🏆 Finalist — NIH Data Sharing Index (“S-Index”) Challenge

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Authors
Rob Knight

Rob Knight

Hong Kong Jockey Club

ORCID: 0000-0002-0975-9019

Also affiliated with Institute for Advanced Study, University of Hong Kong

Biochemistry, Genetics and Molecular BiologyAgricultural and Biological Sciences

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

29.8Author DataRank

Indexed papers

15in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 15 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Top data-sharing exemplar

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

A framework for human microbiome research

Nature(2012)10.1038/nature11209

Top 2%

8.4DataRank

Top 2%2766 citations

Barbara A. Methé, William Nelson, Mihai Pop, Heather H. Creasy, Michelle Giglio +236 more

Papers

Driven by 258 papers — median percentile 72. Top paper: “A framework for human microbiome research”.

A framework for human microbiome research

Nature(2012)10.1038/nature11209

Top 2%

8.4DataRank

Top 2%2766 citations

Barbara A. Methé, William Nelson, Mihai Pop, Heather H. Creasy, Michelle Giglio +236 more

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

Nature Biotechnology(2011)10.1038/nbt.1823

Top 3%

6.9DataRank

Top 3%815 citations

Renzo Kottmann, Dawn Field, Rob Knight, James R. Cole, Linda Amaral-Zettler +112 more

Effects of Diet versus Gastric Bypass on Metabolic Function in Diabetes

New England Journal of Medicine(2020)10.1056/nejmoa2003697

N/A

5.3DataRank · unranked

240 citations

Brandon D. Kayser, Jun Yoshino, Richard I. Stein, Dominic N. Reeds, J. Christopher Eagon +8 more

Greengenes2 unifies microbial data in a single reference tree

Nature Biotechnology(2023)10.1038/s41587-023-01845-1

Top 5%

4.4DataRank

Top 5%629 citations

Yueyu Jiang, Metin Balaban, Kalen Cantrell, Qiyun Zhu, Antonio González +20 more

Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity

Nature Microbiology(2022)10.1038/s41564-022-01266-x

Top 7%

3.0DataRank

Top 7%191 citations

Louis‐Félix Nothias, Luke Thompson, Jon G. Sanders, Rodolfo A. Salido, Sneha Couvillion +89 more

Strain-specific gut microbial signatures in type 2 diabetes identified in a cross-cohort analysis of 8,117 metagenomes

Nature Medicine(2024)10.1038/s41591-024-03067-7

N/A

1.9DataRank · unranked

108 citations

Fenglei Wang, Amrisha Bhosle, Danyue Dong, Raaj S. Mehta, Andrew R. Ghazi +18 more

Greengenes2 enables a shared data universe for microbiome studies

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.19.520774

Top 13%

1.6DataRank

Top 13%44 citations

Yueyu Jiang, Metin Balaban, Kalen Cantrell, Qiyun Zhu, Antonio González +20 more

Dietary weight loss-induced improvements in metabolic function are enhanced by exercise in people with obesity and prediabetes

Nature Metabolism(2023)10.1038/s42255-023-00829-4

N/A

1.5DataRank · unranked

55 citations

Brandon D. Kayser, Gordon I. Smith, George G. Schweitzer, Kyleigh Kirbach, Monica L. Kearney +6 more

Representative oral microbiome data for the US population: the National Health and Nutrition Examination Survey

The Lancet Microbe(2022)10.1016/s2666-5247(22)00333-0

Top 14%

1.5DataRank

Top 14%34 citations

Anil K. Chaturvedi, Martin J. Blaser, Nicholas A. Bokulich, J. Gregory Caporaso, Maura L. Gillison +9 more

Structure, function and diversity of the healthy human microbiome

Nature(2012)10.1038/nature11234

N/A

1.4DataRank · unranked

10088 citations

Curtis Huttenhower, Dirk Gevers, Rob Knight, Sahar Abubucker, Jonathan H. Badger +235 more

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

Proceedings of the National Academy of Sciences(2010)10.1073/pnas.1000080107

N/A

1.4DataRank · unranked

9892 citations

Christian L. Lauber, William A. Walters, Donna Berg-Lyons, Catherine A Lozupone, Peter J. Turnbaugh +4 more

