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Insights into the host-pathogen interaction: C. albicans manipulation of macrophage pyroptosis.

O'Meara TR, Cowen LE.

Microb Cell. 2018 Nov 12;5(12):566-568. doi: 10.15698/mic2018.12.662.


Retraction Note: detangling PPI networks to uncover functionally meaningful clusters.

Hall-Swan S, Crawford J, Newman R, Cowen LJ.

BMC Syst Biol. 2018 Nov 19;12(1):113. doi: 10.1186/s12918-018-0641-3.


High-Throughput Screening Identifies Genes Required for Candida albicans Induction of Macrophage Pyroptosis.

O'Meara TR, Duah K, Guo CX, Maxson ME, Gaudet RG, Koselny K, Wellington M, Powers ME, MacAlpine J, O'Meara MJ, Veri AO, Grinstein S, Noble SM, Krysan D, Gray-Owen SD, Cowen LE.

MBio. 2018 Aug 21;9(4). pii: e01581-18. doi: 10.1128/mBio.01581-18.


Methodologies for in vitro and in vivo evaluation of efficacy of antifungal and antibiofilm agents and surface coatings against fungal biofilms.

Van Dijck P, Sjollema J, Cammue BP, Lagrou K, Berman J, d'Enfert C, Andes DR, Arendrup MC, Brakhage AA, Calderone R, Cantón E, Coenye T, Cos P, Cowen LE, Edgerton M, Espinel-Ingroff A, Filler SG, Ghannoum M, Gow NAR, Haas H, Jabra-Rizk MA, Johnson EM, Lockhart SR, Lopez-Ribot JL, Maertens J, Munro CA, Nett JE, Nobile CJ, Pfaller MA, Ramage G, Sanglard D, Sanguinetti M, Spriet I, Verweij PE, Warris A, Wauters J, Yeaman MR, Zaat SAJ, Thevissen K.

Microb Cell. 2018 Jun 14;5(7):300-326. doi: 10.15698/mic2018.07.638. Review.


Functional Genomic Screening Reveals Core Modulators of Echinocandin Stress Responses in Candida albicans.

Caplan T, Polvi EJ, Xie JL, Buckhalter S, Leach MD, Robbins N, Cowen LE.

Cell Rep. 2018 May 22;23(8):2292-2298. doi: 10.1016/j.celrep.2018.04.084.


Regulation of the heat shock transcription factor Hsf1 in fungi: implications for temperature-dependent virulence traits.

Veri AO, Robbins N, Cowen LE.

FEMS Yeast Res. 2018 Aug 1;18(5). doi: 10.1093/femsyr/foy041.


Global analysis of genetic circuitry and adaptive mechanisms enabling resistance to the azole antifungal drugs.

Mount HO, Revie NM, Todd RT, Anstett K, Collins C, Costanzo M, Boone C, Robbins N, Selmecki A, Cowen LE.

PLoS Genet. 2018 Apr 27;14(4):e1007319. doi: 10.1371/journal.pgen.1007319. eCollection 2018 Apr.


Tuning Hsf1 levels drives distinct fungal morphogenetic programs with depletion impairing Hsp90 function and overexpression expanding the target space.

Veri AO, Miao Z, Shapiro RS, Tebbji F, O'Meara TR, Kim SH, Colazo J, Tan K, Vyas VK, Whiteway M, Robbins N, Wong KH, Cowen LE.

PLoS Genet. 2018 Mar 28;14(3):e1007270. doi: 10.1371/journal.pgen.1007270. eCollection 2018 Mar.


Detangling PPI networks to uncover functionally meaningful clusters.

Hall-Swan S, Crawford J, Newman R, Cowen LJ.

BMC Syst Biol. 2018 Mar 21;12(Suppl 3):24. doi: 10.1186/s12918-018-0550-5. Retraction in: BMC Syst Biol. 2018 Nov 19;12(1):113.


Integrin-based diffusion barrier separates membrane domains enabling the formation of microbiostatic frustrated phagosomes.

Maxson ME, Naj X, O'Meara TR, Plumb JD, Cowen LE, Grinstein S.

Elife. 2018 Mar 19;7. pii: e34798. doi: 10.7554/eLife.34798.


Antifungal drug resistance: evolution, mechanisms and impact.

Revie NM, Iyer KR, Robbins N, Cowen LE.

