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Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale.
Hu B, Canon S, Eloe-Fadrosh EA, Anubhav, Babinski M, Corilo Y, Davenport K, Duncan WD, Fagnan K, Flynn M, Foster B, Hays D, Huntemann M, Jackson EKP, Kelliher J, Li PE, Lo CC, Mans D, McCue LA, Mouncey N, Mungall CJ, Piehowski PD, Purvine SO, Smith M, Varghese NJ, Winston D, Xu Y, Chain PSG. Hu B, et al. Front Bioinform. 2022 Jan 17;1:826370. doi: 10.3389/fbinf.2021.826370. eCollection 2021. Front Bioinform. 2022. PMID: 36303775 Free PMC article. Review.
Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.
Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium; Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T. Bowers RM, et al. Nat Biotechnol. 2018 Jul 6;36(7):660. doi: 10.1038/nbt0718-660a. Nat Biotechnol. 2018. PMID: 29979671 Free PMC article. No abstract available.
Giant virus diversity and host interactions through global metagenomics.
Schulz F, Roux S, Paez-Espino D, Jungbluth S, Walsh DA, Denef VJ, McMahon KD, Konstantinidis KT, Eloe-Fadrosh EA, Kyrpides NC, Woyke T. Schulz F, et al. Nature. 2020 Feb;578(7795):432-436. doi: 10.1038/s41586-020-1957-x. Epub 2020 Jan 22. Nature. 2020. PMID: 31968354 Free PMC article.
A functional microbiome catalog crowdsourced from North American rivers.
Borton MA, McGivern BB, Willi KR, Woodcroft BJ, Mosier AC, Singleton DM, Bambakidis T, Pelly A, Liu F, Edirisinghe JN, Faria JP, Leleiwi I, Daly RA, Goldman AE, Wilkins MJ, Hall EK, Pennacchio C, Roux S, Eloe-Fadrosh EA, Good SP, Sullivan MB, Henry CS, Wood-Charlson EM, Ross MRV, Miller CS, Crump BC, Stegen JC, Wrighton KC. Borton MA, et al. Among authors: eloe fadrosh ea. bioRxiv [Preprint]. 2023 Jul 26:2023.07.22.550117. doi: 10.1101/2023.07.22.550117. bioRxiv. 2023. PMID: 37502915 Free PMC article. Preprint.
102 results