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Eric A. Franzosa

Active 2009–2025

78
Papers
35,687
Citations
58
h-index
73
i10-index

Citations

Citations per year for Eric A. Franzosa1976: 3 citations1992: 4 citations1994: 1 citations1997: 1 citations2000: 2 citations2001: 3 citations2004: 1 citations2007: 2 citations2009: 4 citations2010: 3 citations2011: 5 citations2012: 9 citations2013: 12 citations2014: 17 citations2015: 117 citations2016: 262 citations2017: 416 citations2018: 471 citations2019: 1,275 citations2020: 1,840 citations2021: 2,344 citations2022: 2,281 citations2023: 1,852 citations2024: 2,971 citations2025: 1,742 citations2026: 111 citations1977–1991: no citations, so these years are not shown1993: no citations, so this year is not shown1995–1996: no citations, so these years are not shown1998–1999: no citations, so these years are not shown2002–2003: no citations, so these years are not shown2005–2006: no citations, so these years are not shown2008: no citations, so this year is not shown

Citation sources

Countries

World map of the countries and regions citing this authorUnited States: 4,471 citing papers, 23% of this breakdownChina: 3,446 citing papers, 17.7% of this breakdownUnited Kingdom: 943 citing papers, 4.9% of this breakdownGermany: 864 citing papers, 4.4% of this breakdownCanada: 743 citing papers, 3.8% of this breakdownItaly: 736 citing papers, 3.8% of this breakdownNetherlands: 594 citing papers, 3.1% of this breakdownFrance: 564 citing papers, 2.9% of this breakdownSpain: 510 citing papers, 2.6% of this breakdownAustralia: 468 citing papers, 2.4% of this breakdownDenmark: 343 citing papers, 1.8% of this breakdownJapan: 335 citing papers, 1.7% of this breakdown
0%23%Other 27.9%

Institutions

Fields

  • Biochemistry, Genetics and Molecular Biology62%
  • Medicine18.3%
  • Environmental Science4.1%
  • Agricultural and Biological Sciences3.9%
  • Immunology and Microbiology3.2%
  • Nursing2.2%
  • Other6.3%

Topics

  • Gut microbiota and health21.3%
  • Clostridium difficile and Clostridium perfringens research4.8%
  • Diet and metabolism studies3.7%
  • Probiotics and Fermented Foods3.4%
  • Genomics and Phylogenetic Studies2.3%
  • Metabolomics and Mass Spectrometry Studies2.2%
  • Other62.3%

Coauthors

All papers

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  1. Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

    Authors: Jason Lloyd‐Price, Cesar Arze, Ashwin N. Ananthakrishnan, Melanie Schirmer, Julián Ávila-Pacheco, Tiffany Poon, Elizabeth Andrews, Nadim J. Ajami, Kevin S. Bonham, Colin Brislawn, David Casero, Holly Courtney, Antonio González, Thomas G. Graeber, A. Brantley Hall, Kathleen D. Lake, Carol J. Landers, Himel Mallick, Damian R. Plichta, Mahadev Prasad, Ali Rahnavard, Jenny Sauk, Dmitry Shungin, Yoshiki Vázquez‐Baeza, Richard White, IBDMDB Investigators, Jason Bishai, Kevin Bullock, Amy Deik, Courtney Dennis, Jess L. Kaplan, Hamed Khalili, Lauren J. McIver, Christopher J. Moran, Long Nguyen, Kerry A. Pierce, Randall Schwager, Alexandra Sirota-Madi, Betsy W. Stevens, William Tan, Johanna J. ten Hoeve, George Weingart, Robin G. Wilson, Vijay Yajnik, Jonathan Braun, Lee A. Denson, Janet K. Jansson, Rob Knight, Subra Kugathasan, Dermot P. B. McGovern, Joseph F. Petrosino, Thaddeus S. Stappenbeck, Harland S. Winter, Clary B. Clish, Eric A. Franzosa, Hera Vlamakis, Ramnik J. Xavier, Curtis Huttenhower - Nature 2019 cited by 3,271

