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A New Tool for Inducible Gene Expression in Caenorhabditis elegans.

Monsalve GC, Yamamoto KR, Ward JD.

Genetics. 2019 Feb;211(2):419-430. doi: 10.1534/genetics.118.301705. Epub 2018 Nov 30.


Author Correction: Metabolic gatekeeper function of B-lymphoid transcription factors.

Chan LN, Chen Z, Braas D, Lee JW, Xiao G, Geng H, Cosgun KN, Hurtz C, Shojaee S, Cazzaniga V, Schjerven H, Ernst T, Hochhaus A, Kornblau SM, Konopleva M, Pufall MA, Cazzaniga G, Liu GJ, Milne TA, Koeffler HP, Ross TS, Sánchez-García I, Borkhardt A, Yamamoto KR, Dickins RA, Graeber TG, Müschen M.

Nature. 2018 Jun;558(7711):E5. doi: 10.1038/s41586-018-0164-5.


Internship Experiences Contribute to Confident Career Decision Making for Doctoral Students in the Life Sciences.

Schnoes AM, Caliendo A, Morand J, Dillinger T, Naffziger-Hirsch M, Moses B, Gibeling JC, Yamamoto KR, Lindstaedt B, McGee R, O'Brien TC.

CBE Life Sci Educ. 2018 Spring;17(1). pii: ar16. doi: 10.1187/cbe.17-08-0164.


Metabolic gatekeeper function of B-lymphoid transcription factors.

Chan LN, Chen Z, Braas D, Lee JW, Xiao G, Geng H, Cosgun KN, Hurtz C, Shojaee S, Cazzaniga V, Schjerven H, Ernst T, Hochhaus A, Kornblau SM, Konopleva M, Pufall MA, Cazzaniga G, Liu GJ, Milne TA, Koeffler HP, Ross TS, Sánchez-García I, Borkhardt A, Yamamoto KR, Dickins RA, Graeber TG, Müschen M.

Nature. 2017 Feb 23;542(7642):479-483. doi: 10.1038/nature21076. Epub 2017 Feb 13. Erratum in: Nature. 2018 Jun;558(7711):E5.


Glucocorticoid receptor control of transcription: precision and plasticity via allostery.

Weikum ER, Knuesel MT, Ortlund EA, Yamamoto KR.

Nat Rev Mol Cell Biol. 2017 Mar;18(3):159-174. doi: 10.1038/nrm.2016.152. Epub 2017 Jan 5. Review.


Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation.

Love MI, Huska MR, Jurk M, Schöpflin R, Starick SR, Schwahn K, Cooper SB, Yamamoto KR, Thomas-Chollier M, Vingron M, Meijsing SH.

Nucleic Acids Res. 2017 Feb 28;45(4):1805-1819. doi: 10.1093/nar/gkw1163.


Science as a Way of Knowing: From Protein Machines to Evidence-Based Decisions.

Walter P, Yamamoto KR.

Cell. 2016 Sep 22;167(1):16-19. doi: 10.1016/j.cell.2016.08.049. Epub 2016 Sep 13.


Nuclear hormone receptors as mediators of metabolic adaptability following reproductive perturbations.

Ratnappan R, Ward JD, Yamamoto KR, Ghazi A.

Worm. 2016 Feb 18;5(1):e1151609. doi: 10.1080/21624054.2016.1151609. eCollection 2016 Jan-Mar.


Opposing Chromatin Signals Direct and Regulate the Activity of Lysine Demethylase 4C (KDM4C).

Pack LR, Yamamoto KR, Fujimori DG.

J Biol Chem. 2016 Mar 18;291(12):6060-70. doi: 10.1074/jbc.M115.696864. Epub 2016 Jan 8.


Precision medicine: Beyond the inflection point.

Hawgood S, Hook-Barnard IG, O'Brien TC, Yamamoto KR.

Sci Transl Med. 2015 Aug 12;7(300):300ps17. doi: 10.1126/scitranslmed.aaa9970. Review.


Regulatory Actions of Glucocorticoid Hormones: From Organisms to Mechanisms.

Granner DK, Wang JC, Yamamoto KR.

Adv Exp Med Biol. 2015;872:3-31. doi: 10.1007/978-1-4939-2895-8_1. Review.


Biotechnology. A prudent path forward for genomic engineering and germline gene modification.

Baltimore D, Berg P, Botchan M, Carroll D, Charo RA, Church G, Corn JE, Daley GQ, Doudna JA, Fenner M, Greely HT, Jinek M, Martin GS, Penhoet E, Puck J, Sternberg SH, Weissman JS, Yamamoto KR.

Science. 2015 Apr 3;348(6230):36-8. doi: 10.1126/science.aab1028. Epub 2015 Mar 19. No abstract available.


Germline signals deploy NHR-49 to modulate fatty-acid β-oxidation and desaturation in somatic tissues of C. elegans.

Ratnappan R, Amrit FR, Chen SW, Gill H, Holden K, Ward J, Yamamoto KR, Olsen CP, Ghazi A.

