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Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage.
Hendriksen RS, Munk P, Njage P, van Bunnik B, McNally L, Lukjancenko O, Röder T, Nieuwenhuijse D, Pedersen SK, Kjeldgaard J, Kaas RS, Clausen PTLC, Vogt JK, Leekitcharoenphon P, van de Schans MGM, Zuidema T, de Roda Husman AM, Rasmussen S, Petersen B; Global Sewage Surveillance project consortium; Amid C, Cochrane G, Sicheritz-Ponten T, Schmitt H, Alvarez JRM, Aidara-Kane A, Pamp SJ, Lund O, Hald T, Woolhouse M, Koopmans MP, Vigre H, Petersen TN, Aarestrup FM. Hendriksen RS, et al. Among authors: cochrane g. Nat Commun. 2019 Mar 8;10(1):1124. doi: 10.1038/s41467-019-08853-3. Nat Commun. 2019. PMID: 30850636 Free PMC article.
Consolidating and Exploring Antibiotic Resistance Gene Data Resources.
Xavier BB, Das AJ, Cochrane G, De Ganck S, Kumar-Singh S, Aarestrup FM, Goossens H, Malhotra-Kumar S. Xavier BB, et al. Among authors: cochrane g. J Clin Microbiol. 2016 Apr;54(4):851-9. doi: 10.1128/JCM.02717-15. Epub 2016 Jan 27. J Clin Microbiol. 2016. PMID: 26818666 Free PMC article. Review.
The COMPARE Data Hubs.
Amid C, Pakseresht N, Silvester N, Jayathilaka S, Lund O, Dynovski LD, Pataki BÁ, Visontai D, Xavier BB, Alako BTF, Belka A, Cisneros JLB, Cotten M, Haringhuizen GB, Harrison PW, Höper D, Holt S, Hundahl C, Hussein A, Kaas RS, Liu X, Leinonen R, Malhotra-Kumar S, Nieuwenhuijse DF, Rahman N, Dos S Ribeiro C, Skiby JE, Schmitz D, Stéger J, Szalai-Gindl JM, Thomsen MCF, Cacciò SM, Csabai I, Kroneman A, Koopmans M, Aarestrup F, Cochrane G. Amid C, et al. Among authors: cochrane g. Database (Oxford). 2019 Jan 1;2019:baz136. doi: 10.1093/database/baz136. Database (Oxford). 2019. PMID: 31868882 Free PMC article.
Accelerating surveillance and research of antimicrobial resistance - an online repository for sharing of antimicrobial susceptibility data associated with whole-genome sequences.
Matamoros S, Hendriksen RS, Pataki BÁ, Pakseresht N, Rossello M, Silvester N, Amid C, Aarestrup FM, Koopmans M, Cochrane G, Csabai I, Lund O, Schultsz C, The Compare Ml-Amr Group. Matamoros S, et al. Among authors: cochrane g. Microb Genom. 2020 May;6(5):e000342. doi: 10.1099/mgen.0.000342. Epub 2020 Mar 30. Microb Genom. 2020. PMID: 32255760 Free PMC article.
Content discovery and retrieval services at the European Nucleotide Archive.
Silvester N, Alako B, Amid C, Cerdeño-Tárraga A, Cleland I, Gibson R, Goodgame N, Ten Hoopen P, Kay S, Leinonen R, Li W, Liu X, Lopez R, Pakseresht N, Pallreddy S, Plaister S, Radhakrishnan R, Rossello M, Senf A, Smirnov D, Toribio AL, Vaughan D, Zalunin V, Cochrane G. Silvester N, et al. Among authors: cochrane g. Nucleic Acids Res. 2015 Jan;43(Database issue):D23-9. doi: 10.1093/nar/gku1129. Epub 2014 Nov 17. Nucleic Acids Res. 2015. PMID: 25404130 Free PMC article.
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies.
Mitchell AL, Scheremetjew M, Denise H, Potter S, Tarkowska A, Qureshi M, Salazar GA, Pesseat S, Boland MA, Hunter FMI, Ten Hoopen P, Alako B, Amid C, Wilkinson DJ, Curtis TP, Cochrane G, Finn RD. Mitchell AL, et al. Among authors: cochrane g. Nucleic Acids Res. 2018 Jan 4;46(D1):D726-D735. doi: 10.1093/nar/gkx967. Nucleic Acids Res. 2018. PMID: 29069476 Free PMC article.
The European Nucleotide Archive in 2017.
Silvester N, Alako B, Amid C, Cerdeño-Tarrága A, Clarke L, Cleland I, Harrison PW, Jayathilaka S, Kay S, Keane T, Leinonen R, Liu X, Martínez-Villacorta J, Menchi M, Reddy K, Pakseresht N, Rajan J, Rossello M, Smirnov D, Toribio AL, Vaughan D, Zalunin V, Cochrane G. Silvester N, et al. Among authors: cochrane g. Nucleic Acids Res. 2018 Jan 4;46(D1):D36-D40. doi: 10.1093/nar/gkx1125. Nucleic Acids Res. 2018. PMID: 29140475 Free PMC article.
The European Nucleotide Archive in 2018.
Harrison PW, Alako B, Amid C, Cerdeño-Tárraga A, Cleland I, Holt S, Hussein A, Jayathilaka S, Kay S, Keane T, Leinonen R, Liu X, Martínez-Villacorta J, Milano A, Pakseresht N, Rajan J, Reddy K, Richards E, Rosello M, Silvester N, Smirnov D, Toribio AL, Vijayaraja S, Cochrane G. Harrison PW, et al. Among authors: cochrane g. Nucleic Acids Res. 2019 Jan 8;47(D1):D84-D88. doi: 10.1093/nar/gky1078. Nucleic Acids Res. 2019. PMID: 30395270 Free PMC article.
Minimum Information about an Uncultivated Virus Genome (MIUViG).
Roux S, Adriaenssens EM, Dutilh BE, Koonin EV, Kropinski AM, Krupovic M, Kuhn JH, Lavigne R, Brister JR, Varsani A, Amid C, Aziz RK, Bordenstein SR, Bork P, Breitbart M, Cochrane GR, Daly RA, Desnues C, Duhaime MB, Emerson JB, Enault F, Fuhrman JA, Hingamp P, Hugenholtz P, Hurwitz BL, Ivanova NN, Labonté JM, Lee KB, Malmstrom RR, Martinez-Garcia M, Mizrachi IK, Ogata H, Páez-Espino D, Petit MA, Putonti C, Rattei T, Reyes A, Rodriguez-Valera F, Rosario K, Schriml L, Schulz F, Steward GF, Sullivan MB, Sunagawa S, Suttle CA, Temperton B, Tringe SG, Thurber RV, Webster NS, Whiteson KL, Wilhelm SW, Wommack KE, Woyke T, Wrighton KC, Yilmaz P, Yoshida T, Young MJ, Yutin N, Allen LZ, Kyrpides NC, Eloe-Fadrosh EA. Roux S, et al. Among authors: cochrane gr. Nat Biotechnol. 2019 Jan;37(1):29-37. doi: 10.1038/nbt.4306. Epub 2018 Dec 17. Nat Biotechnol. 2019. PMID: 30556814 Free PMC article.
318 results