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Items: 13

1.

A White-Box Machine Learning Approach for Revealing Antibiotic Mechanisms of Action.

Yang JH, Wright SN, Hamblin M, McCloskey D, Alcantar MA, Schr├╝bbers L, Lopatkin AJ, Satish S, Nili A, Palsson BO, Walker GC, Collins JJ.

Cell. 2019 May 30;177(6):1649-1661.e9. doi: 10.1016/j.cell.2019.04.016. Epub 2019 May 9.

PMID:
31080069
2.

A multiplexable assay for screening antibiotic lethality against drug-tolerant bacteria.

Stokes JM, Gutierrez A, Lopatkin AJ, Andrews IW, French S, Matic I, Brown ED, Collins JJ.

Nat Methods. 2019 Apr;16(4):303-306. doi: 10.1038/s41592-019-0333-y. Epub 2019 Mar 11.

PMID:
30858599
3.

A unifying framework for interpreting and predicting mutualistic systems.

Wu F, Lopatkin AJ, Needs DA, Lee CT, Mukherjee S, You L.

Nat Commun. 2019 Jan 16;10(1):242. doi: 10.1038/s41467-018-08188-5.

4.

Applying ecological resistance and resilience to dissect bacterial antibiotic responses.

Meredith HR, Andreani V, Ma HR, Lopatkin AJ, Lee AJ, Anderson DJ, Batt G, You L.

Sci Adv. 2018 Dec 5;4(12):eaau1873. doi: 10.1126/sciadv.aau1873. eCollection 2018 Dec.

5.

Persistence and reversal of plasmid-mediated antibiotic resistance.

Lopatkin AJ, Meredith HR, Srimani JK, Pfeiffer C, Durrett R, You L.

Nat Commun. 2017 Nov 22;8(1):1689. doi: 10.1038/s41467-017-01532-1.

6.

Drug detoxification dynamics explain the postantibiotic effect.

Srimani JK, Huang S, Lopatkin AJ, You L.

Mol Syst Biol. 2017 Oct 23;13(10):948. doi: 10.15252/msb.20177723.

7.

Cooperation and competition shape ecological resistance during periodic spatial disturbance of engineered bacteria.

Wilson CE, Lopatkin AJ, Craddock TJ, Driscoll WW, Eldakar OT, Lopez JV, Smith RP.

Sci Rep. 2017 Mar 27;7(1):440. doi: 10.1038/s41598-017-00588-9.

8.

Dissecting the effects of antibiotics on horizontal gene transfer: Analysis suggests a critical role of selection dynamics.

Lopatkin AJ, Sysoeva TA, You L.

Bioessays. 2016 Dec;38(12):1283-1292. doi: 10.1002/bies.201600133. Epub 2016 Oct 4. Review.

9.

Antibiotics as a selective driver for conjugation dynamics.

Lopatkin AJ, Huang S, Smith RP, Srimani JK, Sysoeva TA, Bewick S, Karig DK, You L.

Nat Microbiol. 2016 Apr 11;1(6):16044. doi: 10.1038/nmicrobiol.2016.44.

10.

Dynamic control and quantification of bacterial population dynamics in droplets.

Huang S, Srimani JK, Lee AJ, Zhang Y, Lopatkin AJ, Leong KW, You L.

Biomaterials. 2015 Aug;61:239-45. doi: 10.1016/j.biomaterials.2015.05.038. Epub 2015 May 19.

11.

Bacterial temporal dynamics enable optimal design of antibiotic treatment.

Meredith HR, Lopatkin AJ, Anderson DJ, You L.

PLoS Comput Biol. 2015 Apr 23;11(4):e1004201. doi: 10.1371/journal.pcbi.1004201. eCollection 2015 Apr.

12.

Collective antibiotic tolerance: mechanisms, dynamics and intervention.

Meredith HR, Srimani JK, Lee AJ, Lopatkin AJ, You L.

Nat Chem Biol. 2015 Mar;11(3):182-8. doi: 10.1038/nchembio.1754. Epub 2015 Feb 17. Review.

13.

Synthetic biology looks good on paper.

Lopatkin AJ, You L.

Cell. 2014 Nov 6;159(4):718-20. doi: 10.1016/j.cell.2014.10.003. Epub 2014 Oct 24.

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