PLoS Genet. 2014 Dec 4;10(12):e1004829. doi: 10.1371/journal.pgen.1004829. eCollection 2014 Dec.


SUMO as a nuclear hormone receptor effector: New insights into combinatorial transcriptional regulation.

Ward JD, Yamamoto KR, Asahina M.

Worm. 2014 May 23;3:e29317. doi: 10.4161/worm.29317. eCollection 2014.


Glucocorticoid receptor binds half sites as a monomer and regulates specific target genes.

Schiller BJ, Chodankar R, Watson LC, Stallcup MR, Yamamoto KR.

Genome Biol. 2014 Jul 31;15(7):418. doi: 10.1186/s13059-014-0418-y.


Defects in the C. elegans acyl-CoA synthase, acs-3, and nuclear hormone receptor, nhr-25, cause sensitivity to distinct, but overlapping stresses.

Ward JD, Mullaney B, Schiller BJ, He LD, Petnic SE, Couillault C, Pujol N, Bernal TU, Van Gilst MR, Ashrafi K, Ewbank JJ, Yamamoto KR.

PLoS One. 2014 Mar 20;9(3):e92552. doi: 10.1371/journal.pone.0092552. eCollection 2014.


Hic-5 is a transcription coregulator that acts before and/or after glucocorticoid receptor genome occupancy in a gene-selective manner.

Chodankar R, Wu DY, Schiller BJ, Yamamoto KR, Stallcup MR.

Proc Natl Acad Sci U S A. 2014 Mar 18;111(11):4007-12. doi: 10.1073/pnas.1400522111. Epub 2014 Mar 3.


Sumoylated NHR-25/NR5A regulates cell fate during C. elegans vulval development.

Ward JD, Bojanala N, Bernal T, Ashrafi K, Asahina M, Yamamoto KR.

PLoS Genet. 2013;9(12):e1003992. doi: 10.1371/journal.pgen.1003992. Epub 2013 Dec 12.


Dextran-functionalized magnetic fluid mediating magnetohyperthermia for treatment of Ehrlich-solid-tumor-bearing mice: toxicological and histopathological evaluations.

Miranda-Vilela AL, Yamamoto KR, Miranda KL, Matos BN, de Almeida MC, Longo JP, de Souza Filho J, Fernandes JM, Sartoratto PP, Lacava ZG.

Tumour Biol. 2014 Apr;35(4):3391-403. doi: 10.1007/s13277-013-1447-y. Epub 2013 Dec 1.


A naturally occurring insertion of a single amino acid rewires transcriptional regulation by glucocorticoid receptor isoforms.

Thomas-Chollier M, Watson LC, Cooper SB, Pufall MA, Liu JS, Borzym K, Vingron M, Yamamoto KR, Meijsing SH.

Proc Natl Acad Sci U S A. 2013 Oct 29;110(44):17826-31. doi: 10.1073/pnas.1316235110. Epub 2013 Oct 14.


The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals.

Watson LC, Kuchenbecker KM, Schiller BJ, Gross JD, Pufall MA, Yamamoto KR.

Nat Struct Mol Biol. 2013 Jul;20(7):876-83. doi: 10.1038/nsmb.2595. Epub 2013 Jun 2.


Incoherent feed-forward regulatory logic underpinning glucocorticoid receptor action.

Chen SH, Masuno K, Cooper SB, Yamamoto KR.

Proc Natl Acad Sci U S A. 2013 Jan 29;110(5):1964-9. doi: 10.1073/pnas.1216108110. Epub 2013 Jan 10.


New and improved proteomics technologies for understanding complex biological systems: addressing a grand challenge in the life sciences.

Hood LE, Omenn GS, Moritz RL, Aebersold R, Yamamoto KR, Amos M, Hunter-Cevera J, Locascio L; Workshop Participants.

Proteomics. 2012 Sep;12(18):2773-83. doi: 10.1002/pmic.201270086.


An affective disorder in zebrafish with mutation of the glucocorticoid receptor.

Ziv L, Muto A, Schoonheim PJ, Meijsing SH, Strasser D, Ingraham HA, Schaaf MJ, Yamamoto KR, Baier H.

Mol Psychiatry. 2013 Jun;18(6):681-91. doi: 10.1038/mp.2012.64. Epub 2012 May 29.


Leveraging crowdsourcing to facilitate the discovery of new medicines.

Norman TC, Bountra C, Edwards AM, Yamamoto KR, Friend SH.

Sci Transl Med. 2011 Jun 22;3(88):88mr1. doi: 10.1126/scitranslmed.3002678.


The glucocorticoid receptor and the coregulator Brm selectively modulate each other's occupancy and activity in a gene-specific manner.

Engel KB, Yamamoto KR.

Mol Cell Biol. 2011 Aug;31(16):3267-76. doi: 10.1128/MCB.05351-11. Epub 2011 Jun 6.


Occupancy of chromatin organizers in the Epstein-Barr virus genome.

