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in Non-Cystic Fibrosis Bronchiectasis: Prevalence and Genomic Basis of High Inoculum β-Lactam Resistance.
Published in:
2022
By:
- Mossman, Alexandra K.;
- Svishchuk, Julianna;
- Waddell, Barbara Jean M.;
- Izydorczyk, Conrad S.;
- Buckley, Peter T.;
- Hilliard, Jamese J.;
- Al-Ghalith, Gabriel;
- Lingjie Zheng;
- Lynch, Anthony S.;
- Mody, Christopher H.;
- Lisboa, Luiz F.;
- Gregson, Daniel B.;
- Parkins, Michael D.;
- Zheng, Lingjie
Publication type:
journal article
Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.
Published in:
2019
By:
- Bolyen, Evan;
- Rideout, Jai Ram;
- Dillon, Matthew R.;
- Bokulich, Nicholas A.;
- Abnet, Christian C.;
- Al-Ghalith, Gabriel A.;
- Alexander, Harriet;
- Alm, Eric J.;
- Arumugam, Manimozhiyan;
- Asnicar, Francesco;
- Bai, Yang;
- Bisanz, Jordan E.;
- Bittinger, Kyle;
- Brejnrod, Asker;
- Brislawn, Colin J.;
- Brown, C. Titus;
- Callahan, Benjamin J.;
- Caraballo-Rodríguez, Andrés Mauricio;
- Chase, John;
- Cope, Emily K.
Publication type:
Correction Notice
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.
Published in:
2019
By:
- Bolyen, Evan;
- Rideout, Jai Ram;
- Dillon, Matthew R.;
- Bokulich, Nicholas A.;
- Abnet, Christian C.;
- Al-Ghalith, Gabriel A.;
- Alexander, Harriet;
- Alm, Eric J.;
- Arumugam, Manimozhiyan;
- Asnicar, Francesco;
- Bai, Yang;
- Bisanz, Jordan E.;
- Bittinger, Kyle;
- Brejnrod, Asker;
- Brislawn, Colin J.;
- Brown, C. Titus;
- Callahan, Benjamin J.;
- Caraballo-Rodríguez, Andrés Mauricio;
- Chase, John;
- Cope, Emily K.
Publication type:
Letter
Skin surface biomarkers are associated with future development of atopic dermatitis in children with family history of allergic disease.
Published in:
Skin Research & Technology, 2023, v. 29, n. 10, p. 1, doi. 10.1111/srt.13470
By:
- Sato, Takahiro;
- Nikolovski, Janet;
- Gould, Russell;
- Lboukili, Imane;
- Roux, Pierre‐Francois;
- Al‐Ghalith, Gabriel;
- Orie, Jeremy;
- Insel, Richard;
- Stamatas, Georgios N.
Publication type:
Article
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea.
Published in:
Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-13443-4
By:
- Zhu, Qiyun;
- Mai, Uyen;
- Pfeiffer, Wayne;
- Janssen, Stefan;
- Asnicar, Francesco;
- Sanders, Jon G.;
- Belda-Ferre, Pedro;
- Al-Ghalith, Gabriel A.;
- Kopylova, Evguenia;
- McDonald, Daniel;
- Kosciolek, Tomasz;
- Yin, John B.;
- Huang, Shi;
- Salam, Nimaichand;
- Jiao, Jian-Yu;
- Wu, Zijun;
- Xu, Zhenjiang Z.;
- Cantrell, Kalen;
- Yang, Yimeng;
- Sayyari, Erfan
Publication type:
Article
Bacterial community structure and function distinguish gut sites in captive red‐shanked doucs (Pygathrix nemaeus).
Published in:
American Journal of Primatology, 2019, v. 81, n. 10/11, p. N.PAG, doi. 10.1002/ajp.22977
By:
- Clayton, Jonathan B.;
- Shields‐Cutler, Robin R.;
- Hoops, Susan L.;
- Al‐Ghalith, Gabriel A.;
- Sha, John C. M.;
- Johnson, Timothy J.;
- Knights, Dan
Publication type:
Article
NINJA-OPS: Fast Accurate Marker Gene Alignment Using Concatenated Ribosomes.
Published in:
PLoS Computational Biology, 2016, v. 12, n. 1, p. 1, doi. 10.1371/journal.pcbi.1004658
By:
- Al-Ghalith, Gabriel A.;
- Montassier, Emmanuel;
- Ward, Henry N.;
- Knights, Dan
Publication type:
Article
High-Throughput flaA Short Variable Region Sequencing to Assess Campylobacter Diversity in Fecal Samples From Birds.
Published in:
Frontiers in Microbiology, 2018, p. N.PAG, doi. 10.3389/fmicb.2018.02201
By:
- Zhang, Qian;
- Al-Ghalith, Gabriel A.;
- Kobayashi, Mayumi;
- Segawa, Takahiro;
- Maeda, Mitsuto;
- Okabe, Satoshi;
- Knights, Dan;
- Ishii, Satoshi
Publication type:
Article
CLOUD: a non-parametric detection test for microbiome outliers.