Curr Opin Microbiol. 2018 Oct;45:70-76. doi: 10.1016/j.mib.2018.02.005. Epub 2018 Mar 13. Review.


Identification of nonsense-mediated mRNA decay pathway as a critical regulator of p53 isoform β.

Cowen LE, Tang Y.

Sci Rep. 2017 Dec 13;7(1):17535. doi: 10.1038/s41598-017-17283-4.


Ydj1 governs fungal morphogenesis and stress response, and facilitates mitochondrial protein import via Mas1 and Mas2.

Xie JL, Bohovych I, Wong EOY, Lambert JP, Gingras AC, Khalimonchuk O, Cowen LE, Leach MD.

Microb Cell. 2017 Oct 2;4(10):342-361. doi: 10.15698/mic2017.10.594.


The Candida albicans transcription factor Cas5 couples stress responses, drug resistance and cell cycle regulation.

Xie JL, Qin L, Miao Z, Grys BT, Diaz JC, Ting K, Krieger JR, Tong J, Tan K, Leach MD, Ketela T, Moran MF, Krysan DJ, Boone C, Andrews BJ, Selmecki A, Ho Wong K, Robbins N, Cowen LE.

Nat Commun. 2017 Sep 11;8(1):499. doi: 10.1038/s41467-017-00547-y.


Molecular Evolution of Antifungal Drug Resistance.

Robbins N, Caplan T, Cowen LE.

Annu Rev Microbiol. 2017 Sep 8;71:753-775. doi: 10.1146/annurev-micro-030117-020345. Review.


Stress Adaptation.

Brown AJP, Cowen LE, di Pietro A, Quinn J.

Microbiol Spectr. 2017 Jul;5(4). doi: 10.1128/microbiolspec.FUNK-0048-2016. Review.


Network propagation: a universal amplifier of genetic associations.

Cowen L, Ideker T, Raphael BJ, Sharan R.

Nat Rev Genet. 2017 Sep;18(9):551-562. doi: 10.1038/nrg.2017.38. Epub 2017 Jun 12. Review.


The Hsp90 Chaperone Network Modulates Candida Virulence Traits.

O'Meara TR, Robbins N, Cowen LE.

Trends Microbiol. 2017 Oct;25(10):809-819. doi: 10.1016/j.tim.2017.05.003. Epub 2017 May 23. Review.


Hidden Markov models for extended batch data.

Cowen LLE, Besbeas P, Morgan BJT, Schwarz CJ.

Biometrics. 2017 Dec;73(4):1321-1331. doi: 10.1111/biom.12701. Epub 2017 May 8.


Staurosporine Induces Filamentation in the Human Fungal Pathogen Candida albicans via Signaling through Cyr1 and Protein Kinase A.

Xie JL, O'Meara TR, Polvi EJ, Robbins N, Cowen LE.

mSphere. 2017 Mar 1;2(2). pii: e00056-17. doi: 10.1128/mSphere.00056-17. eCollection 2017 Mar-Apr.



Cao M, Cowen LJ.

Pac Symp Biocomput. 2017;22:15-26. doi: 10.1142/9789813207813_0003.


Functional Genomic Analysis of Candida albicans Adherence Reveals a Key Role for the Arp2/3 Complex in Cell Wall Remodelling and Biofilm Formation.

Lee JA, Robbins N, Xie JL, Ketela T, Cowen LE.

PLoS Genet. 2016 Nov 21;12(11):e1006452. doi: 10.1371/journal.pgen.1006452. eCollection 2016 Nov.


Extensive functional redundancy in the regulation of Candida albicans drug resistance and morphogenesis by lysine deacetylases Hos2, Hda1, Rpd3 and Rpd31.

Li X, Robbins N, O'Meara TR, Cowen LE.

Mol Microbiol. 2017 Feb;103(4):635-656. doi: 10.1111/mmi.13578. Epub 2016 Dec 14.


Candida albicans Is Resistant to Polyglutamine Aggregation and Toxicity.

Leach MD, Kim T, DiGregorio SE, Collins C, Zhang Z, Duennwald ML, Cowen LE.

G3 (Bethesda). 2017 Jan 5;7(1):95-108. doi: 10.1534/g3.116.035675.


Beauvericin Potentiates Azole Activity via Inhibition of Multidrug Efflux, Blocks Candida albicans Morphogenesis, and Is Effluxed via Yor1 and Circuitry Controlled by Zcf29.

