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A Practical Approach to Using the Genomic Standards Consortium MIxS Reporting Standard for Comparative Genomics and Metagenomics.
Eloe-Fadrosh EA, Mungall CJ, Miller MA, Smith M, Patil SS, Kelliher JM, Johnson LYD, Rodriguez FE, Chain PSG, Hu B, Thornton MB, McCue LA, McHardy AC, Harris NL, Reddy TBK, Mukherjee S, Hunter CI, Walls R, Schriml LM. Eloe-Fadrosh EA, et al. Among authors: chain psg. Methods Mol Biol. 2024;2802:587-609. doi: 10.1007/978-1-0716-3838-5_20. Methods Mol Biol. 2024. PMID: 38819573
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, Sterk P, Arumugam M, Bailey M, Baumgartner L, Birren BW, Blaser MJ, Bonazzi V, Booth T, Bork P, Bushman FD, Buttigieg PL, Chain PS, Charlson E, Costello EK, Huot-Creasy H, Dawyndt P, DeSantis T, Fierer N, Fuhrman JA, Gallery RE, Gevers D, Gibbs RA, San Gil I, Gonzalez A, Gordon JI, Guralnick R, Hankeln W, Highlander S, Hugenholtz P, Jansson J, Kau AL, Kelley ST, Kennedy J, Knights D, Koren O, Kuczynski J, Kyrpides N, Larsen R, Lauber CL, Legg T, Ley RE, Lozupone CA, Ludwig W, Lyons D, Maguire E, Methé BA, Meyer F, Muegge B, Nakielny S, Nelson KE, Nemergut D, Neufeld JD, Newbold LK, Oliver AE, Pace NR, Palanisamy G, Peplies J, Petrosino J, Proctor L, Pruesse E, Quast C, Raes J, Ratnasingham S, Ravel J, Relman DA, Assunta-Sansone S, Schloss PD, Schriml L, Sinha R, Smith MI, Sodergren E, Spo A, Stombaugh J, Tiedje JM, Ward DV, Weinstock GM, Wendel D, White O, Whiteley A, Wilke A, Wortman JR, Yatsunenko T, Glöckner FO. Yilmaz P, et al. Nat Biotechnol. 2011 May;29(5):415-20. doi: 10.1038/nbt.1823. Nat Biotechnol. 2011. PMID: 21552244 Free PMC article.
Toward unrestricted use of public genomic data.
Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I. Amann RI, et al. Among authors: chain psg. Science. 2019 Jan 25;363(6425):350-352. doi: 10.1126/science.aaw1280. Science. 2019. PMID: 30679363 No abstract available.
The National Microbiome Data Collaborative: enabling microbiome science.
Wood-Charlson EM, Anubhav, Auberry D, Blanco H, Borkum MI, Corilo YE, Davenport KW, Deshpande S, Devarakonda R, Drake M, Duncan WD, Flynn MC, Hays D, Hu B, Huntemann M, Li PE, Lipton M, Lo CC, Millard D, Miller K, Piehowski PD, Purvine S, Reddy TBK, Shakya M, Sundaramurthi JC, Vangay P, Wei Y, Wilson BE, Canon S, Chain PSG, Fagnan K, Martin S, McCue LA, Mungall CJ, Mouncey NJ, Maxon ME, Eloe-Fadrosh EA. Wood-Charlson EM, et al. Among authors: chain psg. Nat Rev Microbiol. 2020 Jun;18(6):313-314. doi: 10.1038/s41579-020-0377-0. Nat Rev Microbiol. 2020. PMID: 32350400 No abstract available.
Democratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi.
Junier P, Cailleau G, Palmieri I, Vallotton C, Trautschold OC, Junier T, Paul C, Bregnard D, Palmieri F, Estoppey A, Buffi M, Lohberger A, Robinson A, Kelliher JM, Davenport K, House GL, Morales D, Gallegos-Graves V, Dichosa AEK, Lupini S, Nguyen HN, Young JD, Rodrigues DF, Parra-Vasquez ANG, Bindschedler S, Chain PSG. Junier P, et al. Among authors: chain psg. FEMS Microbiol Ecol. 2021 Feb 11;97(2):fiab003. doi: 10.1093/femsec/fiab003. FEMS Microbiol Ecol. 2021. PMID: 33440006 Free PMC article.
Widespread bacterial diversity within the bacteriome of fungi.
Robinson AJ, House GL, Morales DP, Kelliher JM, Gallegos-Graves V, LeBrun ES, Davenport KW, Palmieri F, Lohberger A, Bregnard D, Estoppey A, Buffi M, Paul C, Junier T, Hervé V, Cailleau G, Lupini S, Nguyen HN, Zheng AO, Gimenes LJ, Bindschedller S, Rodrigues DF, Werner JH, Young JD, Junier P, Chain PSG. Robinson AJ, et al. Among authors: chain psg. Commun Biol. 2021 Oct 7;4(1):1168. doi: 10.1038/s42003-021-02693-y. Commun Biol. 2021. PMID: 34621007 Free PMC article.
157 results