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

Nature Biotechnology(2013)10.1038/nbt.2676

N/A

1.4DataRank · unranked

9259 citations

Jesse Zaneveld, J. Gregory Caporaso, Daniel McDonald, Dan Knights, Joshua A Reyes +8 more

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

The ISME Journal(2012)10.1038/ismej.2012.8

N/A

1.4DataRank · unranked

9017 citations

Christian L. Lauber, William A. Walters, Donna Berg-Lyons, James Huntley, Noah Fierer +10 more

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

Science(2011)10.1126/science.1208344

N/A

1.3DataRank · unranked

6514 citations

Jun Chen, Christian Hoffmann, Kyle Bittinger, Ying-Yu Chen, Sue A. Keilbaugh +14 more

Genomic Standards Consortium Projects

Standards in Genomic Sciences(2014)10.4056/sigs.5559680

N/A

1.3DataRank · unranked

41 citations

Peter Sterk, Renzo Kottmann, J. Wim De Smet, Linda Amaral-Zettler, Guy Cochrane +29 more

Association of Body Mass Index with Fecal Microbial Diversity and Metabolites in the Northern Finland Birth Cohort

Cancer Epidemiology Biomarkers & Prevention(2020)10.1158/1055-9965.epi-20-0824

Top 17%

1.2DataRank

Top 17%34 citations

Karl‐Heinz Herzig, J. Gregory Caporaso, Andriy Derkach, Yunhu Wan, Doratha A. Byrd +8 more

Effects of processed meat and drinking water nitrate on oral and fecal microbial populations in a controlled feeding study

Environmental Research(2021)10.1016/j.envres.2021.111084

N/A

1.0DataRank · unranked

28 citations

Ni Zhao, James J. Goedert, Doratha A. Byrd, Yunhu Wan, Xing Hua +25 more

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0

Nature Communications(2020)10.1038/s41467-020-16366-7

N/A

1.0DataRank · unranked

855 citations

Andrew Maltez Thomas, Francesco Beghini, Claudia Mengoni, Serena Manara, Paolo Manghi +13 more

Qiita: rapid, web-enabled microbiome meta-analysis

Nature Methods(2018)10.1038/s41592-018-0141-9

N/A

0.982DataRank · unranked

697 citations

Jose A. Navas-Molina, Tomasz Kosciolek, Daniel McDonald, Yoshiki Vázquez-Baeza, Gail Ackermann +24 more

Reporting guidelines for human microbiome research: the STORMS checklist

Nature Medicine(2021)10.1038/s41591-021-01552-x

N/A

0.918DataRank · unranked

454 citations

Audrey Renson, Genomic Standards Consortium, Cesare Furlanello, Shaimaa Elsafoury, Ludwig Geistlinger +98 more

The effect of legume supplementation on the gut microbiota in rural Malawian infants aged 6 to 12 months

American Journal of Clinical Nutrition(2020)10.1093/ajcn/nqaa011

N/A

0.839DataRank · unranked

22 citations

Stefan Janssen, Greg Humphrey, Gail Ackermann, Kevin Stephenson, Sophia Agapova +10 more

The Genomic Standards Consortium

PLoS Biology(2011)10.1371/journal.pbio.1001088

N/A

0.821DataRank · unranked

238 citations

Linda Amaral-Zettler, Guy Cochrane, James R. Cole, Peter Dawyndt, George M. Garrity +21 more

Oral Microbiome Profile of the US Population

JAMA Network Open(2025)10.1001/jamanetworkopen.2025.8283

Top 28%

0.702DataRank

Top 28%31 citations

Emily Vogtmann, Jianxin Shi, Yukiko Yano, Martin J. Blaser, Nicholas A. Bokulich +14 more

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Nature Precedings(2010)10.1038/npre.2010.5252.2

Top 30%

0.654DataRank

Top 30%9 citations

Pelin Yilmaz, Renzo Kottmann, Dawn Field, Rob Knight, James Cole +100 more

The microbiome diversifies long- to short-chain fatty acid-derived N-acyl lipids

Cell(2025)10.1016/j.cell.2025.05.015

Top 33%

0.587DataRank

Top 33%30 citations

Vincent Charron-Lamoureux, Martijn van Faassen, Santosh Lamichhane, Wilhan Donizete Gonçalves Nunes, Victoria Deleray +43 more