Shekhar-Guturja T, Tebung WA, Mount H, Liu N, Köhler JR, Whiteway M, Cowen LE.

Antimicrob Agents Chemother. 2016 Nov 21;60(12):7468-7480. Print 2016 Dec.


Signaling through Lrg1, Rho1 and Pkc1 Governs Candida albicans Morphogenesis in Response to Diverse Cues.

Xie JL, Grahl N, Sless T, Leach MD, Kim SH, Hogan DA, Robbins N, Cowen LE.

PLoS Genet. 2016 Oct 27;12(10):e1006405. doi: 10.1371/journal.pgen.1006405. eCollection 2016 Oct.


Antifungal Drugs: The Current Armamentarium and Development of New Agents.

Robbins N, Wright GD, Cowen LE.

Microbiol Spectr. 2016 Oct;4(5). doi: 10.1128/microbiolspec.FUNK-0002-2016. Review.


Metal Chelation as a Powerful Strategy to Probe Cellular Circuitry Governing Fungal Drug Resistance and Morphogenesis.

Polvi EJ, Averette AF, Lee SC, Kim T, Bahn YS, Veri AO, Robbins N, Heitman J, Cowen LE.

PLoS Genet. 2016 Oct 3;12(10):e1006350. doi: 10.1371/journal.pgen.1006350. eCollection 2016 Oct.


Dual action antifungal small molecule modulates multidrug efflux and TOR signaling.

Shekhar-Guturja T, Gunaherath GM, Wijeratne EM, Lambert JP, Averette AF, Lee SC, Kim T, Bahn YS, Tripodi F, Ammar R, Döhl K, Niewola-Staszkowska K, Schmitt L, Loewith RJ, Roth FP, Sanglard D, Andes D, Nislow C, Coccetti P, Gingras AC, Heitman J, Gunatilaka AA, Cowen LE.

Nat Chem Biol. 2016 Oct;12(10):867-75. doi: 10.1038/nchembio.2165. Epub 2016 Aug 29.


SMG7 is a critical regulator of p53 stability and function in DNA damage stress response.

Luo H, Cowen L, Yu G, Jiang W, Tang Y.

Cell Discov. 2016 Jan 19;2:15042. doi: 10.1038/celldisc.2015.42. eCollection 2016.


Mapping the Hsp90 Genetic Network Reveals Ergosterol Biosynthesis and Phosphatidylinositol-4-Kinase Signaling as Core Circuitry Governing Cellular Stress.

O'Meara TR, Veri AO, Polvi EJ, Li X, Valaei SF, Diezmann S, Cowen LE.

PLoS Genet. 2016 Jun 24;12(6):e1006142. doi: 10.1371/journal.pgen.1006142. eCollection 2016 Jun.


Hsf1 and Hsp90 orchestrate temperature-dependent global transcriptional remodelling and chromatin architecture in Candida albicans.

Leach MD, Farrer RA, Tan K, Miao Z, Walker LA, Cuomo CA, Wheeler RT, Brown AJ, Wong KH, Cowen LE.

Nat Commun. 2016 May 26;7:11704. doi: 10.1038/ncomms11704.


Estimating surface NO2 and SO2 mixing ratios from fast-response total column observations and potential application to geostationary missions.

Knepp T, Pippin M, Crawford J, Chen G, Szykman J, Long R, Cowen L, Cede A, Abuhassan N, Herman J, Delgado R, Compton J, Berkoff T, Fishman J, Martins D, Stauffer R, Thompson AM, Weinheimer A, Knapp D, Montzka D, Lenschow D, Neil D.

J Atmos Chem. 2015;72(3-4):261-286. Epub 2013 May 25.


Using combination therapy to thwart drug resistance.

Hill JA, Cowen LE.

Future Microbiol. 2015;10(11):1719-26. doi: 10.2217/fmb.15.68. Review.


Global Analysis of the Fungal Microbiome in Cystic Fibrosis Patients Reveals Loss of Function of the Transcriptional Repressor Nrg1 as a Mechanism of Pathogen Adaptation.

Kim SH, Clark ST, Surendra A, Copeland JK, Wang PW, Ammar R, Collins C, Tullis DE, Nislow C, Hwang DM, Guttman DS, Cowen LE.

PLoS Pathog. 2015 Nov 20;11(11):e1005308. doi: 10.1371/journal.ppat.1005308. eCollection 2015 Nov.


Functional Divergence of Hsp90 Genetic Interactions in Biofilm and Planktonic Cellular States.

