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Longitudinal multi-omics of host-microbe dynamics in prediabetes.
Zhou W, Sailani MR, Contrepois K, Zhou Y, Ahadi S, Leopold SR, Zhang MJ, Rao V, Avina M, Mishra T, Johnson J, Lee-McMullen B, Chen S, Metwally AA, Tran TDB, Nguyen H, Zhou X, Albright B, Hong BY, Petersen L, Bautista E, Hanson B, Chen L, Spakowicz D, Bahmani A, Salins D, Leopold B, Ashland M, Dagan-Rosenfeld O, Rego S, Limcaoco P, Colbert E, Allister C, Perelman D, Craig C, Wei E, Chaib H, Hornburg D, Dunn J, Liang L, Rose SMS, Kukurba K, Piening B, Rost H, Tse D, McLaughlin T, Sodergren E, Weinstock GM, Snyder M. Zhou W, et al. Among authors: johnson j. Nature. 2019 May;569(7758):663-671. doi: 10.1038/s41586-019-1236-x. Epub 2019 May 29. Nature. 2019. PMID: 31142858 Free PMC article.
MSC: a metagenomic sequence classification algorithm.
Saha S, Johnson J, Pal S, Weinstock GM, Rajasekaran S. Saha S, et al. Among authors: johnson j. Bioinformatics. 2019 Sep 1;35(17):2932-2940. doi: 10.1093/bioinformatics/bty1071. Bioinformatics. 2019. PMID: 30649204 Free PMC article.
Microbiome Signatures Associated With Steatohepatitis and Moderate to Severe Fibrosis in Children With Nonalcoholic Fatty Liver Disease.
Schwimmer JB, Johnson JS, Angeles JE, Behling C, Belt PH, Borecki I, Bross C, Durelle J, Goyal NP, Hamilton G, Holtz ML, Lavine JE, Mitreva M, Newton KP, Pan A, Simpson PM, Sirlin CB, Sodergren E, Tyagi R, Yates KP, Weinstock GM, Salzman NH. Schwimmer JB, et al. Among authors: johnson js. Gastroenterology. 2019 Oct;157(4):1109-1122. doi: 10.1053/j.gastro.2019.06.028. Epub 2019 Jun 27. Gastroenterology. 2019. PMID: 31255652 Free PMC article.
Murine Model for Measuring Effects of Humanized-Dosing of Antibiotics on the Gut Microbiome.
Leopold SR, Abdelraouf K, Nicolau DP, Agresta H, Johnson J, Teter K, Dunne WM, Broadwell D, van Belkum A, Schechter LM, Sodergren EJ, Weinstock GM. Leopold SR, et al. Among authors: johnson j. Front Microbiol. 2022 Feb 17;13:813849. doi: 10.3389/fmicb.2022.813849. eCollection 2022. Front Microbiol. 2022. PMID: 35250930 Free PMC article.
Exploratory studies of oral and fecal microbiome in healthy human aging.
Zhou X, Wang B, Demkowicz PC, Johnson JS, Chen Y, Spakowicz DJ, Zhou Y, Dorsett Y, Chen L, Sodergren E, Kuchel GA, Weinstock GM. Zhou X, et al. Among authors: johnson js. Front Aging. 2022 Oct 20;3:1002405. doi: 10.3389/fragi.2022.1002405. eCollection 2022. Front Aging. 2022. PMID: 36338834 Free PMC article.
Longitudinal profiling of the microbiome at four body sites reveals core stability and individualized dynamics during health and disease.
Zhou X, Shen X, Johnson JS, Spakowicz DJ, Agnello M, Zhou W, Avina M, Honkala A, Chleilat F, Chen SJ, Cha K, Leopold S, Zhu C, Chen L, Lyu L, Hornburg D, Wu S, Zhang X, Jiang C, Jiang L, Jiang L, Jian R, Brooks AW, Wang M, Contrepois K, Gao P, Schüssler-Fiorenza Rose SM, Binh Tran TD, Nguyen H, Celli A, Hong BY, Bautista EJ, Dorsett Y, Kavathas P, Zhou Y, Sodergren E, Weinstock GM, Snyder MP. Zhou X, et al. Among authors: johnson js. bioRxiv [Preprint]. 2024 Feb 1:2024.02.01.577565. doi: 10.1101/2024.02.01.577565. bioRxiv. 2024. Update in: Cell Host Microbe. 2024 Apr 10;32(4):506-526.e9. doi: 10.1016/j.chom.2024.02.012. PMID: 38352363 Free PMC article. Updated. Preprint.
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