Genomic Standards Consortium Projects

Standards in Genomic Sciences(2014)10.4056/sigs.5559608

N/A

0.553DataRank · unranked

39 citations

Peter Sterk, Renzo Kottmann, J. Wim De Smet, Linda Amaral-Zettler, Guy Cochrane +29 more

Identifying the effect of vancomycin on health care–associated methicillin-resistant Staphylococcus aureus strains using bacteriological and physiological media

GigaScience(2021)10.1093/gigascience/giaa156

N/A

0.548DataRank · unranked

15 citations

Saugat Poudel, Hannah Tsunemoto, Michael J. Meehan, Richard Szubin, Connor A. Olson +14 more

Identifying and Predicting Novelty in Microbiome Studies

mBio(2018)10.1128/mbio.02099-18

N/A

0.533DataRank · unranked

34 citations

Gongchao Jing, Daniel McDonald, Honglei Wang, Zengbin Wang, Johannes B. Goll +8 more

TEMPTED: time-informed dimensionality reduction for longitudinal microbiome studies

Genome biology(2024)10.1186/s13059-024-03453-x

N/A

0.477DataRank · unranked

15 citations

Cameron Martino, Rungang Han, Stefan Janssen, Gregory A. Buck, Myrna G. Serrano +5 more

The mouth of America: the oral microbiome profile of the US population

medRxiv(2024)10.1101/2024.12.03.24318415

Top 51%

0.340DataRank

Top 51%5 citations

Emily Vogtmann, Jianxin Shi, Yukiko Yano, Martin J. Blaser, Nicholas A. Bokulich +14 more

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Nature Precedings(2010)10.1038/npre.2010.5252

N/A

0.276DataRank · unranked

2 citations

Pelin Yilmaz, Renzo Kottmann, Dawn Field, Rob Knight, James Cole +100 more

Targeted Microbial Shifts and Metabolite Profiles Were Associated with Clinical Response to an Anti-Inflammatory Diet in Osteoarthritis

Nutrients(2025)10.3390/nu17172729

N/A

0.273DataRank · unranked

5 citations

Kevin Bu, Roxana Coras, Martha Cedeño, Simone Zuffa, Jessica Murillo‐Saich +16 more

Voices in methods development

Nature Methods(2019)10.1038/s41592-019-0585-6

N/A

0.269DataRank · unranked

5 citations

Rosalind Mott Firenze, Clifford Brangwynne, Ibrahim I. Cissé, Oliver Fiehn, Petra Fromme +44 more

The 15th Genomic Standards Consortium meeting

Standards in Genomic Sciences(2013)10.4056/sigs.3457

N/A

0.226DataRank · unranked

1 citations

Ilene Karsch-Mizrachi, Peter Sterk, Dawn Field, Lynette Hirschman, Tatiana Tatusova +54 more

A resource to empirically establish drug exposure records directly from untargeted metabolomics data

Nature Communications(2025)10.1038/s41467-025-65993-5

Top 65%

0.208DataRank

Top 65%3 citations

Kine Eide Kvitne, Corinna Brungs, Siddharth Mohan, Vincent Charron‐Lamoureux, Wout Bittremieux +54 more

Dietary Nitrate Intake and 16S rRNA ‐Inferred Nitrite‐Generating Capacity of the Subgingival Microbiome May Influence Glucose Metabolism: Results From the Oral Infections Glucose Intolerance and Insulin Resistance Study ( ORIGINS )

Journal Of Clinical Periodontology(2025)10.1111/jcpe.70084

Top 72%

0.111DataRank

Top 72%1 citations

Bruno Bohn, Jeanine M. Genkinger, Rebecca Molinsky, Sumith Roy, B. J. Paster +11 more

Environmental and skin–nasal microbiome variation in South African children with atopic dermatitis

BMC Microbiology(2025)10.1186/s12866-025-04589-x

N/A

0.104DataRank · unranked

1 citations

Anna Dan Nguyen, Nonhlanhla Lunjani, Gillian O. N. Ndhlovu, Drishti Kaul, Britta De Pessemier +13 more

Tryptophan metabolism, gut microbiota, and carotid artery plaque in women with and without HIV infection

medRxiv(2022)10.1101/2022.12.27.22283960

Top 78%

0.104DataRank

Top 78%1 citations

Zheng Wang, Brandilyn A. Peters, David B. Hanna, Tao Wang, Christopher C. Sollecito +20 more