Diezmann S, Leach MD, Cowen LE.

PLoS One. 2015 Sep 14;10(9):e0137947. doi: 10.1371/journal.pone.0137947. eCollection 2015.


MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search.

Daniels NM, Gallant A, Ramsey N, Cowen LJ.

IEEE/ACM Trans Comput Biol Bioinform. 2015 Jan-Feb;12(1):4-16. doi: 10.1109/TCBB.2014.2344682.


Hyponatremia Is Associated With Increased Osteoporosis and Bone Fractures in a Large US Health System Population.

Usala RL, Fernandez SJ, Mete M, Cowen L, Shara NM, Barsony J, Verbalis JG.

J Clin Endocrinol Metab. 2015 Aug;100(8):3021-31. doi: 10.1210/jc.2015-1261. Epub 2015 Jun 17.


Global analysis of fungal morphology exposes mechanisms of host cell escape.

O'Meara TR, Veri AO, Ketela T, Jiang B, Roemer T, Cowen LE.

Nat Commun. 2015 Mar 31;6:6741. doi: 10.1038/ncomms7741.


Opportunistic yeast pathogens: reservoirs, virulence mechanisms, and therapeutic strategies.

Polvi EJ, Li X, O'Meara TR, Leach MD, Cowen LE.

Cell Mol Life Sci. 2015 Jun;72(12):2261-87. doi: 10.1007/s00018-015-1860-z. Epub 2015 Feb 21. Review.


Fitness Trade-Offs Associated with the Evolution of Resistance to Antifungal Drug Combinations.

Hill JA, O'Meara TR, Cowen LE.

Cell Rep. 2015 Feb 4. pii: S2211-1247(15)00010-8. doi: 10.1016/j.celrep.2015.01.009. [Epub ahead of print]


Mechanisms of Antifungal Drug Resistance.

Cowen LE, Sanglard D, Howard SJ, Rogers PD, Perlin DS.

Cold Spring Harb Perspect Med. 2014 Nov 10;5(7):a019752. doi: 10.1101/cshperspect.a019752. Review.


Membrane fluidity and temperature sensing are coupled via circuitry comprised of Ole1, Rsp5, and Hsf1 in Candida albicans.

Leach MD, Cowen LE.

Eukaryot Cell. 2014 Aug;13(8):1077-84. doi: 10.1128/EC.00138-14. Epub 2014 Jun 20.


New directions for diffusion-based network prediction of protein function: incorporating pathways with confidence.

Cao M, Pietras CM, Feng X, Doroschak KJ, Schaffner T, Park J, Zhang H, Cowen LJ, Hescott BJ.

Bioinformatics. 2014 Jun 15;30(12):i219-27. doi: 10.1093/bioinformatics/btu263.


Elucidating drug resistance in human fungal pathogens.

Xie JL, Polvi EJ, Shekhar-Guturja T, Cowen LE.

Future Microbiol. 2014;9(4):523-42. doi: 10.2217/fmb.14.18. Review.


Estimating the number of injection drug users in greater Victoria, Canada using capture-recapture methods.

Xu Y, Fyfe M, Walker L, Cowen LL.

Harm Reduct J. 2014 Mar 3;11:9. doi: 10.1186/1477-7517-11-9.


Progress and prospects for targeting Hsp90 to treat fungal infections.

Veri A, Cowen LE.

Parasitology. 2014 Aug;141(9):1127-37. doi: 10.1017/S0031182013002072. Epub 2014 Feb 20.


A comparison of abundance estimates from extended batch-marking and Jolly-Seber-type experiments.

Cowen LL, Besbeas P, Morgan BJ, Schwarz CJ.

Ecol Evol. 2014 Jan;4(2):210-8. doi: 10.1002/ece3.899. Epub 2013 Dec 23.


Hsp90-dependent regulatory circuitry controlling temperature-dependent fungal development and virulence.

O'Meara TR, Cowen LE.

Cell Microbiol. 2014 Apr;16(4):473-81. doi: 10.1111/cmi.12266. Epub 2014 Feb 14. Review.


Going the distance for protein function prediction: a new distance metric for protein interaction networks.

Cao M, Zhang H, Park J, Daniels NM, Crovella ME, Cowen LJ, Hescott B.

PLoS One. 2013 Oct 23;8(10):e76339. doi: 10.1371/journal.pone.0076339. eCollection 2013.

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