Published in:
Microbiome, 2018, v. 6, n. 1, p. N.PAG, doi. 10.1186/s40168-018-0514-4
By:
- Montassier, Emmanuel;
- Al-Ghalith, Gabriel A.;
- Hillmann, Benjamin;
- Viskocil, Kimberly;
- Kabage, Amanda J.;
- McKinlay, Christopher E.;
- Sadowsky, Michael J.;
- Khoruts, Alexander;
- Knights, Dan
Publication type:
Article
Urinary microbiome associated with chronic allograft dysfunction in kidney transplant recipients.
Published in:
Clinical Transplantation, 2018, v. 32, n. 12, p. N.PAG, doi. 10.1111/ctr.13436
By:
- Wu, Jennifer F.;
- Muthusamy, Amutha;
- Al‐Ghalith, Gabriel A.;
- Knights, Dan;
- Guo, Bin;
- Wu, Baolin;
- Remmel, Rory P.;
- Schladt, David P.;
- Alegre, Maria‐Luisa;
- Oetting, William S.;
- Jacobson, Pamala A.;
- Israni, Ajay K.
Publication type:
Article
Associations Between Nutrition, Gut Microbiome, and Health in A Novel Nonhuman Primate Model.
Published in:
Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-29277-x
By:
- Clayton, Jonathan B.;
- Al-Ghalith, Gabriel A.;
- Long, Ha Thang;
- Tuan, Bui Van;
- Cabana, Francis;
- Huang, Hu;
- Vangay, Pajau;
- Ward, Tonya;
- Minh, Vo Van;
- Tam, Nguyen Ai;
- Dat, Nguyen Tat;
- Travis, Dominic A.;
- Murtaugh, Michael P.;
- Covert, Herbert;
- Glander, Kenneth E.;
- Nadler, Tilo;
- Toddes, Barbara;
- Sha, John C. M.;
- Singer, Randy;
- Knights, Dan
Publication type:
Article
Moving beyond de novo clustering in fungal community ecology.
Published in:
New Phytologist, 2017, v. 216, n. 3, p. 629, doi. 10.1111/nph.14752
By:
- Cline, Lauren C.;
- Song, Zewei;
- Al ‐ Ghalith, Gabriel A.;
- Knights, Dan;
- Kennedy, Peter G.
Publication type:
Article
Pretreatment gut microbiome predicts chemotherapy-related bloodstream infection.
Published in:
Genome Medicine, 2016, v. 8, p. 1, doi. 10.1186/s13073-016-0301-4
By:
- Montassier, Emmanuel;
- Al-Ghalith, Gabriel A.;
- Ward, Tonya;
- Corvec, Stephane;
- Gastinne, Thomas;
- Potel, Gilles;
- Moreau, Phillipe;
- de la Cochetiere, Marie France;
- Batard, Eric;
- Knights, Dan
Publication type:
Article
Complex host genetics influence the microbiome in inflammatory bowel disease.
Published in:
Genome Medicine, 2014, v. 6, n. 12, p. 1, doi. 10.1186/s13073-014-0107-1
By:
- Knights, Dan;
- Silverberg, Mark S.;
- Weersma, Rinse K.;
- Gevers, Dirk;
- Dijkstra, Gerard;
- Hailiang Huang;
- Tyler, Andrea D.;
- van Sommeren, Suzanne;
- Imhann, Floris;
- Stempak, Joanne M.;
- Hu Huang;
- Vangay, Pajau;
- Al-Ghalith, Gabriel A.;
- Russell, Caitlin;
- Sauk, Jenny;
- Knight, Jo;
- Daly, Mark J.;
- Huttenhower, Curtis;
- Xavier, Ramnik J.
Publication type:
Article
SHOGUN: a modular, accurate and scalable framework for microbiome quantification.
Published in:
Bioinformatics, 2020, v. 36, n. 13, p. 4088, doi. 10.1093/bioinformatics/btaa277
By:
- Hillmann, Benjamin;
- Al-Ghalith, Gabriel A;
- Shields-Cutler, Robin R;
- Zhu, Qiyun;
- Knight, Rob;
- Knights, Dan
Publication type:
Article
Patterns of seasonality and group membership characterize the gut microbiota in a longitudinal study of wild Verreaux's sifakas ( Propithecus verreauxi).
Published in:
Ecology & Evolution (20457758), 2017, v. 7, n. 15, p. 5732, doi. 10.1002/ece3.3148
By:
- Springer, Andrea;
- Fichtel, Claudia;
- Al‐Ghalith, Gabriel A.;
- Koch, Flávia;
- Amato, Katherine R.;
- Clayton, Jonathan B.;
- Knights, Dan;
- Kappeler, Peter M.
Publication type:
Article

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