Susan Holmes
Impact in
- Ecology top 0.01%
- Microbial Community Ecology and Physiology
- Environmental DNA in Biodiversity Studies
- Molecular Biology top 0.05%
- Gut microbiota and health
- Genomics and Phylogenetic Studies
Papers in
-
- HIV/AIDS drug development and treatment 16
- Co-authors
- Paul J. McMurdie (14 shared papers)Benjamin J. Callahan (9 shared papers)Michael Rosen (2 shared papers)Andrew Han (1 shared paper)David A. Relman (17 shared papers)Diana M. Proctor (4 shared papers)Nicole M. Davis (2 shared papers)Julia Fukuyama (10 shared papers)
- Journals
- Proceedings of the National Academy of Sciences (9 papers)The Journal of Infectious Diseases (6 papers)PLoS ONE (6 papers)Nature Communications (5 papers)PLoS Computational Biology (5 papers)
- Partner nations
- United StatesFranceCanada
In The Last Decade
Susan Holmes
217 papers receiving 79.7k citations
Susan Holmes's Hit Papers
Peers
Comparison fields: 5 of 231
- Ecology 18.8k
- Molecular Biology 32.2k
- Biological Psychiatry 1.0k
- Pollution 4.9k
- Periodontics 1.6k
Countries citing papers authored by Susan Holmes
This map shows the geographic impact of Susan Holmes'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 Susan Holmes with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Susan Holmes more than expected).
Fields of papers citing papers by Susan Holmes
This network shows the impact of papers produced by Susan Holmes. 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 Susan Holmes. The network helps show where Susan Holmes may publish in the future.
Co-authors
The 25 scholars most cited alongside Susan Holmes, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.
All Works
Showing the 20 most-cited of 225 papers — load more, or switch the sort, to bring in the rest.
| # | Work | ||
|---|---|---|---|
| 1 | DADA2: High-resolution sample inference from Illumina amplicon data Hit paper breakdown → | 2016 | 24939 |
| 2 | Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 Hit paper breakdown → | 2019 | 16992 |
| 3 | phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data Hit paper breakdown → | 2013 | 15331 |
| 4 | Exact sequence variants should replace operational taxonomic units in marker-gene data analysis Hit paper breakdown → | 2017 | 2380 |
| 5 | Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data Hit paper breakdown → | 2018 | 2257 |
| 6 | Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible Hit paper breakdown → | 2014 | 2208 |
| 7 | Temporal and spatial variation of the human microbiota during pregnancy Hit paper breakdown → | 2015 | 886 |
| 8 | Bioconductor Workflow for Microbiome Data Analysis: from raw reads to community analyses Hit paper breakdown → | 2016 | 710 |
| 9 | Variability in the analysis of a single neuroimaging dataset by many teams Hit paper breakdown → | 2020 | 691 |
| 10 | American Gut: an Open Platform for Citizen Science Microbiome Research Hit paper breakdown → | 2018 | 667 |
| 11 | Bioconductor workflow for microbiome data analysis: from raw reads to community analyses Hit paper breakdown → | 2016 | 594 |
| 12 | 1996 | 593 | |
| 13 | Advancing Our Understanding of the Human Microbiome Using QIIME Hit paper breakdown → | 2013 | 468 |
| 14 | 1996 | 428 | |
| 15 | 2011 | 365 | |
| 16 | 2011 | 348 | |
| 17 | 2016 | 337 | |
| 18 | Reporting guidelines for human microbiome research: the STORMS checklist Hit paper breakdown → | 2021 | 335 |
| 19 | Profiling the human intestinal environment under physiological conditions Hit paper breakdown → | 2023 | 328 |
| 20 | Replication and refinement of a vaginal microbial signature of preterm birth in two racially distinct cohorts of US women Hit paper breakdown → | 2017 | 308 |
About Susan Holmes
Susan Holmes is a scholar working on Statistics and Probability, Infectious Diseases, Virology, Molecular Biology and Immunology, having authored 225 papers that have together received 80.6k indexed citations. Recurring topics across this work include Gut microbiota and health (35 papers), Bayesian Methods and Mixture Models (20 papers), HIV Research and Treatment (17 papers), HIV/AIDS drug development and treatment (16 papers), Immune Cell Function and Interaction (15 papers), Genomics and Phylogenetic Studies (14 papers), Metabolomics and Mass Spectrometry Studies (13 papers) and Gene expression and cancer classification (10 papers). The work is most often cited by research in Ecology (18.8k citations), Molecular Biology (32.2k citations), Biological Psychiatry (1.0k citations), Pollution (4.9k citations) and Periodontics (1.6k citations). Susan Holmes has collaborated with scholars based in United States, France and Canada. Frequent co-authors include Paul J. McMurdie, Benjamin J. Callahan, Michael Rosen, Andrew Han, David A. Relman, Diana M. Proctor, Nicole M. Davis, Julia Fukuyama, Elizabeth Halloran and Kris Sankaran. Their work appears in journals such as Proceedings of the National Academy of Sciences, The Journal of Infectious Diseases, PLoS ONE, Nature Communications and PLoS Computational Biology.
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.