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Thinking Outside the Box (and Arrow): Current Themes in Striatal Dysfunction in Movement Disorders.

Plotkin JL, Goldberg JA.

Neuroscientist. 2018 Oct 31:1073858418807887. doi: 10.1177/1073858418807887. [Epub ahead of print]


Selection for Protein Stability Enriches for Epistatic Interactions.

Posfai A, Zhou J, Plotkin JB, Kinney JB, McCandlish DM.

Genes (Basel). 2018 Aug 21;9(9). pii: E423. doi: 10.3390/genes9090423.


Codon usage influences fitness through RNA toxicity.

Mittal P, Brindle J, Stephen J, Plotkin JB, Kudla G.

Proc Natl Acad Sci U S A. 2018 Aug 21;115(34):8639-8644. doi: 10.1073/pnas.1810022115. Epub 2018 Aug 6. Erratum in: Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):E9753.


Beyond words: What can help first year medical students practice effective empathic communication?

Plotkin JB, Shochet R.

Patient Educ Couns. 2018 Nov;101(11):2005-2010. doi: 10.1016/j.pec.2018.07.013. Epub 2018 Jul 19.


Inferring the shape of global epistasis.

Otwinowski J, McCandlish DM, Plotkin JB.

Proc Natl Acad Sci U S A. 2018 Aug 7;115(32):E7550-E7558. doi: 10.1073/pnas.1804015115. Epub 2018 Jul 23.


Phenotypic plasticity promotes recombination and gene clustering in periodic environments.

Gulisija D, Plotkin JB.

Nat Commun. 2017 Dec 11;8(1):2041. doi: 10.1038/s41467-017-01952-z.


Detecting evolutionary forces in language change.

Newberry MG, Ahern CA, Clark R, Plotkin JB.

Nature. 2017 Nov 9;551(7679):223-226. doi: 10.1038/nature24455. Epub 2017 Nov 1.


riboviz: analysis and visualization of ribosome profiling datasets.

Carja O, Xing T, Wallace EWJ, Plotkin JB, Shah P.

BMC Bioinformatics. 2017 Oct 25;18(1):461. doi: 10.1186/s12859-017-1873-8.


Molecular evolution: No escape from the tangled bank.

Plotkin JB.

Nature. 2017 Nov 2;551(7678):42-43. doi: 10.1038/nature24152. Epub 2017 Oct 18. No abstract available.


The evolutionary advantage of heritable phenotypic heterogeneity.

Carja O, Plotkin JB.

Sci Rep. 2017 Jul 11;7(1):5090. doi: 10.1038/s41598-017-05214-2.


NF-κB inhibitors that prevent foam cell formation and atherosclerotic plaque accumulation.

Plotkin JD, Elias MG, Dellinger AL, Kepley CL.

Nanomedicine. 2017 Aug;13(6):2037-2048. doi: 10.1016/j.nano.2017.04.013. Epub 2017 Apr 27.


An MHC-restricted antibody-based chimeric antigen receptor requires TCR-like affinity to maintain antigen specificity.

Maus MV, Plotkin J, Jakka G, Stewart-Jones G, Rivière I, Merghoub T, Wolchok J, Renner C, Sadelain M.

Mol Ther Oncolytics. 2017 Jan 11;3:1-9. doi: 10.1038/mto.2016.23. eCollection 2016.


Neurotrophin biology at NGF 2016: From fundamental science to clinical applications.

Plotkin JL, Wu C.

Int J Dev Neurosci. 2017 Feb;56:27-34. doi: 10.1016/j.ijdevneu.2016.11.005. Epub 2016 Nov 22. Review. No abstract available.


Evolutionary consequences of behavioral diversity.

Stewart AJ, Parsons TL, Plotkin JB.

Proc Natl Acad Sci U S A. 2016 Nov 8;113(45):E7003-E7009. doi: 10.1073/pnas.1608990113. Epub 2016 Oct 24.


Assortative mating can impede or facilitate fixation of underdominant alleles.

Newberry MG, McCandlish DM, Plotkin JB.

Theor Popul Biol. 2016 Dec;112:14-21. doi: 10.1016/j.tpb.2016.07.003. Epub 2016 Aug 3.


Host-Pathogen Coevolution and the Emergence of Broadly Neutralizing Antibodies in Chronic Infections.

Nourmohammad A, Otwinowski J, Plotkin JB.

PLoS Genet. 2016 Jul 21;12(7):e1006171. doi: 10.1371/journal.pgen.1006171. eCollection 2016 Jul.


M4 Muscarinic Receptor Signaling Ameliorates Striatal Plasticity Deficits in Models of L-DOPA-Induced Dyskinesia.

Shen W, Plotkin JL, Francardo V, Ko WK, Xie Z, Li Q, Fieblinger T, Wess J, Neubig RR, Lindsley CW, Conn PJ, Greengard P, Bezard E, Cenci MA, Surmeier DJ.

Neuron. 2016 Jun 1;90(5):1139. doi: 10.1016/j.neuron.2016.05.017. No abstract available.