Conceptualizing a Genomics Software Institute (GSI)

Standards in Genomic Sciences(2012)10.4056/sigs.2485911

N/A

0.104DataRank · unranked

1 citations

Charlie Catlett, Narayan Desai, Rob Knight, Richard K. Wilson, Robert Robbins +5 more

Dietary nitrate intake and net nitrite-generating capacity of the oral microbiome interact to enhance cardiometabolic health: Results from the Oral Infections Glucose Intolerance and Insulin Resistance Study (ORIGINS)

medRxiv(2024)10.1101/2024.04.10.24305636

Top 78%

0.104DataRank

Top 78%1 citations

Bruno Bohn, Jeanine M. Genkinger, Rebecca Molinsky, Sumith Roy, Bruce J. Paster +10 more

Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment

Research Square(2020)10.21203/rs.3.rs-56028/v2

N/A

0DataRank · unranked

2 citations

Farhana Ali, Clarisse Marotz, Pedro Belda‐Ferre, Leslie Chiang, Justin P. Shaffer +9 more

Dietary factors, gut microbiota, and serum trimethylamine-N-oxide associated with cardiovascular disease

Research Square(2020)10.21203/rs.3.rs-61643/v1

N/A

0DataRank · unranked

1 citations

Guo‐Chong Chen, Zheng Wang, Mykhaylo Usyk, Bing Yu, Yoshiki Vázquez Baeza +13 more

Identifying the effect of vancomycin on HA-MRSA strains using bacteriological and physiological media

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.06.079640

N/A

0DataRank · unranked

0 citations

Saugat Poudel, Hannah Tsunemoto, Michael J. Meehan, Richard Szubin, Connor A. Olson +14 more

Challenges in Benchmarking Metagenomic Profilers

Research Square(2020)10.21203/rs.3.rs-109702/v1

N/A

0DataRank · unranked

0 citations

Zheng Sun, Shi Huang, Meng Zhang, Qiyun Zhu, Niina Haiminen +6 more

Naturalization of the microbiota developmental trajectory of Cesarean-born neonates after vaginal seeding

Med(2021)10.1016/j.medj.2021.05.003

N/A

0DataRank · unranked

93 citations

Jincheng Wang, Cameron Martino, Lingjing Jiang, Wesley K. Thompson, Liat Shenhav +22 more

Diversity of Rickettsiales in the Microbiome of the Lone Star Tick, Amblyomma americanum

UNC Libraries(2020)10.17615/zabv-9989

N/A

0DataRank · unranked

0 citations

Christian M. Parobek, Sophie Weiss, Rob Knight, Antonio González, Steven R. Meshnick +5 more

Genetic Control of Obesity and Gut Microbiota Composition in Response to High-Fat, High-Sucrose Diet in Mice

UNC Libraries(2020)10.17615/6cq1-7t54

N/A

0DataRank · unranked

0 citations

Brian W. Parks, Mark Kirby, Aiqing He, Calvin Q. Pan, Peter S. Gargalovic +18 more

Variation in the Microbiota of Ixodes Ticks with Regard to Geography, Species, and Sex

UNC Libraries(2020)10.17615/ebfb-qy12

N/A

0DataRank · unranked

0 citations

R. Michael Roe, Loganathan Ponnusamy, R. Jory Brinkerhoff, Corinna Keeler, Antonio G. González +12 more

Microbiota Regulate Intestinal Absorption and Metabolism of Fatty Acids in the Zebrafish

UNC Libraries(2020)10.17615/rbzm-xz63

N/A

0DataRank · unranked

0 citations

Rob Knight, Steven Farber, Juliana Debrito Carten, Lantz C. Mackey, Jesse Stombaugh +2 more

Structure-based protein function prediction using graph convolutional networks

Nature Communications(2021)10.1038/s41467-021-23303-9

N/A

0DataRank · unranked

929 citations

P. Douglas Renfrew, Tomasz Kościółek, Julia Koehler Leman, Daniel Berenberg, Tommi Vatanen +9 more

METTL3 regulates viral m6A RNA modification and host cell innate immune responses during SARS-CoV-2 infection

Cell Reports(2021)10.1016/j.celrep.2021.109091

N/A

0DataRank · unranked

303 citations

Hui Hui, Bill Bray, Gwendolyn González, Mark Zeller, Kristian G. Anderson +6 more