  2. Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

    Authors: Francesco Beghini, Lauren J. McIver, Aitor Blanco‐Míguez, Léonard Dubois, Francesco Asnicar, Sagun Maharjan, Ana Mailyan, Paolo Manghi, Matthias Scholz, Andrew Maltez Thomas, Mireia Valles‐Colomer, George Weingart, Yancong Zhang, Moreno Zolfo, Curtis Huttenhower, Eric A. Franzosa, Nicola Segata - eLife 2021 cited by 2,274

  3. Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4

    Authors: Aitor Blanco‐Míguez, Francesco Beghini, Fabio Cumbo, Lauren J. McIver, Kelsey N. Thompson, Moreno Zolfo, Paolo Manghi, Léonard Dubois, Kun D. Huang, Andrew Maltez Thomas, William A. Nickols, Gianmarco Piccinno, Elisa Piperni, Michal Punčochář, Mireia Valles‐Colomer, Adrian Tett, Francesca Giordano, Richard Davies, Jonathan Wolf, Sarah Berry, Tim D. Spector, Eric A. Franzosa, Edoardo Pasolli, Francesco Asnicar, Curtis Huttenhower, Nicola Segata - Nature Biotechnology 2023 cited by 1,347

  4. Gut microbiome structure and metabolic activity in inflammatory bowel disease

    Authors: Eric A. Franzosa, Alexandra Sirota‐Madi, Julián Ávila-Pacheco, Nadine Fornelos, Henry J. Haiser, Stefan Reinker, Tommi Vatanen, A. Brantley Hall, Himel Mallick, Lauren J. McIver, Jenny Sauk, Robin Wilson, Betsy W. Stevens, Justin Scott, Kerry A. Pierce, Amy Deik, Kevin Bullock, Floris Imhann, Jeffrey A. Porter, Alexandra Zhernakova, Jingyuan Fu, Rinse K. Weersma, Cisca Wijmenga, Clary B. Clish, Hera Vlamakis, Curtis Huttenhower, Ramnik J. Xavier - Nature Microbiology 2018 cited by 2,011

  5. Human gut bacteria produce ΤΗ17-modulating bile acid metabolites

    Authors: Donggi Paik, Lina Yao, Yancong Zhang, Sena Bae, Gabriel D. D’Agostino, Minghao Zhang, Eunha Kim, Eric A. Franzosa, Julián Ávila-Pacheco, Jordan E. Bisanz, Christopher K. Rakowski, Hera Vlamakis, Ramnik J. Xavier, Peter J. Turnbaugh, Randy Longman, Michael R. Krout, Clary B. Clish, Fraydoon Rastinejad, Curtis Huttenhower, Jun R. Huh, A. Sloan Devlin - Nature 2022 cited by 552

  6. Global chemical effects of the microbiome include new bile-acid conjugations

    Authors: Robert A. Quinn, Alexey V. Melnik, Alison Vrbanac, Ting Fu, Kathryn A. Patras, Mitchell P. Christy, Zsolt Bodai, Pedro Belda‐Ferre, Anupriya Tripathi, Lawton K. Chung, Michael Downes, Ryan D. Welch, Melissa A. Quinn, Greg Humphrey, Morgan Panitchpakdi, Kelly C. Weldon, Alexander A. Aksenov, Ricardo Silva, Julián Ávila-Pacheco, Clary B. Clish, Sena Bae, Himel Mallick, Eric A. Franzosa, Jason Lloyd‐Price, Robert H. Bussell, Taren Thron, Andrew T. Nelson, Mingxun Wang, Eric C. Leszczynski, Fernando Vargas, Julia M. Gauglitz, Michael J. Meehan, Emily C. Gentry, Timothy D. Arthur, Alexis C. Komor, Orit Poulsen, Brigid S. Boland, John T. Chang, William J. Sandborn, Meerana Lim, Neha Garg, Julie C. Lumeng, Ramnik J. Xavier, Barbara I. Kazmierczak, Ruchi Jain, Marie E. Egan, Kyung E. Rhee, David P. Ferguson, Manuela Raffatellu, Hera Vlamakis, Gabriel G. Haddad, Dionicio Siegel, Curtis Huttenhower, Sarkis K. Mazmanian, Ronald M. Evans, Victor Nizet, Rob Knight, Pieter C. Dorrestein - Nature 2020 cited by 600

