Harvard Catalyst Profiles

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Allison J. Lopatkin, Ph.D.


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. Yang JH, Wright SN, Hamblin M, McCloskey D, Alcantar MA, Schrübbers L, Lopatkin AJ, Satish S, Nili A, Palsson BO, Walker GC, Collins JJ. A White-Box Machine Learning Approach for Revealing Antibiotic Mechanisms of Action. Cell. 2019 May 30; 177(6):1649-1661.e9. PMID: 31080069.
  2. Stokes JM, Gutierrez A, Lopatkin AJ, Andrews IW, French S, Matic I, Brown ED, Collins JJ. A multiplexable assay for screening antibiotic lethality against drug-tolerant bacteria. Nat Methods. 2019 04; 16(4):303-306. PMID: 30858599.
  3. Wu F, Lopatkin AJ, Needs DA, Lee CT, Mukherjee S, You L. A unifying framework for interpreting and predicting mutualistic systems. Nat Commun. 2019 01 16; 10(1):242. PMID: 30651549.
    Citations:    Fields:    
  4. Meredith HR, Andreani V, Ma HR, Lopatkin AJ, Lee AJ, Anderson DJ, Batt G, You L. Applying ecological resistance and resilience to dissect bacterial antibiotic responses. Sci Adv. 2018 Dec; 4(12):eaau1873. PMID: 30525104.
  5. Lopatkin AJ, Meredith HR, Srimani JK, Pfeiffer C, Durrett R, You L. Persistence and reversal of plasmid-mediated antibiotic resistance. Nat Commun. 2017 11 22; 8(1):1689. PMID: 29162798.
    Citations: 6     Fields:    Translation:Cells
  6. Srimani JK, Huang S, Lopatkin AJ, You L. Drug detoxification dynamics explain the postantibiotic effect. Mol Syst Biol. 2017 10 23; 13(10):948. PMID: 29061668.
    Citations: 1     Fields:    Translation:Cells
  7. Wilson CE, Lopatkin AJ, Craddock TJ, Driscoll WW, Eldakar OT, Lopez JV, Smith RP. Cooperation and competition shape ecological resistance during periodic spatial disturbance of engineered bacteria. Sci Rep. 2017 03 27; 7(1):440. PMID: 28348396.
    Citations:    Fields:    Translation:CellsPHPublic Health
  8. Cao Y, Lopatkin A, You L. Elements of biological oscillations in time and space. Nat Struct Mol Biol. 2016 Dec 06; 23(12):1030-1034. PMID: 27922613.
    Citations: 1     Fields:    Translation:HumansAnimals
  9. Lopatkin AJ, Sysoeva TA, You L. Dissecting the effects of antibiotics on horizontal gene transfer: Analysis suggests a critical role of selection dynamics. Bioessays. 2016 12; 38(12):1283-1292. PMID: 27699821.
    Citations: 3     Fields:    Translation:Cells
  10. Lopatkin AJ, Huang S, Smith RP, Srimani JK, Sysoeva TA, Bewick S, Karig DK, You L. Antibiotics as a selective driver for conjugation dynamics. Nat Microbiol. 2016 04 11; 1(6):16044. PMID: 27572835.
    Citations: 14     Fields:    Translation:HumansCells
  11. Huang S, Srimani JK, Lee AJ, Zhang Y, Lopatkin AJ, Leong KW, You L. Dynamic control and quantification of bacterial population dynamics in droplets. Biomaterials. 2015 Aug; 61:239-45. PMID: 26005763.
    Citations: 3     Fields:    Translation:Cells
  12. Meredith HR, Lopatkin AJ, Anderson DJ, You L. Bacterial temporal dynamics enable optimal design of antibiotic treatment. PLoS Comput Biol. 2015 Apr; 11(4):e1004201. PMID: 25905796.
    Citations: 7     Fields:    
  13. Lee TJ, Wong J, Bae S, Lee AJ, Lopatkin A, Yuan F, You L. A power-law dependence of bacterial invasion on mammalian host receptors. PLoS Comput Biol. 2015 Apr; 11(4):e1004203. PMID: 25879937.
    Citations:    Fields:    Translation:HumansCells
  14. Meredith HR, Srimani JK, Lee AJ, Lopatkin AJ, You L. Collective antibiotic tolerance: mechanisms, dynamics and intervention. Nat Chem Biol. 2015 Mar; 11(3):182-8. PMID: 25689336.
    Citations: 13     Fields:    Translation:HumansAnimalsCells
  15. Lopatkin AJ, You L. Synthetic biology looks good on paper. Cell. 2014 Nov 06; 159(4):718-20. PMID: 25417149.
    Citations: 1     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.