Zhang Y - Search Results

1

A bacterial bile acid metabolite modulates T_reg activity through the nuclear hormone receptor NR4A1.

Li W, Hang S, Fang Y, Bae S, Zhang Y, Zhang M, Wang G, McCurry MD, Bae M, Paik D, Franzosa EA, Rastinejad F, Huttenhower C, Yao L, Devlin AS, Huh JR. Li W, et al. Among authors: zhang m, zhang y. Cell Host Microbe. 2021 Sep 8;29(9):1366-1377.e9. doi: 10.1016/j.chom.2021.07.013. Epub 2021 Aug 19. Cell Host Microbe. 2021. PMID: 34416161 Free PMC article.

2

Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach.

Wang Y, Yan Y, Thompson KN, Bae S, Accorsi EK, Zhang Y, Shen J, Vlamakis H, Hartmann EM, Huttenhower C. Wang Y, et al. Among authors: zhang y. Microbiome. 2021 Jan 21;9(1):17. doi: 10.1186/s40168-020-00961-3. Microbiome. 2021. PMID: 33478576 Free PMC article.

3

A framework for microbiome science in public health.

Wilkinson JE, Franzosa EA, Everett C, Li C; HCMPH researchers and trainees; HCMPH investigators; Hu FB, Wirth DF, Song M, Chan AT, Rimm E, Garrett WS, Huttenhower C. Wilkinson JE, et al. Nat Med. 2021 May;27(5):766-774. doi: 10.1038/s41591-021-01258-0. Epub 2021 Apr 5. Nat Med. 2021. PMID: 33820996 Review.

4

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3.

Beghini F, McIver LJ, Blanco-Míguez A, Dubois L, Asnicar F, Maharjan S, Mailyan A, Manghi P, Scholz M, Thomas AM, Valles-Colomer M, Weingart G, Zhang Y, Zolfo M, Huttenhower C, Franzosa EA, Segata N. Beghini F, et al. Among authors: zhang y. Elife. 2021 May 4;10:e65088. doi: 10.7554/eLife.65088. Elife. 2021. PMID: 33944776 Free PMC article.

5

Statistical approaches for differential expression analysis in metatranscriptomics.

Zhang Y, Thompson KN, Huttenhower C, Franzosa EA. Zhang Y, et al. Bioinformatics. 2021 Jul 12;37(Suppl_1):i34-i41. doi: 10.1093/bioinformatics/btab327. Bioinformatics. 2021. PMID: 34252963 Free PMC article.

6

Metatranscriptomics for the Human Microbiome and Microbial Community Functional Profiling.

Zhang Y, Thompson KN, Branck T, Yan Yan, Nguyen LH, Franzosa EA, Huttenhower C. Zhang Y, et al. Annu Rev Biomed Data Sci. 2021 Jul 20;4:279-311. doi: 10.1146/annurev-biodatasci-031121-103035. Epub 2021 May 13. Annu Rev Biomed Data Sci. 2021. PMID: 34465175 Review.

7

Multivariable association discovery in population-scale meta-omics studies.

Mallick H, Rahnavard A, McIver LJ, Ma S, Zhang Y, Nguyen LH, Tickle TL, Weingart G, Ren B, Schwager EH, Chatterjee S, Thompson KN, Wilkinson JE, Subramanian A, Lu Y, Waldron L, Paulson JN, Franzosa EA, Bravo HC, Huttenhower C. Mallick H, et al. Among authors: zhang y. PLoS Comput Biol. 2021 Nov 16;17(11):e1009442. doi: 10.1371/journal.pcbi.1009442. eCollection 2021 Nov. PLoS Comput Biol. 2021. PMID: 34784344 Free PMC article.

8

Strain-level fitness in the gut microbiome is an emergent property of glycans and a single metabolite.

Park SY, Rao C, Coyte KZ, Kuziel GA, Zhang Y, Huang W, Franzosa EA, Weng JK, Huttenhower C, Rakoff-Nahoum S. Park SY, et al. Among authors: zhang y. Cell. 2022 Feb 3;185(3):513-529.e21. doi: 10.1016/j.cell.2022.01.002. Cell. 2022. PMID: 35120663 Free PMC article.

9

Human gut bacteria produce Τ_Η17-modulating bile acid metabolites.

Paik D, Yao L, Zhang Y, Bae S, D'Agostino GD, Zhang M, Kim E, Franzosa EA, Avila-Pacheco J, Bisanz JE, Rakowski CK, Vlamakis H, Xavier RJ, Turnbaugh PJ, Longman RS, Krout MR, Clish CB, Rastinejad F, Huttenhower C, Huh JR, Devlin AS. Paik D, et al. Among authors: zhang m, zhang y. Nature. 2022 Mar;603(7903):907-912. doi: 10.1038/s41586-022-04480-z. Epub 2022 Mar 16. Nature. 2022. PMID: 35296854 Free PMC article.

10

Discovery of bioactive microbial gene products in inflammatory bowel disease.

Zhang Y, Bhosle A, Bae S, McIver LJ, Pishchany G, Accorsi EK, Thompson KN, Arze C, Wang Y, Subramanian A, Kearney SM, Pawluk A, Plichta DR, Rahnavard A, Shafquat A, Xavier RJ, Vlamakis H, Garrett WS, Krueger A, Huttenhower C, Franzosa EA. Zhang Y, et al. Nature. 2022 Jun;606(7915):754-760. doi: 10.1038/s41586-022-04648-7. Epub 2022 May 25. Nature. 2022. PMID: 35614211 Free PMC article.

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