Mendes CI - Search Results

1

Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package.

Griffiths EJ, Timme RE, Mendes CI, Page AJ, Alikhan NF, Fornika D, Maguire F, Campos J, Park D, Olawoye IB, Oluniyi PE, Anderson D, Christoffels A, da Silva AG, Cameron R, Dooley D, Katz LS, Black A, Karsch-Mizrachi I, Barrett T, Johnston A, Connor TR, Nicholls SM, Witney AA, Tyson GH, Tausch SH, Raphenya AR, Alcock B, Aanensen DM, Hodcroft E, Hsiao WWL, Vasconcelos ATR, MacCannell DR. Griffiths EJ, et al. Among authors: mendes ci. Gigascience. 2022 Feb 16;11:giac003. doi: 10.1093/gigascience/giac003. Gigascience. 2022. PMID: 35169842 Free PMC article.

2

Software testing in microbial bioinformatics: a call to action.

van der Putten BCL, Mendes CI, Talbot BM, de Korne-Elenbaas J, Mamede R, Vila-Cerqueira P, Coelho LP, Gulvik CA, Katz LS, The Asm Ngs Hackathon Participants. van der Putten BCL, et al. Among authors: mendes ci. Microb Genom. 2022 Mar;8(3):000790. doi: 10.1099/mgen.0.000790. Microb Genom. 2022. PMID: 35259087 Free PMC article.

3

LMAS: evaluating metagenomic short de novo assembly methods through defined communities.

Mendes CI, Vila-Cerqueira P, Motro Y, Moran-Gilad J, Carriço JA, Ramirez M. Mendes CI, et al. Gigascience. 2022 Dec 28;12:giac122. doi: 10.1093/gigascience/giac122. Gigascience. 2022. PMID: 36576131 Free PMC article.

4

DEN-IM: dengue virus genotyping from amplicon and shotgun metagenomic sequencing.

Mendes CI, Lizarazo E, Machado MP, Silva DN, Tami A, Ramirez M, Couto N, Rossen JWA, Carriço JA. Mendes CI, et al. Microb Genom. 2020 Mar;6(3):e000328. doi: 10.1099/mgen.0.000328. Microb Genom. 2020. PMID: 32134380 Free PMC article.

5

Critical steps in clinical shotgun metagenomics for the concomitant detection and typing of microbial pathogens.

Couto N, Schuele L, Raangs EC, Machado MP, Mendes CI, Jesus TF, Chlebowicz M, Rosema S, Ramirez M, Carriço JA, Autenrieth IB, Friedrich AW, Peter S, Rossen JW. Couto N, et al. Among authors: mendes ci. Sci Rep. 2018 Sep 13;8(1):13767. doi: 10.1038/s41598-018-31873-w. Sci Rep. 2018. PMID: 30213965 Free PMC article.

6

Beta-hemolytic Streptococcus dysgalactiae strains isolated from horses are a genetically distinct population within the Streptococcus dysgalactiae taxon.

Pinho MD, Erol E, Ribeiro-Gonçalves B, Mendes CI, Carriço JA, Matos SC, Preziuso S, Luebke-Becker A, Wieler LH, Melo-Cristino J, Ramirez M. Pinho MD, et al. Among authors: mendes ci. Sci Rep. 2016 Aug 17;6:31736. doi: 10.1038/srep31736. Sci Rep. 2016. PMID: 27530432 Free PMC article.

7

Streptococcus pneumoniae Serotype 3 in Mexico (1994 to 2017): Decrease of the Unusual Clonal Complex 4909 Lineage following PCV13 Introduction.

Echániz-Aviles G, Guerreiro SI, Silva-Costa C, Mendes CI, Carriço JA, Carnalla-Barajas MN, Soto-Noguerón A, Velazquez-Meza ME, Melo-Cristino J, Luévanos-Velazquez A, Martínez-Medina L, Vázquez-Larios MDR, Ramirez M. Echániz-Aviles G, et al. Among authors: mendes ci. J Clin Microbiol. 2019 Jan 2;57(1):e01354-18. doi: 10.1128/JCM.01354-18. Print 2019 Jan. J Clin Microbiol. 2019. PMID: 30404945 Free PMC article.

8

Author Correction: Critical steps in clinical shotgun metagenomics for the concomitant detection and typing of microbial pathogens.

Couto N, Schuele L, Raangs EC, Machado MP, Mendes CI, Jesus TF, Chlebowicz M, Rosema S, Ramirez M, Carriço JA, Autenrieth IB, Friedrich AW, Peter S, Rossen JW. Couto N, et al. Among authors: mendes ci. Sci Rep. 2019 Apr 17;9(1):6406. doi: 10.1038/s41598-019-42134-9. Sci Rep. 2019. PMID: 30992476 Free PMC article.

9

Detection of a novel mcr-5.4 gene variant in hospital tap water by shotgun metagenomic sequencing.

Fleres G, Couto N, Schuele L, Chlebowicz MA, Mendes CI, van der Sluis LWM, Rossen JWA, Friedrich AW, García-Cobos S. Fleres G, et al. Among authors: mendes ci. J Antimicrob Chemother. 2019 Dec 1;74(12):3626-3628. doi: 10.1093/jac/dkz363. J Antimicrob Chemother. 2019. PMID: 31504580 Free PMC article. No abstract available.

10

Distinct Phenotypic and Genomic Signatures Underlie Contrasting Pathogenic Potential of Staphylococcus epidermidis Clonal Lineages.

Espadinha D, Sobral RG, Mendes CI, Méric G, Sheppard SK, Carriço JA, de Lencastre H, Miragaia M. Espadinha D, et al. Among authors: mendes ci. Front Microbiol. 2019 Aug 27;10:1971. doi: 10.3389/fmicb.2019.01971. eCollection 2019. Front Microbiol. 2019. PMID: 31507574 Free PMC article.

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