Harvard Catalyst Profiles

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Karel Brinda, Ph.D.

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Wikle NB, Tran TN, Gentilesco B, Leighow SM, Albert E, Strong ER, Brinda K, Inam H, Yang F, Hossain S, Chan P, Hanage WP, Messick M, Pritchard JR, Hanks EM, Boni MF. SARS-CoV-2 epidemic after social and economic reopening in three U.S. states reveals shifts in age structure and clinical characteristics. Sci Adv. 2022 01 28; 8(4):eabf9868. PMID: 35080987; PMCID: PMC8791616.
    Citations: 4     Fields:    Translation:HumansCellsPHPublic Health
  2. Che Y, Xu X, Yang Y, Brinda K, Hanage W, Yang C, Zhang T. High-resolution genomic surveillance elucidates a multilayered hierarchical transfer of resistance between WWTP- and human/animal-associated bacteria. Microbiome. 2022 01 25; 10(1):16. PMID: 35078531; PMCID: PMC8790882.
    Citations: 4     Fields:    Translation:HumansAnimalsCellsPHPublic Health
  3. Wikle N, Tran TN, Gentilesco B, Leighow SM, Albert J, Strong ER, Brinda K, Inam H, Yang F, Hossain S, Chan P, Hanage WP, Messick M, Pritchard JR, Hanks EM, Boni MF. SARS-CoV-2 epidemic after social and economic reopening in three US states reveals shifts in age structure and clinical characteristics. medRxiv. 2021 Nov 06. PMID: 34426816; PMCID: PMC8382133.
    Citations:    
  4. Che Y, Yang Y, Xu X, Brinda K, Polz MF, Hanage WP, Zhang T. Reply to Partridge et al.: Complementary bioinformatics and experimental approaches to investigate the transfer of AMR genes. Proc Natl Acad Sci U S A. 2021 08 31; 118(35). PMID: 34453008; PMCID: PMC8536385.
    Citations:    Fields:    
  5. 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. Optimal SARS-CoV-2 vaccine allocation using real-time attack-rate estimates in Rhode Island and Massachusetts. BMC Med. 2021 07 13; 19(1):162. PMID: 34253200; PMCID: PMC8275456.
    Citations: 14     Fields:    Translation:HumansCellsPHPublic Health
  6. Che Y, Yang Y, Xu X, Brinda K, Polz MF, Hanage WP, Zhang T. Reply to Shaw: Challenges for enrichment analysis of AMR gene-bearing plasmids. Proc Natl Acad Sci U S A. 2021 05 25; 118(21). PMID: 33975908.
    Citations:    Fields:    
  7. Brinda K, Baym M, Kucherov G. Simplitigs as an efficient and scalable representation of de Bruijn graphs. Genome Biol. 2021 04 06; 22(1):96. PMID: 33823902.
    Citations: 5     Fields:    
  8. Che Y, Yang Y, Xu X, Brinda K, Polz MF, Hanage WP, Zhang T. Conjugative plasmids interact with insertion sequences to shape the horizontal transfer of antimicrobial resistance genes. Proc Natl Acad Sci U S A. 2021 02 09; 118(6). PMID: 33526659.
    Citations: 46     Fields:    Translation:Cells
  9. Tran TN, Wikle N, Albert J, Inam H, Strong E, Brinda K, Leighow SM, Yang F, Hossain S, Pritchard JR, Chan P, Hanage WP, Hanks EM, Boni MF. Optimal SARS-CoV-2 vaccine allocation using real-time seroprevalence estimates in Rhode Island and Massachusetts. medRxiv. 2021 Jan 15. PMID: 33469599; PMCID: PMC7814845.
    Citations:    
  10. MacFadden DR, Coburn B, Brinda K, Corbeil A, Daneman N, Fisman D, Lee RS, Lipsitch M, McGeer A, Melano RG, Mubareka S, Hanage WP. Using Genetic Distance from Archived Samples for the Prediction of Antibiotic Resistance in Escherichia coli. Antimicrob Agents Chemother. 2020 04 21; 64(5). PMID: 32152083.
    Citations: 3     Fields:    Translation:HumansCells
  11. Brinda 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. Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing. Nat Microbiol. 2020 03; 5(3):455-464. PMID: 32042129.
    Citations: 34     Fields:    Translation:HumansCells
  12. Brinda K, Boeva V, Kucherov G. RNF: a general framework to evaluate NGS read mappers. Bioinformatics. 2016 Jan 01; 32(1):136-9. PMID: 26353839.
    Citations: 3     Fields:    Translation:Humans
  13. Brinda K, Sykulski M, Kucherov G. Spaced seeds improve k-mer-based metagenomic classification. Bioinformatics. 2015 Nov 15; 31(22):3584-92. PMID: 26209798.
    Citations: 25     Fields:    Translation:Cells
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.