Břinda K - Search Results

1

Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing.

Břinda K, Callendrello A, Ma KC, MacFadden DR, Charalampous T, Lee RS, Cowley L, Wadsworth CB, Grad YH, Kucherov G, O'Grady J, Baym M, Hanage WP. Břinda K, et al. Nat Microbiol. 2020 Mar;5(3):455-464. doi: 10.1038/s41564-019-0656-6. Epub 2020 Feb 10. Nat Microbiol. 2020. PMID: 32042129 Free PMC article.

2

Using Genetic Distance from Archived Samples for the Prediction of Antibiotic Resistance in Escherichia coli.

MacFadden DR, Coburn B, Břinda K, Corbeil A, Daneman N, Fisman D, Lee RS, Lipsitch M, McGeer A, Melano RG, Mubareka S, Hanage WP. MacFadden DR, et al. Among authors: brinda k. Antimicrob Agents Chemother. 2020 Apr 21;64(5):e02417-19. doi: 10.1128/AAC.02417-19. Print 2020 Apr 21. Antimicrob Agents Chemother. 2020. PMID: 32152083 Free PMC article.

3

Simplitigs as an efficient and scalable representation of de Bruijn graphs.

Břinda K, Baym M, Kucherov G. Břinda K, et al. Genome Biol. 2021 Apr 6;22(1):96. doi: 10.1186/s13059-021-02297-z. Genome Biol. 2021. PMID: 33823902 Free PMC article.

4

High-resolution genomic surveillance elucidates a multilayered hierarchical transfer of resistance between WWTP- and human/animal-associated bacteria.

Che Y, Xu X, Yang Y, Břinda K, Hanage W, Yang C, Zhang T. Che Y, et al. Among authors: brinda k. Microbiome. 2022 Jan 25;10(1):16. doi: 10.1186/s40168-021-01192-w. Microbiome. 2022. PMID: 35078531 Free PMC article.

5

Spaced seeds improve k-mer-based metagenomic classification.

Břinda K, Sykulski M, Kucherov G. Břinda K, et al. Bioinformatics. 2015 Nov 15;31(22):3584-92. doi: 10.1093/bioinformatics/btv419. Epub 2015 Jul 25. Bioinformatics. 2015. PMID: 26209798

6

Reply to Shaw: Challenges for enrichment analysis of AMR gene-bearing plasmids.

Che Y, Yang Y, Xu X, Břinda K, Polz MF, Hanage WP, Zhang T. Che Y, et al. Among authors: brinda k. Proc Natl Acad Sci U S A. 2021 May 25;118(21):e2104557118. doi: 10.1073/pnas.2104557118. Proc Natl Acad Sci U S A. 2021. PMID: 33975908 Free PMC article. No abstract available.

7

RNF: a general framework to evaluate NGS read mappers.

Břinda K, Boeva V, Kucherov G. Břinda K, et al. Bioinformatics. 2016 Jan 1;32(1):136-9. doi: 10.1093/bioinformatics/btv524. Epub 2015 Sep 9. Bioinformatics. 2016. PMID: 26353839 Free PMC article.

8

Conjugative plasmids interact with insertion sequences to shape the horizontal transfer of antimicrobial resistance genes.

Che Y, Yang Y, Xu X, Břinda K, Polz MF, Hanage WP, Zhang T. Che Y, et al. Among authors: brinda k. Proc Natl Acad Sci U S A. 2021 Feb 9;118(6):e2008731118. doi: 10.1073/pnas.2008731118. Proc Natl Acad Sci U S A. 2021. PMID: 33526659 Free PMC article.

9

Reply to Partridge et al.: Complementary bioinformatics and experimental approaches to investigate the transfer of AMR genes.

Che Y, Yang Y, Xu X, Břinda K, Polz MF, Hanage WP, Zhang T. Che Y, et al. Among authors: brinda k. Proc Natl Acad Sci U S A. 2021 Aug 31;118(35):e2108995118. doi: 10.1073/pnas.2108995118. Proc Natl Acad Sci U S A. 2021. PMID: 34453008 Free PMC article. No abstract available.

10

Optimal SARS-CoV-2 vaccine allocation using real-time attack-rate estimates in Rhode Island and Massachusetts.

Tran TN, Wikle NB, Albert E, Inam H, Strong E, Brinda K, Leighow SM, Yang F, Hossain S, Pritchard JR, Chan P, Hanage WP, Hanks EM, Boni MF. Tran TN, et al. Among authors: brinda k. BMC Med. 2021 Jul 13;19(1):162. doi: 10.1186/s12916-021-02038-w. BMC Med. 2021. PMID: 34253200 Free PMC article.

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