  7. MetaPhlAn2 for enhanced metagenomic taxonomic profiling

    Authors: Duy Tin Truong, Eric A. Franzosa, Timothy L. Tickle, Matthias Scholz, George Weingart, Edoardo Pasolli, Adrian Tett, Curtis Huttenhower, Nicola Segata - Nature Methods 2015 cited by 2,424

  8. Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation

    Authors: Marta Wlodarska, Chengwei Luo, Raivo Kolde, Eva d’Hennezel, John W. Annand, Cortney E. Heim, Philipp Krastel, E. Schmitt, Abdifatah S. Omar, Elizabeth A. Creasey, Ashley Garner, Sina Mohammadi, Daniel J. O’Connell, Sahar Abubucker, Timothy D. Arthur, Eric A. Franzosa, Curtis Huttenhower, Leon O. Murphy, Henry J. Haiser, Hera Vlamakis, Jeffrey A. Porter, Ramnik J. Xavier - Cell Host & Microbe 2017 cited by 862

  9. Species-level functional profiling of metagenomes and metatranscriptomes

    Authors: Eric A. Franzosa, Lauren J. McIver, Ali Rahnavard, Luke Thompson, Melanie Schirmer, George Weingart, Karen Schwarzberg Lipson, Rob Knight, J. Gregory Caporaso, Nicola Segata, Curtis Huttenhower - Nature Methods 2018 cited by 1,789

  10. Strains, functions and dynamics in the expanded Human Microbiome Project

    Authors: Jason Lloyd‐Price, Anup Mahurkar, Ali Rahnavard, Jonathan Crabtree, Joshua Orvis, A. Brantley Hall, Arthur Brady, Heather H. Creasy, Carrie McCracken, Michelle Giglio, Daniel McDonald, Eric A. Franzosa, Rob Knight, Owen White, Curtis Huttenhower - Nature 2017 cited by 1,387

  11. Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

    Authors: Tommi Vatanen, Aleksandar D. Kostic, Eva d’Hennezel, Heli Siljander, Eric A. Franzosa, Moran Yassour, Raivo Kolde, Hera Vlamakis, Timothy D. Arthur, Anu-Maaria Hämäläinen, Aleksandr Peet, Vallo Tillmann, Raivo Uibo, Sergei Mokurov, Н В Доршакова, Jorma Ilonen, Suvi Μ. Virtanen, Susanne J. Szabo, Jeffrey A. Porter, Harri Lähdesmäki, Curtis Huttenhower, Dirk Gevers, Thomas W. Cullen, Mikael Knip, Ramnik J. Xavier - Cell 2016 cited by 1,326

  12. Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

    Authors: Melanie Schirmer, Sanne P. Smeekens, Hera Vlamakis, Martin Jaeger, Marije Oosting, Eric A. Franzosa, Rob ter Horst, Trees Jansen, Liesbeth Jacobs, Marc Jan Bonder, Alexander Kurilshikov, Jingyuan Fu, Leo A. B. Joosten, Alexandra Zhernakova, Curtis Huttenhower, Cisca Wijmenga, Mihai G. Netea, Ramnik J. Xavier - Cell 2016 cited by 1,205

  13. Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability

    Authors: Moran Yassour, Tommi Vatanen, Heli Siljander, Anu‐Maaria Hämäläinen, Taina Härkönen, Samppa Ryhänen, Eric A. Franzosa, Hera Vlamakis, Curtis Huttenhower, Dirk Gevers, Eric S. Lander, Mikael Knip, on behalf of the DIABIMMUNE Study Group, Ramnik J. Xavier - Science Translational Medicine 2016 cited by 1,068

