| Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen) | Virus Evolution | 2016 | 961 |
| The Simons Genome Diversity Project: 300 genomes from 142 diverse populations | Nature | 2016 | 759 |
| Zika virus in the Americas: Early epidemiological and genetic findings | Science | 2016 | 703 |
| Sensitivity of global terrestrial ecosystems to climate variability | Nature | 2016 | 552 |
| Analysis and valuation of the health and climate change cobenefits of dietary change | Proceedings of the National Academy of Sciences of the United States of America | 2016 | 528 |
| Spatial structure, cooperation and competition in biofilms | Nature Reviews Microbiology | 2016 | 466 |
| Predicted global distribution of and burden of melioidosis | Nature Microbiology | 2016 | 463 |
| Persistent HIV-1 replication maintains the tissue reservoir during therapy | Nature | 2016 | 419 |
| The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons | Nature Genetics | 2016 | 352 |
| Global and National Burden of Diseases and Injuries Among Children and Adolescents Between 1990 and 2013: Findings From the Global Burden of Disease 2013 Study | JAMA Pediatrics | 2016 | 347 |
| Anticipating the international spread of Zika virus from Brazil | Lancet, The | 2016 | 327 |
| The evolution of cooperation within the gut microbiota | Nature | 2016 | 300 |
| The Ecology and Evolution of Microbial Competition | Trends in Microbiology | 2016 | 292 |
| Science for a wilder Anthropocene: Synthesis and future directions for trophic rewilding research | Proceedings of the National Academy of Sciences of the United States of America | 2016 | 279 |
| Plastic microfibre ingestion by deep-sea organisms | Scientific Reports | 2016 | 255 |
| Ocean forcing of glacier retreat in the western Antarctic Peninsula | Science | 2016 | 252 |
| Role for migratory wild birds in the global spread of avian influenza H5N8 | Science | 2016 | 252 |
| Complex systems. Complexity theory and financial regulation | Science | 2016 | 243 |
| Bushmeat hunting and extinction risk to the world's mammals | Royal Society Open Science | 2016 | 241 |
| Mapping global environmental suitability for Zika virus | ELife | 2016 | 231 |
| Global Epidemiology of Plasmodium vivax | American Journal of Tropical Medicine and Hygiene | 2016 | 215 |
| Mobile Phone Ownership and Endorsement of "mHealth" Among People With Psychosis: A Meta-analysis of Cross-sectional Studies | Schizophrenia Bulletin | 2016 | 213 |
| Global and regional health effects of future food production under climate change: a modelling study | Lancet, The | 2016 | 210 |
| A panoply of errors: polymerase proofreading domain mutations in cancer | Nature Reviews Cancer | 2016 | 205 |
| Versatile roles of extracellular vesicles in cancer | Journal of Clinical Investigation | 2016 | 205 |