Taxonomic signatures of cause-specific mortality risk in human gut microbiome

Nature Communications(2021)10.1038/s41467-021-22962-y

N/A

0DataRank · unranked

171 citations

Ville Laitinen, Aki S. Havulinna, Guillaume Méric, Susan Cheng, Markus Perola +17 more

Challenges in benchmarking metagenomic profilers

Nature Methods(2021)10.1038/s41592-021-01141-3

N/A

0DataRank · unranked

157 citations

Shi Huang, Meng Zhang, Qiyun Zhu, Niina Haiminen, Anna Paola Carrieri +6 more

Vitamin B-12 and the Gastrointestinal Microbiome: A Systematic Review

Advances in Nutrition(2021)10.1093/advances/nmab123

N/A

0DataRank · unranked

100 citations

Samantha L Huey, Rob Knight, Allison M. Fox, Saurabh Mehta, Julia L. Finkelstein +1 more

Associations of healthy food choices with gut microbiota profiles

American Journal of Clinical Nutrition(2021)10.1093/ajcn/nqab077

N/A

0DataRank · unranked

91 citations

Aaro Salosensaari, Matti O. Ruuskanen, Aki S. Havulinna, Satu Männistö, Pekka Jousilahti +15 more

Associations of fecal microbial profiles with breast cancer and nonmalignant breast disease in the Ghana Breast Health Study

International Journal of Cancer(2021)10.1002/ijc.33473

N/A

0DataRank · unranked

84 citations

Emily Vogtmann, Zeni Wu, Yongli Han, Yunhu Wan, Joe‐Nat Clegg‐Lamptey +17 more

Evaluation of the Effect of Storage Methods on Fecal, Saliva, and Skin Microbiome Composition

mSystems(2021)10.1128/msystems.01329-20

N/A

0DataRank · unranked

81 citations

Kellen Cavagnero, Se Jin Song, Daniel McDonald, Stephen Wandro, Greg Humphrey +5 more

Links between gut microbiome composition and fatty liver disease in a large population sample

Gut Microbes(2021)10.1080/19490976.2021.1888673

N/A

0DataRank · unranked

72 citations

Fredrik Åberg, Ville Männistö, Aki S. Havulinna, Guillaume Méric, Yang Liu +12 more

SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment

Microbiome(2021)10.1186/s40168-021-01083-0

N/A

0DataRank · unranked

64 citations

Pedro Belda‐Ferre, Farhana Ali, Promi Das, Shi Huang, Kalen Cantrell +30 more

Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome

Microbiome(2021)10.1186/s40168-021-01102-0

N/A

0DataRank · unranked

63 citations

Shuaiming Jiang, Dongxue Huo, Celeste Allaband, Mehrbod Estaki, Victor Cantu +10 more

A Comparison of DNA/RNA Extraction Protocols for High-Throughput Sequencing of Microbial Communities

BioTechniques(2021)10.2144/btn-2020-0153

N/A

0DataRank · unranked

55 citations

Clarisse Marotz, Pedro Belda‐Ferre, Cameron Martino, Stephen Wandro, Mehrbod Estaki +13 more

Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome

mSystems(2021)10.1128/msystems.00116-21

N/A

0DataRank · unranked

53 citations

Amulya Lingaraju, Cameron Martino, Baylee J. Russell, Anupriya Tripathi, Orit Poulsen +10 more

Emergence of an early SARS-CoV-2 epidemic in the United States

Cell(2021)10.1016/j.cell.2021.07.030

N/A

0DataRank · unranked

52 citations

Karthik Gangavarapu, Catelyn Anderson, Allison R. Smither, John A. Vanchiere, Rebecca Rose +47 more

Development of a Rapid and Sensitive CasRx-Based Diagnostic Assay for SARS-CoV-2

ACS Sensors(2021)10.1021/acssensors.1c01088

N/A

0DataRank · unranked

52 citations

Duverney Chaverra‐Rodriguez, Calvin P. Lin, Andrea L. Smidler, Ting Yang, Lenissa Alcantara +8 more

Nonalcoholic Steatohepatitis and HCC in a Hyperphagic Mouse Accelerated by Western Diet

Cellular and Molecular Gastroenterology and Hepatology(2021)10.1016/j.jcmgh.2021.05.010

