| A proteome-scale map of the human interactome network T Rolland, M Taşan, B Charloteaux, SJ Pevzner, Q Zhong, N Sahni, S Yi, ... Cell 159 (5), 1212-1226, 2014 | 1002 | 2014 |
| MetaPhlAn2 for enhanced metagenomic taxonomic profiling DT Truong, EA Franzosa, TL Tickle, M Scholz, G Weingart, E Pasolli, ... Nature methods 12 (10), 902-903, 2015 | 1000 | 2015 |
| The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes AD Kostic, D Gevers, H Siljander, T Vatanen, T Hyötyläinen, ... Cell host & microbe 17 (2), 260-273, 2015 | 700 | 2015 |
| Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans T Vatanen, AD Kostic, E d’Hennezel, H Siljander, EA Franzosa, ... Cell 165 (4), 842-853, 2016 | 672 | 2016 |
| Strains, functions and dynamics in the expanded Human Microbiome Project J Lloyd-Price, A Mahurkar, G Rahnavard, J Crabtree, J Orvis, AB Hall, ... Nature 550 (7674), 61-66, 2017 | 533 | 2017 |
| Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability M Yassour, T Vatanen, H Siljander, AM Hämäläinen, T Härkönen, ... Science translational medicine 8 (343), 343ra81-343ra81, 2016 | 466 | 2016 |
| Linking the human gut microbiome to inflammatory cytokine production capacity M Schirmer, SP Smeekens, H Vlamakis, M Jaeger, M Oosting, ... Cell 167 (4), 1125-1136. e8, 2016 | 433 | 2016 |
| Sequencing and beyond: integrating molecular 'omics' for microbial community profiling EA Franzosa, T Hsu, A Sirota-Madi, A Shafquat, G Abu-Ali, XC Morgan, ... Nature Reviews Microbiology, 2015 | 430 | 2015 |
| Relating the metatranscriptome and metagenome of the human gut EA Franzosa, XC Morgan, N Segata, L Waldron, J Reyes, AM Earl, ... Proceedings of the National Academy of Sciences 111 (22), E2329-E2338, 2014 | 427 | 2014 |
| Species-level functional profiling of metagenomes and metatranscriptomes EA Franzosa, LJ McIver, G Rahnavard, LR Thompson, M Schirmer, ... Nature methods 15 (11), 962-968, 2018 | 412 | 2018 |
| Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases J Lloyd-Price, C Arze, AN Ananthakrishnan, M Schirmer, J Avila-Pacheco, ... Nature 569 (7758), 655-662, 2019 | 399 | 2019 |
| Identifying personal microbiomes using metagenomic codes EA Franzosa, K Huang, JF Meadow, D Gevers, KP Lemon, ... Proceedings of the National Academy of Sciences 112 (22), E2930-E2938, 2015 | 304 | 2015 |
| Gut microbiome structure and metabolic activity in inflammatory bowel disease EA Franzosa, A Sirota-Madi, J Avila-Pacheco, N Fornelos, HJ Haiser, ... Nature microbiology 4 (2), 293-305, 2019 | 276 | 2019 |
| The human gut microbiome in early-onset type 1 diabetes from the TEDDY study T Vatanen, EA Franzosa, R Schwager, S Tripathi, TD Arthur, K Vehik, ... Nature 562 (7728), 589-594, 2018 | 240 | 2018 |
| Dynamics of metatranscription in the inflammatory bowel disease gut microbiome M Schirmer, EA Franzosa, J Lloyd-Price, LJ McIver, R Schwager, ... Nature microbiology 3 (3), 337-346, 2018 | 184 | 2018 |
| Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation M Wlodarska, C Luo, R Kolde, E d’Hennezel, JW Annand, CE Heim, ... Cell host & microbe 22 (1), 25-37. e6, 2017 | 184 | 2017 |
| Biogeography of the intestinal mucosal and lumenal microbiome in the rhesus macaque K Yasuda, K Oh, B Ren, TL Tickle, EA Franzosa, LM Wachtman, AD Miller, ... Cell host & microbe 17 (3), 385-391, 2015 | 180 | 2015 |
| Structural determinants of protein evolution are context-sensitive at the residue level EA Franzosa, Y Xia Molecular biology and evolution 26 (10), 2387-2395, 2009 | 149 | 2009 |
| High-specificity targeted functional profiling in microbial communities with ShortBRED J Kaminski, MK Gibson, EA Franzosa, N Segata, G Dantas, ... PLoS computational biology 11 (12), e1004557, 2015 | 148 | 2015 |
| Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes M Yassour, MY Lim, HS Yun, TL Tickle, J Sung, YM Song, K Lee, ... Genome medicine 8 (1), 1-14, 2016 | 126 | 2016 |
