, J Metcalf, K Sankaranarayanan, JC Clemente, ... Nature communications 6 (1), 1-9, 2015 | 371 | 2015 |
| Dietary effects on human gut microbiome diversity Z Xu, R Knight British Journal of Nutrition 113 (S1), S1-S5, 2015 | 368 | 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 | 357 | 2016 |
| 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), e00021-16, 2016 | 285 | 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), 1-13, 2018 | 218 | 2018 |
| 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), e00021-18, 2018 | 189 | 2018 |
| Prediction of early childhood caries via spatial-temporal variations of oral microbiota F Teng, F Yang, S Huang, C Bo, ZZ Xu, A Amir, R Knight, J Ling, J Xu Cell host & microbe 18 (3), 296-306, 2015 | 188 | 2015 |
| 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), 1-9, 2019 | 156 | 2019 |
| Tiny microbes, enormous impacts: what matters in gut microbiome studies? J Debelius, SJ Song, Y Vazquez-Baeza, ZZ Xu, A Gonzalez, R Knight Genome biology 17 (1), 1-12, 2016 | 116 | 2016 |
Rob KnightDirector, Center for Microbiome Innovation; Professor, Pediatrics, Bioengineering and CSE, UCSDVerified email at ucsd.edu