N/A

0DataRank · unranked

51 citations

German Aleman Muench, Linshan Shang, Sara Brin Rosenthal, Gibraan Rahman, Ruoyu Wang +11 more

Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment

Microbiome(2021)10.1186/s40168-020-00960-4

N/A

0DataRank · unranked

44 citations

Farhana Ali, Clarisse Marotz, Pedro Belda‐Ferre, Leslie Chiang, Justin P. Shaffer +9 more

Skin inflammation activates intestinal stromal fibroblasts and promotes colitis

Journal of Clinical Investigation(2021)10.1172/jci147614

N/A

0DataRank · unranked

41 citations

Jason S. Seidman, Kellen Cavagnero, Fengwu Li, Marc C. Liggins, Bryn C. Taylor +6 more

A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria

Marine Drugs(2021)10.3390/md19010020

N/A

0DataRank · unranked

39 citations

Mingxun Wang, Nathan A. Moss, Ricardo Silva, Jon G. Sanders, Sergey Nurk +16 more

Fecal Microbiome Composition Does Not Predict Diet‐Induced TMAO Production in Healthy Adults

Journal of the American Heart Association(2021)10.1161/jaha.121.021934

N/A

0DataRank · unranked

42 citations

Peter Bazeley, Zeneng Wang, Bruce S. Levison, Xinmin S. Li, Xun Jia +7 more

Influence of Intermittent Hypoxia/Hypercapnia on Atherosclerosis, Gut Microbiome, and Metabolome

Frontiers in Physiology(2021)10.3389/fphys.2021.663950

N/A

0DataRank · unranked

34 citations

Celeste Allaband, Dan Zhou, Orit Poulsen, Cameron Martino, Lingjing Jiang +7 more

The Gut Microbiome Modifies the Association Between a Mediterranean Diet and Diabetes in USA Hispanic/ Latino Population

The Journal of Clinical Endocrinology & Metabolism(2021)10.1210/clinem/dgab815

N/A

0DataRank · unranked

33 citations

Qibin Qi, Zheng Wang, Mykhaylo Usyk, Daniela Sotres‐Alvarez, Josiemer Mattei +10 more

Markers of Gut Barrier Function and Microbial Translocation Associate with Lower Gut Microbial Diversity in People with HIV

Viruses(2021)10.3390/v13101891

N/A

0DataRank · unranked

30 citations

Jennifer E. Iudicello, Robert K. Heaton, Stéphane Isnard, John Lin, Jean‐Pierre Routy +4 more

Redrawing therapeutic boundaries: microbiota and cancer

Trends in cancer(2021)10.1016/j.trecan.2021.10.008

N/A

0DataRank · unranked

27 citations

Gregory D. Sepich‐Poore, Rob Knight, Thomas Pradeu, Jonathan Sholl

A Scale-Free, Fully Connected Global Transition Network Underlies Known Microbiome Diversity

mSystems(2021)10.1128/msystems.00394-21

N/A

0DataRank · unranked

22 citations

Yufeng Zhang, Lu Liu, Zengbin Wang, Zheng Sun, Rob Knight +3 more

Analysis of SARS-CoV-2 RNA Persistence across Indoor Surface Materials Reveals Best Practices for Environmental Monitoring Programs

mSystems(2021)10.1128/msystems.01136-21

N/A

0DataRank · unranked

18 citations

Victor J. Cantú, Alex E. Clark, Sandra L. Leibel, Anahid Foroughishafiei, Anushka Saha +38 more

Individuals with substance use disorders have a distinct oral microbiome pattern

Brain Behavior & Immunity - Health(2021)10.1016/j.bbih.2021.100271

N/A

0DataRank · unranked

17 citations

Teresa A. Victor, Rayus Kuplicki, Maret Rossi, Mehrbod Estaki, Gail Ackermann +3 more

Absence of CCR2 reduces spontaneous intestinal tumorigenesis in the ApcMin/+ mouse model

International Journal of Cancer(2021)10.1002/ijc.33477

N/A

0DataRank · unranked

10 citations

Sobha R. Bodduluri, Sweta Ghosh, Zinal Chheda, Rajbir Singh, M. Estellie Smith +8 more

Reduced Gut Microbiome Diversity in People With HIV Who Have Distal Neuropathic Pain

