Jonathan Friedman

8.3k total citations · 5 hit papers
33 papers, 5.0k citations indexed

About

Jonathan Friedman is a scholar working on Molecular Biology, Control and Systems Engineering and Ecology. According to data from OpenAlex, Jonathan Friedman has authored 33 papers receiving a total of 5.0k indexed citations (citations by other indexed papers that have themselves been cited), including 15 papers in Molecular Biology, 10 papers in Control and Systems Engineering and 8 papers in Ecology. Recurrent topics in Jonathan Friedman's work include Gut microbiota and health (10 papers), Genomics and Phylogenetic Studies (8 papers) and Microbial Community Ecology and Physiology (6 papers). Jonathan Friedman is often cited by papers focused on Gut microbiota and health (10 papers), Genomics and Phylogenetic Studies (8 papers) and Microbial Community Ecology and Physiology (6 papers). Jonathan Friedman collaborates with scholars based in United States, Switzerland and China. Jonathan Friedman's co-authors include Eric J. Alm, Lawrence A. David, Otto X. Cordero, Jeff Gore, Logan M. Higgins, Mark Smith, Christopher S. Smillie, Arne Materna, Allison Perrotta and Matthew Blackburn and has published in prestigious journals such as Nature, Science and Proceedings of the National Academy of Sciences.

In The Last Decade

Jonathan Friedman

30 papers receiving 5.0k citations

Hit Papers

Inferring Correlation Networks from Genomic Survey Data 2011 2026 2016 2021 2012 2014 2011 2016 2017 500 1000 1.5k
What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

  1. Inferring Correlation Networks from Genomic Survey Data
    2012 1.8k citations Jonathan Friedman, Eric J. Alm PLoS Computational Biology profile →
  2. Host lifestyle affects human microbiota on daily timescales
    2014 666 citations Lawrence A. David, Arne Materna et al. Genome biology profile →
  3. Ecology drives a global network of gene exchange connecting the human microbiome
    2011 663 citations Mark Smith, Jonathan Friedman et al. Nature profile →
  4. Correlation detection strategies in microbial data sets vary widely in sensitivity and precision
    2016 542 citations Sophie Weiss, Will Van Treuren et al. The ISME Journal profile →
  5. Community structure follows simple assembly rules in microbial microcosms
    2017 360 citations Jonathan Friedman, Logan M. Higgins et al. Nature Ecology & Evolution profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name h Career Trend Papers Cites
Jonathan Friedman United States 17 3.1k 1.5k 625 585 518 33 5.0k
Jonas Schlüter United States 14 1.8k 0.6× 869 0.6× 449 0.7× 475 0.8× 392 0.8× 22 3.3k
Katharine Z. Coyte United Kingdom 11 1.7k 0.5× 881 0.6× 403 0.6× 495 0.8× 319 0.6× 18 3.2k
Sean M. Gibbons United States 42 4.3k 1.4× 1.5k 1.0× 534 0.9× 805 1.4× 724 1.4× 85 7.3k
Zaid Abdo United States 39 4.4k 1.4× 1.1k 0.8× 911 1.5× 745 1.3× 780 1.5× 100 9.9k
Uri Gophna Israel 45 4.6k 1.5× 1.4k 0.9× 1.5k 2.4× 564 1.0× 757 1.5× 163 7.2k
Elhanan Borenstein United States 43 3.9k 1.3× 668 0.4× 787 1.3× 270 0.5× 479 0.9× 90 5.5k
Karoline Faust Belgium 31 4.5k 1.4× 3.6k 2.4× 474 0.8× 1.5k 2.5× 454 0.9× 65 8.3k
Amnon Amir United States 29 4.1k 1.3× 1.2k 0.8× 519 0.8× 429 0.7× 786 1.5× 67 6.6k
S. Brook Peterson United States 25 2.8k 0.9× 1.1k 0.7× 1.0k 1.6× 741 1.3× 411 0.8× 37 5.4k
Samuel Chaffron France 23 4.1k 1.3× 1.1k 0.7× 575 0.9× 1.0k 1.8× 856 1.7× 40 6.8k

Countries citing papers authored by Jonathan Friedman

Since Specialization
Citations

This map shows the geographic impact of Jonathan Friedman's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Jonathan Friedman with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Jonathan Friedman more than expected).

Fields of papers citing papers by Jonathan Friedman

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Jonathan Friedman. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Jonathan Friedman. The network helps show where Jonathan Friedman may publish in the future.