  14. The human gut microbiome in early-onset type 1 diabetes from the TEDDY study

    Authors: Tommi Vatanen, Eric A. Franzosa, Randall Schwager, Surya Tripathi, Timothy D. Arthur, Kendra Vehik, Åke Lernmark, William Hagopian, Marian Rewers, Jin‐Xiong She, Jorma Toppari, Anette‐G. Ziegler, Beena Akolkar, Jeffrey P. Krischer, Christopher J. Stewart, Nadim J. Ajami, Joseph F. Petrosino, Dirk Gevers, Harri Lähdesmäki, Hera Vlamakis, Curtis Huttenhower, Ramnik J. Xavier - Nature 2018 cited by 919

  15. Bacteroides-Derived Sphingolipids Are Critical for Maintaining Intestinal Homeostasis and Symbiosis

    Authors: Eric Brown, Xiaobo Ke, Daniel S. Hitchcock, Sarah Jeanfavre, Julián Ávila-Pacheco, Toru Nakata, Timothy D. Arthur, Nadine Fornelos, Cortney E. Heim, Eric A. Franzosa, Nicki Watson, Curtis Huttenhower, Henry J. Haiser, Glen W Dillow, Daniel B. Graham, B. Brett Finlay, Aleksandar D. Kostic, Jeffrey A. Porter, Hera Vlamakis, Clary B. Clish, Ramnik J. Xavier - Cell Host & Microbe 2019 cited by 551

  16. The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes

    Authors: Aleksandar D. Kostic, Dirk Gevers, Heli Siljander, Tommi Vatanen, Tuulia Hyötyläinen, Anu‐Maaria Hämäläinen, Aleksandr Peet, Vallo Tillmann, Päivi Pöhö, Ismo Mattila, Harri Lähdesmäki, Eric A. Franzosa, Outi Vaarala, Marcus C. de Goffau, Hermie J. M. Harmsen, Jorma Ilonen, Suvi Μ. Virtanen, Clary B. Clish, Matej Orešič, Curtis Huttenhower, Mikael Knip, Ramnik J. Xavier - Cell Host & Microbe 2015 cited by 1,207

  17. A bacterial bile acid metabolite modulates Treg activity through the nuclear hormone receptor NR4A1

    Authors: Wei Li, Saiyu Hang, Yuan Fang, Sena Bae, Yancong Zhang, Minghao Zhang, Gang Wang, Megan D. McCurry, Munhyung Bae, Donggi Paik, Eric A. Franzosa, Fraydoon Rastinejad, Curtis Huttenhower, Lina Yao, A. Sloan Devlin, Jun R. Huh - Cell Host & Microbe 2021 cited by 282

  18. Multivariable association discovery in population-scale meta-omics studies

    Authors: Himel Mallick, Ali Rahnavard, Lauren J. McIver, Siyuan Ma, Yancong Zhang, Long H. Nguyen, Timothy L. Tickle, George Weingart, Boyu Ren, Emma H. Schwager, Suvo Chatterjee, Kelsey N. Thompson, Jeremy E. Wilkinson, Ayshwarya Subramanian, Yiren Lu, Levi Waldron, Joseph N. Paulson, Eric A. Franzosa, Héctor Corrada Bravo, Curtis Huttenhower - PLoS Computational Biology, PLoS Comput. Biol. 2021 cited by 2,438

  19. Dynamics of metatranscription in the inflammatory bowel disease gut microbiome

    Authors: Melanie Schirmer, Eric A. Franzosa, Jason Lloyd‐Price, Lauren J. McIver, Randall Schwager, Tiffany Poon, Ashwin N. Ananthakrishnan, Elizabeth Andrews, Gildardo Barron, Kathleen D. Lake, Mahadev Prasad, Jenny Sauk, Betsy W. Stevens, Robin Wilson, Jonathan Braun, Lee A. Denson, Subra Kugathasan, Dermot McGovern, Hera Vlamakis, Ramnik J. Xavier, Curtis Huttenhower - Nature Microbiology 2017 cited by 621