Journal of Pain(2021)10.1016/j.jpain.2021.08.006

N/A

0DataRank · unranked

16 citations

Robert K. Heaton, Sara Gianella, Gibraan Rahman, Rob Knight, Ronald J. Ellis

The Fecal Microbiome and Metabolome of Pitt Hopkins Syndrome, a Severe Autism Spectrum Disorder

mSystems(2021)10.1128/msystems.01006-21

N/A

0DataRank · unranked

14 citations

Daniel McDonald, Tanya T. Nguyen, James B. Adams, Rosa Krajmalnik-Brown, Emmanuel Elijah +3 more

Severe acute respiratory coronavirus virus 2 (SARS-CoV-2) screening among symptom-free healthcare workers

Infection Control and Hospital Epidemiology(2021)10.1017/ice.2021.81

N/A

0DataRank · unranked

13 citations

Angela K. Ulrich, Talia D. Wiggen, Ali J. Strickland, Brianna M. Naumchik, Shalini Kulasingam +9 more

Challenges in Determining the Role of Microbiome Evolution in Barrett’s Esophagus and Progression to Esophageal Adenocarcinoma

Microorganisms(2021)10.3390/microorganisms9102003

N/A

0DataRank · unranked

12 citations

Rena Yadlapati, Shailja C. Shah, Rob Knight, Kit Curtius, Caitlin Guccione

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medRxiv(2021)10.1101/2021.02.06.21251159

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Genome Research(2021)10.1101/gr.275777.121

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medRxiv(2021)10.1101/2021.10.19.21265226

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bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.04.438427

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bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.09.10.459858

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bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.11.468006

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Cell(2022)10.1016/j.cell.2022.08.021

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Cell Reports(2022)10.1016/j.celrep.2022.111008

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Nature Communications(2022)10.1038/s41467-022-34557-2

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111 citations

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Nature Communications(2022)10.1038/s41467-022-31973-2

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BioEssays(2022)10.1002/bies.202100252

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Scientific Reports(2022)10.1038/s41598-022-09035-w

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mSystems(2022)10.1128/msystems.00758-22

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mSystems(2022)10.1128/msystems.00028-22

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12 citations

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Clinical and Translational Medicine(2022)10.1002/ctm2.959

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12 citations

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mSystems(2022)10.1128/msystems.01029-22

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mSystems(2022)10.1128/msystems.01411-21

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11 citations

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mSystems(2022)10.1128/msystems.00103-22

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FEMS Microbiology Ecology(2022)10.1093/femsec/fiac098

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11 citations

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Advanced Biology(2022)10.1002/adbi.202101313

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6 citations

Julia M. Gauglitz, Stephen Wandro, Kelly C. Weldon, Megan M. Doty, Kristina Stillwell +11 more

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bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.18.484903

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10 citations

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bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.19.492684

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medRxiv(2022)10.1101/2022.01.14.22269325

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1 citations

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Research Square(2022)10.21203/rs.3.rs-1189916/v1

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bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.05.498913

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0 citations

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Nature(2023)10.1038/s41586-022-05637-6

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Gastroenterology(2023)10.1053/j.gastro.2023.02.022

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Science(2023)10.1126/science.ade2503

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142 citations

Kristian G. Andersen, Rob Knight, Smruthi Karthikeyan, Joshua I. Levy

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Science Translational Medicine(2023)10.1126/scitranslmed.abq8476

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106 citations

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Nature Communications(2023)10.1038/s41467-023-37896-w

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105 citations

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Cameron Martino, Bryan J. Neth, Kiana West, Jasmine Zemlin, Gibraan Rahman +10 more

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Cell Reports Methods(2023)10.1016/j.crmeth.2022.100391

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Science(2023)10.1126/science.adf3974

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Cell Reports(2023)10.1016/j.celrep.2023.112997

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Tao Huan, Gibraan Rahman, Hui Zhi, Zhenjiang Zech Xu, Tae Gyu Oh +21 more

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Frontiers in Immunology(2023)10.3389/fimmu.2023.1151527

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Microbiome(2023)10.1186/s40168-023-01566-2

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Brandilyn A. Peters, MacKenzie Bryant, David B. Hanna, Tara Schwartz, Tao Wang +21 more

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The Lancet Regional Health - Americas(2023)10.1016/j.lana.2023.100449

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Genes(2023)10.3390/genes14061239

