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Shotgun metagenomics, from sampling to analysis.
Quince C, Walker AW, Simpson JT, Loman NJ, Segata N. Quince C, et al. Nat Biotechnol. 2017 Sep 12;35(9):833-844. doi: 10.1038/nbt.3935. Nat Biotechnol. 2017. PMID: 28898207 Review.
Binning metagenomic contigs by coverage and composition.
Alneberg J, Bjarnason BS, de Bruijn I, Schirmer M, Quick J, Ijaz UZ, Lahti L, Loman NJ, Andersson AF, Quince C. Alneberg J, et al. Among authors: quince c. Nat Methods. 2014 Nov;11(11):1144-6. doi: 10.1038/nmeth.3103. Epub 2014 Sep 14. Nat Methods. 2014. PMID: 25218180
Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.
Sczyrba A, Hofmann P, Belmann P, Koslicki D, Janssen S, Dröge J, Gregor I, Majda S, Fiedler J, Dahms E, Bremges A, Fritz A, Garrido-Oter R, Jørgensen TS, Shapiro N, Blood PD, Gurevich A, Bai Y, Turaev D, DeMaere MZ, Chikhi R, Nagarajan N, Quince C, Meyer F, Balvočiūtė M, Hansen LH, Sørensen SJ, Chia BKH, Denis B, Froula JL, Wang Z, Egan R, Don Kang D, Cook JJ, Deltel C, Beckstette M, Lemaitre C, Peterlongo P, Rizk G, Lavenier D, Wu YW, Singer SW, Jain C, Strous M, Klingenberg H, Meinicke P, Barton MD, Lingner T, Lin HH, Liao YC, Silva GGZ, Cuevas DA, Edwards RA, Saha S, Piro VC, Renard BY, Pop M, Klenk HP, Göker M, Kyrpides NC, Woyke T, Vorholt JA, Schulze-Lefert P, Rubin EM, Darling AE, Rattei T, McHardy AC. Sczyrba A, et al. Among authors: quince c. Nat Methods. 2017 Nov;14(11):1063-1071. doi: 10.1038/nmeth.4458. Epub 2017 Oct 2. Nat Methods. 2017. PMID: 28967888 Free PMC article.
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle.
Pasolli E, Asnicar F, Manara S, Zolfo M, Karcher N, Armanini F, Beghini F, Manghi P, Tett A, Ghensi P, Collado MC, Rice BL, DuLong C, Morgan XC, Golden CD, Quince C, Huttenhower C, Segata N. Pasolli E, et al. Among authors: quince c. Cell. 2019 Jan 24;176(3):649-662.e20. doi: 10.1016/j.cell.2019.01.001. Epub 2019 Jan 17. Cell. 2019. PMID: 30661755 Free PMC article.
STOP-Colitis pilot trial protocol: a prospective, open-label, randomised pilot study to assess two possible routes of faecal microbiota transplant delivery in patients with ulcerative colitis.
Quraishi MNN, Yalchin M, Blackwell C, Segal J, Sharma N, Hawkey P, McCune V, Hart AL, Gaya D, Ives NJ, Magill L, Loi S, Hewitt C, Gerasimidis K, Loman NJ, Hansen R, McMullan C, Mathers J, Quince C, Crees N, Iqbal T. Quraishi MNN, et al. Among authors: quince c. BMJ Open. 2019 Nov 11;9(11):e030659. doi: 10.1136/bmjopen-2019-030659. BMJ Open. 2019. PMID: 31719078 Free PMC article.
Analysis of pit latrine microbiota reveals depth-related variation in composition, and key parameters and taxa associated with latrine fill-up rate.
Ijaz UZ, Gundogdu O, Keating C, van Eekert M, Gibson W, Parkhill J, Abilahi F, Liseki B, Nguyen VA, Sudgen S, Quince C, Ensink JHJ, Torondel B, Walker AW. Ijaz UZ, et al. Among authors: quince c. Front Microbiol. 2022 Sep 23;13:960747. doi: 10.3389/fmicb.2022.960747. eCollection 2022. Front Microbiol. 2022. PMID: 36212864 Free PMC article.
113 results