  20. Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition

    Authors: Louise B. Thingholm, Malte Rühlemann, Manja Koch, Brie K. Fuqua, Guido Laucke, Ruwen Boehm, Corinna Bang, Eric A. Franzosa, Matthias Hübenthal, Ali Rahnavard, Fabian Frost, Jason Lloyd‐Price, Melanie Schirmer, Aldons J. Lusis, Chris D. Vulpe, Markus M. Lerch, Georg Homuth, Tim Kacprowski, Carsten Oliver Schmidt, Ute Nöthlings, Tom H. Karlsen, Wolfgang Lieb, Matthias Laudes, André Franke, Curtis Huttenhower - Cell Host & Microbe 2019 cited by 464

  21. A Proteome-Scale Map of the Human Interactome Network

    Authors: Thomas Rolland, Murat Taşan, Benoît Charloteaux, Samuel Pevzner, Quan Zhong, Nidhi Sahni, S. Stephen Yi, Irma Lemmens, Celia Fontanillo, Roberto Mosca, Atanas Kamburov, Susan Dina Ghiassian, Xinping Yang, Lila Ghamsari, Dawit Balcha, Bridget E. Begg, Pascal Falter‐Braun, Marc Brehme, Martin Broly, Anne‐Ruxandra Carvunis, Dan Convery-Zupan, Roser Corominas, Jasmin Coulombe‐Huntington, Elizabeth Dann, Matija Dreze, Amélie Dricot, Changyu Fan, Eric A. Franzosa, Fana Gebreab, Bryan J. Gutierrez, Madeleine F. Hardy, Mike Jin, Shuli Kang, Ruth Kiros, Guan Ning Lin, Katja Luck, Andrew MacWilliams, Jörg Menche, Ryan R. Murray, Alexandre Palagi, Matthew M. Poulin, Xavier Rambout, John Rasla, Patrick Reichert, Viviana Romero, Elien Ruyssinck, Julie M. Sahalie, Annemarie Scholz, Akash Shah, Amitabh Sharma, Yun Shen, Kerstin Spirohn, Stanley Tam, Alexander O. Tejeda, Shelly A. Wanamaker, Jean‐Claude Twizere, Kerwin Vega, Jennifer Walsh, Michael E. Cusick, Yu Xia, Albert-Ĺaszló Barabási, Lilia M. Iakoucheva, Patrick Aloy, Javier De Las Rivas, Jan Tavernier, Michael A. Calderwood, David E. Hill, Tong Hao, Frederick P. Roth, Marc Vidal - Cell 2014 cited by 1,469

  22. Gut microbial metabolism of 5-ASA diminishes its clinical efficacy in inflammatory bowel disease

    Authors: Raaj S. Mehta, Jared R. Mayers, Yancong Zhang, Amrisha Bhosle, Nathaniel R. Glasser, Long H. Nguyen, Wenjie Ma, Sena Bae, Tobyn Branck, Kijun Song, Luke Sebastian, Julián Ávila-Pacheco, Hyuk‐Soo Seo, Clary B. Clish, Sirano Dhe‐Paganon, Ashwin N. Ananthakrishnan, Eric A. Franzosa, Emily P. Balskus, Andrew T. Chan, Curtis Huttenhower - Nature Medicine 2023 cited by 155

  23. Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course

    Authors: Melanie Schirmer, Lee A. Denson, Hera Vlamakis, Eric A. Franzosa, Sonia Thomas, Nathan Gotman, Paul A. Rufo, Susan S. Baker, Cary G. Sauer, James Markowitz, Marian Pfefferkorn, Maria Oliva‐Hemker, Joel R. Rosh, Anthony Otley, Brendan Boyle, David R. Mack, Robert N. Baldassano, David J. Keljo, Neal S. LeLeiko, Melvin B. Heyman, Anne M. Griffiths, Ashish Patel, Joshua D. Noe, Subra Kugathasan, Thomas D. Walters, Curtis Huttenhower, Jeffrey S. Hyams, Ramnik J. Xavier - Cell Host & Microbe 2018 cited by 303

  24. Sequencing and beyond: integrating molecular 'omics' for microbial community profiling

    Authors: Eric A. Franzosa, Tiffany Hsu, Alexandra Sirota‐Madi, Afrah Shafquat, Galeb Abu-Ali, Xochitl C. Morgan, Curtis Huttenhower - Nature Reviews Microbiology 2015 cited by 711