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22 citations

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The Journals of Gerontology Series A(2023)10.1093/gerona/glad011

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19 citations

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Frontiers in Microbiology(2023)10.3389/fmicb.2023.1202194

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mSystems(2023)10.1128/msystems.00006-23

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18 citations

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The Journal of Clinical Endocrinology & Metabolism(2023)10.1210/clinem/dgad510

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16 citations

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14 citations

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13 citations

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Kernel-based genetic association analysis for microbiome phenotypes identifies host genetic drivers of beta-diversity

Microbiome(2023)10.1186/s40168-023-01530-0

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12 citations

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EBioMedicine(2023)10.1016/j.ebiom.2023.104813

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12 citations

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AIDS(2023)10.1097/qad.0000000000003596

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12 citations

Zheng Wang, Brandilyn A. Peters, David B. Hanna, Tao Wang, Christopher C. Sollecito +20 more

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mSystems(2023)10.1128/msystems.00922-22

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8 citations

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Microorganisms(2023)10.3390/microorganisms11041022

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5 citations

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Microbiology Spectrum(2023)10.1128/spectrum.03712-23

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4 citations

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Nature Biotechnology(2023)10.1038/s41587-023-02026-w

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22 citations

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BIRDMAn: A Bayesian differential abundance framework that enables robust inference of host-microbe associations

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.30.526328

N/A

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17 citations

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medRxiv(2023)10.1101/2023.04.07.23288301

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A Modified Mediterranean Ketogenic Diet mitigates modifiable risk factors of Alzheimer’s Disease: a serum and CSF-based metabolic analysis

medRxiv(2023)10.1101/2023.11.27.23298990

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7 citations

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medRxiv(2023)10.1101/2023.06.13.23291049

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3 citations

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Practice and Experience in Advanced Research Computing(2023)10.1145/3569951.3597586

N/A

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1 citations

Daniel McDonald, Rob Knight, Frank Würthwein, I. Sfiligoi

Testing GitHub projects on custom resources using unprivileged Kubernetes runners

arXiv (Cornell University)(2023)10.48550/arxiv.2305.10346

N/A

0DataRank · unranked

0 citations

Daniel McDonald, Rob Knight, Frank Würthwein, I. Sfiligoi

Author Correction: Generation of accurate, expandable phylogenomic trees with uDance

Nature Biotechnology(2023)10.1038/s41587-023-02027-9

N/A

0DataRank · unranked

0 citations

Yueyu Jiang, Qiyun Zhu, Daniel McDonald, Rob Knight, Siavash Mirarab +1 more

Pangenome comparison of Bacteroides fragilis genomospecies unveil genetic diversity and ecological insights

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.20.572674

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medRxiv(2024)10.1101/2024.09.04.24313004

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eLife(2020)10.7554/elife.53111

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bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.17.238444

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medRxiv(2020)10.1101/2020.11.19.20234229

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bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.08.194159

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medRxiv(2020)10.1101/2020.07.30.20164962

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Daniel McDonald, Rob Knight, I. Sfiligoi

Challenges in Benchmarking Metagenomic Profilers

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.14.382994

N/A

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4 citations

Shi Huang, Meng Zhang, Qiyun Zhu, Niina Haiminen, Anna Paola Carrieri +6 more

A scale-free, fully connected global transition network underlies known microbiome diversity

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.11.376103

N/A

0DataRank · unranked

4 citations

Yufeng Zhang, Lu Liu, Zengbin Wang, Zheng Sun, Rob Knight +3 more

Profiling the effect of nafcillin on HA-MRSA D592 using bacteriological and physiological media

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.30.070904

N/A

0DataRank · unranked

3 citations

Saugat Poudel, Hannah Tsunemoto, Richard Szubin, Michael J. Meehan, Connor A. Olson +15 more

Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment

Research Square(2020)10.21203/rs.3.rs-56028/v1

N/A

0DataRank · unranked

3 citations

Farhana Ali, Clarisse Marotz, Pedro Belda‐Ferre, Leslie Chiang, Justin P. Shaffer +9 more

Characterizing the response of Acinetobacter baumannii ATCC 17978 to azithromycin in multiple in vitro growth conditions

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.19.079962

N/A

0DataRank · unranked

2 citations

Yara Seif, Hannah Tsunemoto, Saugat Poudel, Michael J. Meehan, Richard Szubin +15 more