Immunization with a heat-killed preparation of the environmental bacteriumMycobacterium vaccaepromotes stress resilience in mice
Stefan O. Reber , Philip H. Siebler , Nina C. Donner , James T. Morton
Proceedings of the National Academy of Sciences 113 ( 22) E3130 -E3139
202
2016
Protein Structural Alignments From Sequence
James T. Morton , Charlie E. M. Strauss , Robert Blackwell , Daniel Berenberg
bioRxiv
2020
Evaluating the impact of domestication and captivity on the horse gut microbiome.
Jessica L. Metcalf , Se Jin Song , James T. Morton , Sophie Weiss
Scientific Reports 7 ( 1) 15497
51
2017
Phylofactorization: a graph partitioning algorithm to identify phylogenetic scales of ecological data
Alex D. Washburne , Justin D. Silverman , James T. Morton , Daniel J. Becker
Ecological Monographs 89 ( 2)
30
2019
Maternal cecal microbiota transfer rescues early-life antibiotic-induced enhancement of type 1 diabetes in mice
Xue-Song Zhang , Yue Sandra Yin , Jincheng Wang , Thomas Battaglia
Cell host \& microbe 29 ( 8) 1249 -1265
17
2021
Experiences and lessons learned from two virtual, hands-on microbiome bioinformatics workshops
Matthew R Dillon , Evan Bolyen , Anja Adamov , Aeriel Belk
PLoS computational biology 17 ( 6) e1009056 -e1009056
3
2021
Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C
Evan Bolyen , Jai Ram Rideout , Matthew R Dillon , Nicholas A Bokulich
Weber, Charles HD Williamson, Amy D. Willis, Zhenjiang Zech Xu, Jesse R. Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, and J. Gregory Caporaso. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 852 -857
12
2019
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
Evan Bolyen , Jai Ram Rideout , Matthew R Dillon , Nicholas A Bokulich
Nature Biotechnology 37 ( 8) 852 -857
8,209
2019
Lower Airway Dysbiosis Affects Lung Cancer Progression.
Jun-Chieh J Tsay , Benjamin G Wu , Imran Sulaiman , Katherine Gershner
Cancer Discovery 11 ( 2) 293 -307
83
2021
Visualizing 'omic feature rankings and log-ratios using Qurro.
Marcus W Fedarko , Cameron Martino , James T Morton , Antonio González
NAR genomics and bioinformatics 2 ( 2)
12
2020
Multi-omics profiling of Earth’s biomes reveals patterns of diversity and co-occurrence in microbial and metabolite composition across environments
Justin P Shaffer , Louis-Félix Nothias , Luke R Thompson , Jon G Sanders
bioRxiv 2021 -06
1
2021
Greengenes2 enables a shared data universe for microbiome studies
Daniel McDonald , Yueyu Jiang , Metin Balaban , Kalen Cantrell
bioRxiv 2022 -12
2022
TM-Vec: template modeling vectors for fast homology detection and alignment
Tymor Hamamsy , James T Morton , Daniel Berenberg , Nicholas Carriero
bioRxiv 2022 -07
5
2022
A novel sparse compositional technique reveals microbial perturbations. mSystems 4: e00016-19
Cameron Martino , James T Morton , Clarisse A Marotz , Luke R Thompson
Smpte Journal
22
2019
A communal catalogue reveals Earth’s multiscale microbial diversity
Luke R Thompson , Jon G Sanders , Daniel McDonald , Amnon Amir
Nature 551 ( 7681) 457 -463
1,682
2017
Greengenes2 unifies microbial data in a single reference tree
Daniel McDonald , Yueyu Jiang , Metin Balaban , Kalen Cantrell
Nature Biotechnology 1 -4
56
2023
Multi-level analysis of the gut–brain axis shows autism spectrum disorder-associated molecular and microbial profiles
James T Morton , Dong-Min Jin , Robert H Mills , Yan Shao
Nature neuroscience 26 ( 7) 1208 -1217
44
2023
Multi-omic analysis along the gut-brain axis points to a functional architecture of autism
James T Morton , Dong-Min Jin , Robert H Mills , Yan Shao
Biorxiv 2022.02. 25.482050 -2022.02. 25.482050
7
2022
Context-aware dimensionality reduction deconvolutes gut microbial community dynamics.
Cameron Martino , Liat Shenhav , Clarisse A Marotz , George Armstrong
Nature Biotechnology 39 ( 2) 165 -168
51
2021
BIRDMAn: A Bayesian differential abundance framework that enables robust inference of host-microbe associations
Gibraan Rahman , James T Morton , Cameron Martino , Gregory D Sepich-Poore
bioRxiv
4
2023