Small groups and long memories promote cooperation.

Stewart AJ, Plotkin JB.

Sci Rep. 2016 Jun 1;6:26889. doi: 10.1038/srep26889.


Epistasis and the Dynamics of Reversion in Molecular Evolution.

McCandlish DM, Shah P, Plotkin JB.

Genetics. 2016 Jul;203(3):1335-51. doi: 10.1534/genetics.116.188961. Epub 2016 May 18.


Transcriptional errors and the drift barrier.

McCandlish DM, Plotkin JB.

Proc Natl Acad Sci U S A. 2016 Mar 22;113(12):3136-8. doi: 10.1073/pnas.1601785113. Epub 2016 Mar 10. No abstract available.


Improved Ribosome-Footprint and mRNA Measurements Provide Insights into Dynamics and Regulation of Yeast Translation.

Weinberg DE, Shah P, Eichhorn SW, Hussmann JA, Plotkin JB, Bartel DP.

Cell Rep. 2016 Feb 23;14(7):1787-1799. doi: 10.1016/j.celrep.2016.01.043. Epub 2016 Feb 11.


Phenotypic Plasticity Promotes Balanced Polymorphism in Periodic Environments by a Genomic Storage Effect.

Gulisija D, Kim Y, Plotkin JB.

Genetics. 2016 Apr;202(4):1437-48. doi: 10.1534/genetics.115.185702. Epub 2016 Feb 8.


M4 Muscarinic Receptor Signaling Ameliorates Striatal Plasticity Deficits in Models of L-DOPA-Induced Dyskinesia.

Shen W, Plotkin JL, Francardo V, Ko WK, Xie Z, Li Q, Fieblinger T, Wess J, Neubig RR, Lindsley CW, Conn PJ, Greengard P, Bezard E, Cenci MA, Surmeier DJ.

Neuron. 2015 Nov 18;88(4):762-73. doi: 10.1016/j.neuron.2015.10.039.


Interneuronal Nitric Oxide Signaling Mediates Post-synaptic Long-Term Depression of Striatal Glutamatergic Synapses.

Rafalovich IV, Melendez AE, Plotkin JL, Tanimura A, Zhai S, Surmeier DJ.

Cell Rep. 2015 Nov 17;13(7):1336-1342. doi: 10.1016/j.celrep.2015.10.015. Epub 2015 Nov 5.


Regulated CRISPR Modules Exploit a Dual Defense Strategy of Restriction and Abortive Infection in a Model of Prokaryote-Phage Coevolution.

Kumar MS, Plotkin JB, Hannenhalli S.

PLoS Comput Biol. 2015 Nov 6;11(11):e1004603. doi: 10.1371/journal.pcbi.1004603. eCollection 2015 Nov.


Structural Design of Engineered Costimulation Determines Tumor Rejection Kinetics and Persistence of CAR T Cells.

Zhao Z, Condomines M, van der Stegen SJC, Perna F, Kloss CC, Gunset G, Plotkin J, Sadelain M.

Cancer Cell. 2015 Oct 12;28(4):415-428. doi: 10.1016/j.ccell.2015.09.004.


Coordinated Evolution of Influenza A Surface Proteins.

Neverov AD, Kryazhimskiy S, Plotkin JB, Bazykin GA.

PLoS Genet. 2015 Aug 6;11(8):e1005404. doi: 10.1371/journal.pgen.1005404. eCollection 2015 Aug.


Detecting epistasis from an ensemble of adapting populations.

McCandlish DM, Otwinowski J, Plotkin JB.

Evolution. 2015 Sep;69(9):2359-70. doi: 10.1111/evo.12735. Epub 2015 Aug 20.


Tumor-Targeted Human T Cells Expressing CD28-Based Chimeric Antigen Receptors Circumvent CTLA-4 Inhibition.

Condomines M, Arnason J, Benjamin R, Gunset G, Plotkin J, Sadelain M.

PLoS One. 2015 Jun 25;10(6):e0130518. doi: 10.1371/journal.pone.0130518. eCollection 2015.


Contingency and entrenchment in protein evolution under purifying selection.

Shah P, McCandlish DM, Plotkin JB.

Proc Natl Acad Sci U S A. 2015 Jun 23;112(25):E3226-35. doi: 10.1073/pnas.1412933112. Epub 2015 Jun 8.


Hemodynamic monitoring during liver transplantation: A state of the art review.

Rudnick MR, Marchi LD, Plotkin JS.

World J Hepatol. 2015 Jun 8;7(10):1302-11. doi: 10.4254/wjh.v7.i10.1302. Review.


Corticostriatal synaptic adaptations in Huntington's disease.

Plotkin JL, Surmeier DJ.

Curr Opin Neurobiol. 2015 Aug;33:53-62. doi: 10.1016/j.conb.2015.01.020. Epub 2015 Feb 18. Review.


Experimentally guided models reveal replication principles that shape the mutation distribution of RNA viruses.

