Justin P. Shaffer

Biochemistry, Genetics and Molecular BiologyAgricultural and Biological SciencesEnvironmental Science

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 2%percentile

3.0Author DataRank

Indexed papers

1in 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 1 indexed paper 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 →

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

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

Papers

Driven by 25 papers — median percentile 93. Top paper: “Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity”.

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

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

2.5DataRank · unranked

64 citations

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

Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities

mSystems(2021)10.1128/msystems.01194-20

N/A

2.0DataRank · unranked

72 citations

Josephine Burgin, Anjanette Johnston, Kristen L. Beck, Daniel C. Berrios, Kai Blumberg +37 more

Enhancing untargeted metabolomics using metadata-based source annotation

Nature Biotechnology(2022)10.1038/s41587-022-01368-1

N/A

2.0DataRank · unranked

79 citations

Kiana West, Wout Bittremieux, Candace L. Williams, Kelly C. Weldon, Morgan Panitchpakdi +68 more

A Comparison of Six DNA Extraction Protocols for 16S, ITS and Shotgun Metagenomic Sequencing of Microbial Communities

BioTechniques(2022)10.2144/btn-2022-0032

N/A

1.9DataRank · unranked

74 citations

Carolina S. Carpenter, Cameron Martino, Rodolfo A. Salido, Jeremiah J. Minich, MacKenzie Bryant +6 more

OGUs enable effective, phylogeny-aware analysis of even shallow metagenome community structures

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

N/A

0.752DataRank · unranked

20 citations

Shi Huang, Antonio G. González, Imran McGrath, Daniel McDonald, Niina Haiminen +21 more

Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy

mSystems(2022)10.1128/msystems.00167-22

N/A

0.727DataRank · unranked

126 citations

Shi Huang, Antonio González, Imran McGrath, Daniel McDonald, Niina Haiminen +21 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

0.571DataRank · unranked

44 citations

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

Reference data based insights expand understanding of human metabolomes

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

N/A

0.360DataRank · unranked

10 citations

Wout Bittremieux, Candace L. Williams, Kelly C. Weldon, Morgan Panitchpakdi, Francesca Di Ottavio +59 more

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

medRxiv(2020)10.1101/2020.05.12.20073577

N/A

0.345DataRank · unranked

9 citations

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

Multi-omics profiling of Earth’s biomes reveals patterns of diversity and co-occurrence in microbial and metabolite composition across environments

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.04.446988

N/A

0.330DataRank · unranked

8 citations

Louis‐Félix Nothias, Luke Thompson, Jon G. Sanders, Rodolfo A. Salido, Sneha Couvillion +45 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

0.208DataRank · unranked

3 citations

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

0.165DataRank · unranked

2 citations

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

Community assembly modeling of microbial evolution within Barrett’s esophagus and esophageal adenocarcinoma

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.14.633020

N/A

0.104DataRank · unranked

1 citations

I. Sfiligoi, Antonio González, Justin P. Shaffer, Mariya Kazachkova, Yuhan Weng +9 more

Streamlined extraction of nucleic acids and metabolites from low- and high-biomass samples using isopropanol and matrix tubes

Microbiology Spectrum(2025)10.1128/spectrum.01912-25

N/A

0.104DataRank · unranked

1 citations

Justin P. Shaffer, Pedro Belda‐Ferre, Ipsita Mohanty, Yuhan Weng, Kalen Cantrell +17 more

Reference data-set driven metabolomics

Research Square(2021)10.21203/rs.3.rs-654519/v1

N/A

0DataRank · unranked

0 citations

Kiana West, Wout Bittremieux, Candace L. Williams, Kelly C. Weldon, Morgan Panitchpakdi +69 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

Peripheral Neuronal Activation Shapes the Microbiome and Alters Gut Physiology

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.12.439539

N/A

0DataRank · unranked

6 citations

Bryan B. Yoo, Peter Thuy-Boun, Victor Cantu, Kelly C. Weldon, Collin Challis +14 more

Microbial context predicts SARS-CoV-2 prevalence in patients and the hospital built environment

medRxiv(2020)10.1101/2020.11.19.20234229

N/A

0DataRank · unranked

16 citations

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

Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions

Cell(2022)10.1016/j.cell.2022.09.005

N/A

0DataRank · unranked

510 citations

Gregory D. Sepich‐Poore, Ilana Livyatan, Omer Asraf, Cameron Martino, Deborah Nejman +21 more

Postnatal exposure to ambient air pollutants is associated with the composition of the infant gut microbiota at 6-months of age

Gut Microbes(2022)10.1080/19490976.2022.2105096

N/A

0DataRank · unranked

50 citations

Elizabeth A. Holzhausen, Zachariah E. M. Morgan, Noopur C. Naik, Justin P. Shaffer, Donghai Liang +9 more

Transcriptional Profiles of a Foliar Fungal Endophyte ( Pestalotiopsis , Ascomycota) and Its Bacterial Symbiont ( Luteibacter , Gammaproteobacteria ) Reveal Sulfur Exchange and Growth Regulation during Early Phases of Symbiotic Interaction

mSystems(2022)10.1128/msystems.00091-22

N/A

0DataRank · unranked

28 citations

Morgan Carter, Joseph E. Spraker, Meara Clark, Brian A. Smith, Kevin L. Hockett +3 more

Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype

mSystems(2022)10.1128/msystems.00050-22

N/A

0DataRank · unranked

25 citations

Daniel McDonald, Kalen Cantrell, Amanda Hazel Dilmore, Yoshiki Vázquez‐Baeza, Liat Shenhav +7 more

Comprehensive evaluation of shotgun metagenomics, amplicon sequencing, and harmonization of these platforms for epidemiological studies

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

N/A

0DataRank · unranked

87 citations

Brandilyn A. Peters, Smruthi Karthikeyan, Daniel McDonald, Christopher C. Sollecito, Yoshiki Vázquez‐Baeza +10 more

Peripheral neuronal activation shapes the microbiome and alters gut physiology

Cell Reports(2024)10.1016/j.celrep.2024.113953

N/A

0DataRank · unranked

32 citations

Bryan B. Yoo, Peter Thuy-Boun, Victor Cantu, Kelly C. Weldon, Collin Challis +14 more

Justin P. Shaffer

Indexed papers

Top data-sharing exemplar

Papers