Co-authorship network of co-authors of Jonathan Friedman

This figure shows the co-authorship network connecting the top 25 collaborators of Jonathan Friedman. A scholar is included among the top collaborators of Jonathan Friedman based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Jonathan Friedman. Jonathan Friedman is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

20 of 20 papers shown
1.
Friedman, Jonathan, et al.. (2025). Machine learning to improve HIV screening using routine data in Kenya. Journal of the International AIDS Society. 28(4). e26436–e26436. 1 indexed citations
2.
Friedman, Jonathan, et al.. (2023). Interactions between Culturable Bacteria Are Predicted by Individual Species’ Growth. mSystems. 8(2). e0083622–e0083622. 16 indexed citations
3.
Bashan, Amir, Travis E. Gibson, Jonathan Friedman, et al.. (2019). The universal dynamics of the human microbiome. Bulletin of the American Physical Society. 2019.
4.
Friedman, Jonathan, Logan M. Higgins, & Jeff Gore. (2017). Community structure follows simple assembly rules in microbial microcosms. Nature Ecology & Evolution. 1(5). 109–109. 360 indexed citations breakdown →
5.
Xiao, Yandong, Marco Tulio Angulo, Jonathan Friedman, et al.. (2017). Mapping the ecological networks of microbial communities. Nature Communications. 8(1). 2042–2042. 111 indexed citations
6.
Weiss, Sophie, Will Van Treuren, Catherine Lozupone, et al.. (2016). Correlation detection strategies in microbial data sets vary widely in sensitivity and precision. The ISME Journal. 10(7). 1669–1681. 542 indexed citations breakdown →
7.
Bashan, Amir, Travis E. Gibson, Jonathan Friedman, et al.. (2016). Universality of human microbial dynamics. Nature. 534(7606). 259–262. 183 indexed citations
8.
Preheim, Sarah P., Scott W. Olesen, Sarah J. Spencer, et al.. (2016). Surveys, simulation and single-cell assays relate function and phylogeny in a lake ecosystem. Nature Microbiology. 1(9). 16130–16130. 32 indexed citations
9.
Friedman, Jonathan & Jeff Gore. (2016). Ecological systems biology: The dynamics of interacting populations. Current Opinion in Systems Biology. 1. 114–121. 45 indexed citations
10.
Pérez‐Escudero, Alfonso, Jonathan Friedman, & Jeff Gore. (2016). Preferential interactions promote blind cooperation and informed defection. Proceedings of the National Academy of Sciences. 113(49). 13995–14000. 2 indexed citations
11.
David, Lawrence A., Arne Materna, Jonathan Friedman, et al.. (2014). Host lifestyle affects human microbiota on daily timescales. Genome biology. 15(7). R89–R89. 666 indexed citations breakdown →
12.
Tyler, Jessica S., Karen Beeri, Jared Reynolds, et al.. (2013). Prophage Induction Is Enhanced and Required for Renal Disease and Lethality in an EHEC Mouse Model. PLoS Pathogens. 9(3). e1003236–e1003236. 55 indexed citations
13.
Preheim, Sarah P., Allison Perrotta, Jonathan Friedman, et al.. (2013). Computational Methods for High-Throughput Comparative Analyses of Natural Microbial Communities. Methods in enzymology on CD-ROM/Methods in enzymology. 531. 353–370. 30 indexed citations
14.
Friedman, Jonathan, Eric J. Alm, & B. Jesse Shapiro. (2013). Sympatric Speciation: When Is It Possible in Bacteria?. PLoS ONE. 8(1). e53539–e53539. 30 indexed citations
15.
Shapiro, B. Jesse, Jonathan Friedman, Otto X. Cordero, et al.. (2012). Population Genomics of Early Events in the Ecological Differentiation of Bacteria. Science. 336(6077). 48–51. 365 indexed citations
16.
Friedman, Jonathan & Eric J. Alm. (2012). Inferring Correlation Networks from Genomic Survey Data. PLoS Computational Biology. 8(9). e1002687–e1002687. 1765 indexed citations breakdown →
17.
Shapiro, B. Jesse, Lawrence A. David, Jonathan Friedman, & Eric J. Alm. (2009). Looking for Darwin's footprints in the microbial world. Trends in Microbiology. 17(5). 196–204. 65 indexed citations
18.
Friedman, Jonathan, et al.. (2008). Testing Human Machine Interface (HMI) Rich Designs using Model-Based Design. SAE technical papers on CD-ROM/SAE technical paper series. 1.
19.
Friedman, Jonathan. (2006). MATLAB/Simulink for Automotive Systems Design. 1–2. 16 indexed citations
20.
Friedman, Jonathan, Pierre T. Kabamba, & Pramod P. Khargonekar. (1995). Worst-case and average H2 performance analysis against real constant parametric uncertainty. Automatica. 31(4). 649–657. 16 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

Explore authors with similar magnitude of impact

Breakdown of academic impact, for papers by Jonas Schlüter Breakdown of academic impact, for papers by Katharine Z. Coyte Breakdown of academic impact, for papers by Sean M. Gibbons Breakdown of academic impact, for papers by Zaid Abdo Breakdown of academic impact, for papers by Uri Gophna Breakdown of academic impact, for papers by Elhanan Borenstein Breakdown of academic impact, for papers by Karoline Faust Breakdown of academic impact, for papers by Amnon Amir Breakdown of academic impact, for papers by S. Brook Peterson Breakdown of academic impact, for papers by Samuel Chaffron
Rankless by CCL
2026