Schulte MB, Draghi JA, Plotkin JB, Andino R.

Elife. 2015 Jan 30;4. doi: 10.7554/eLife.03753.


Formal properties of the probability of fixation: identities, inequalities and approximations.

McCandlish DM, Epstein CL, Plotkin JB.

Theor Popul Biol. 2015 Feb;99:98-113. doi: 10.1016/j.tpb.2014.11.004. Epub 2014 Nov 20.


Collapse of cooperation in evolving games.

Stewart AJ, Plotkin JB.

Proc Natl Acad Sci U S A. 2014 Dec 9;111(49):17558-63. doi: 10.1073/pnas.1408618111. Epub 2014 Nov 24.


Regional delivery of mesothelin-targeted CAR T cell therapy generates potent and long-lasting CD4-dependent tumor immunity.

Adusumilli PS, Cherkassky L, Villena-Vargas J, Colovos C, Servais E, Plotkin J, Jones DR, Sadelain M.

Sci Transl Med. 2014 Nov 5;6(261):261ra151. doi: 10.1126/scitranslmed.3010162.


Cell type-specific plasticity of striatal projection neurons in parkinsonism and L-DOPA-induced dyskinesia.

Fieblinger T, Graves SM, Sebel LE, Alcacer C, Plotkin JL, Gertler TS, Chan CS, Heiman M, Greengard P, Cenci MA, Surmeier DJ.

Nat Commun. 2014 Oct 31;5:5316. doi: 10.1038/ncomms6316.


Multi-stakeholder collaboration in the redesign of family-centered rounds process.

Xie A, Carayon P, Cartmill R, Li Y, Cox ED, Plotkin JA, Kelly MM.

Appl Ergon. 2015 Jan;46 Pt A:115-23. doi: 10.1016/j.apergo.2014.07.011. Epub 2014 Aug 12.


Multiphoton imaging approaches for studying striatal dendritic excitability.

Plotkin JL, Surmeier DJ.

Methods Mol Biol. 2014;1183:171-82. doi: 10.1007/978-1-4939-1096-0_10.


Impaired TrkB receptor signaling underlies corticostriatal dysfunction in Huntington's disease.

Plotkin JL, Day M, Peterson JD, Xie Z, Kress GJ, Rafalovich I, Kondapalli J, Gertler TS, Flajolet M, Greengard P, Stavarache M, Kaplitt MG, Rosinski J, Chan CS, Surmeier DJ.

Neuron. 2014 Jul 2;83(1):178-88. doi: 10.1016/j.neuron.2014.05.032.


Sharing life-altering information: development of pediatric hospital guidelines and team training.

Wolfe AD, Frierdich SA, Wish J, Kilgore-Carlin J, Plotkin JA, Hoover-Regan M.

J Palliat Med. 2014 Sep;17(9):1011-8. doi: 10.1089/jpm.2013.0620. Epub 2014 Jun 27.


Inferring fitness landscapes by regression produces biased estimates of epistasis.

Otwinowski J, Plotkin JB.

Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):E2301-9. doi: 10.1073/pnas.1400849111. Epub 2014 May 19.


The equilibrium allele frequency distribution for a population with reproductive skew.

Der R, Plotkin JB.

Genetics. 2014 Apr;196(4):1199-216. doi: 10.1534/genetics.114.161422. Epub 2014 Jan 28.


The inevitability of unconditionally deleterious substitutions during adaptation.

McCandlish DM, Epstein CL, Plotkin JB.

Evolution. 2014 May;68(5):1351-64. doi: 10.1111/evo.12350. Epub 2014 Mar 4.


Impaired striatal function in Huntington's disease is due to aberrant p75NTR signaling.

Plotkin JL, Surmeier DJ.

Rare Dis. 2014 Nov 3;2(1):e968482. doi: 10.4161/2167549X.2014.968482. eCollection 2014.


Identifying signatures of selection in genetic time series.

Feder AF, Kryazhimskiy S, Plotkin JB.

Genetics. 2014 Feb;196(2):509-22. doi: 10.1534/genetics.113.158220. Epub 2013 Dec 6.


MicroRNA-128 governs neuronal excitability and motor behavior in mice.

Tan CL, Plotkin JL, Venø MT, von Schimmelmann M, Feinberg P, Mann S, Handler A, Kjems J, Surmeier DJ, O'Carroll D, Greengard P, Schaefer A.

Science. 2013 Dec 6;342(6163):1254-8. doi: 10.1126/science.1244193.


Selection biases the prevalence and type of epistasis along adaptive trajectories.

Draghi JA, Plotkin JB.

Evolution. 2013 Nov;67(11):3120-31. doi: 10.1111/evo.12192. Epub 2013 Jul 4.


From extortion to generosity, evolution in the Iterated Prisoner's Dilemma.

Stewart AJ, Plotkin JB.

Proc Natl Acad Sci U S A. 2013 Sep 17;110(38):15348-53. doi: 10.1073/pnas.1306246110. Epub 2013 Sep 3.

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