Holdorf MM, Cooper SB, Yamamoto KR, Miranda JJ.

Virology. 2011 Jun 20;415(1):1-5. doi: 10.1016/j.virol.2011.04.004. Epub 2011 May 8.


A coactivator role of CARM1 in the dysregulation of β-catenin activity in colorectal cancer cell growth and gene expression.

Ou CY, LaBonte MJ, Manegold PC, So AY, Ianculescu I, Gerke DS, Yamamoto KR, Ladner RD, Kahn M, Kim JH, Stallcup MR.

Mol Cancer Res. 2011 May;9(5):660-70. doi: 10.1158/1541-7786.MCR-10-0223. Epub 2011 Apr 8.


Cross talk between glucocorticoid and estrogen receptors occurs at a subset of proinflammatory genes.

Cvoro A, Yuan C, Paruthiyil S, Miller OH, Yamamoto KR, Leitman DC.

J Immunol. 2011 Apr 1;186(7):4354-60. doi: 10.4049/jimmunol.1002205. Epub 2011 Feb 28.


Circadian rhythm gene period 3 is an inhibitor of the adipocyte cell fate.

Costa MJ, So AY, Kaasik K, Krueger KC, Pillsbury ML, Fu YH, Ptacek LJ, Yamamoto KR, Feldman BJ.

J Biol Chem. 2011 Mar 18;286(11):9063-70. doi: 10.1074/jbc.M110.164558. Epub 2011 Jan 12.


Reciprocal intronic and exonic histone modification regions in humans.

Huff JT, Plocik AM, Guthrie C, Yamamoto KR.

Nat Struct Mol Biol. 2010 Dec;17(12):1495-9. doi: 10.1038/nsmb.1924. Epub 2010 Nov 7.


Functional genomics, proteomics, and regulatory DNA analysis in isogenic settings using zinc finger nuclease-driven transgenesis into a safe harbor locus in the human genome.

DeKelver RC, Choi VM, Moehle EA, Paschon DE, Hockemeyer D, Meijsing SH, Sancak Y, Cui X, Steine EJ, Miller JC, Tam P, Bartsevich VV, Meng X, Rupniewski I, Gopalan SM, Sun HC, Pitz KJ, Rock JM, Zhang L, Davis GD, Rebar EJ, Cheeseman IM, Yamamoto KR, Sabatini DM, Jaenisch R, Gregory PD, Urnov FD.

Genome Res. 2010 Aug;20(8):1133-42. doi: 10.1101/gr.106773.110. Epub 2010 May 27.


Functional modularity of nuclear hormone receptors in a Caenorhabditis elegans metabolic gene regulatory network.

Arda HE, Taubert S, MacNeil LT, Conine CC, Tsuda B, Van Gilst M, Sequerra R, Doucette-Stamm L, Yamamoto KR, Walhout AJ.

Mol Syst Biol. 2010 May 11;6:367. doi: 10.1038/msb.2010.23.


Nuclear hormone receptors in nematodes: evolution and function.

Taubert S, Ward JD, Yamamoto KR.

Mol Cell Endocrinol. 2011 Mar 1;334(1-2):49-55. doi: 10.1016/j.mce.2010.04.021. Epub 2010 May 10. Review.


Integrated biology and undergraduate science education: a new biology education for the twenty-first century?

Labov JB, Reid AH, Yamamoto KR.

CBE Life Sci Educ. 2010 Spring;9(1):10-6. doi: 10.1187/cbe.09-12-0092. No abstract available.


Crosstalk in inflammation: the interplay of glucocorticoid receptor-based mechanisms and kinases and phosphatases.

Beck IM, Vanden Berghe W, Vermeulen L, Yamamoto KR, Haegeman G, De Bosscher K.

Endocr Rev. 2009 Dec;30(7):830-82. doi: 10.1210/er.2009-0013. Epub 2009 Nov 4. Review.


Glucocorticoid regulation of the circadian clock modulates glucose homeostasis.

So AY, Bernal TU, Pillsbury ML, Yamamoto KR, Feldman BJ.

Proc Natl Acad Sci U S A. 2009 Oct 13;106(41):17582-7. doi: 10.1073/pnas.0909733106. Epub 2009 Oct 5.


DNA binding site sequence directs glucocorticoid receptor structure and activity.

Meijsing SH, Pufall MA, So AY, Bates DL, Chen L, Yamamoto KR.

Science. 2009 Apr 17;324(5925):407-10. doi: 10.1126/science.1164265.


Non-competitive androgen receptor inhibition in vitro and in vivo.

Jones JO, Bolton EC, Huang Y, Feau C, Guy RK, Yamamoto KR, Hann B, Diamond MI.

Proc Natl Acad Sci U S A. 2009 Apr 28;106(17):7233-8. doi: 10.1073/pnas.0807282106. Epub 2009 Apr 10.


Glucocorticoid signaling defines a novel commitment state during adipogenesis in vitro.

Pantoja C, Huff JT, Yamamoto KR.

Mol Biol Cell. 2008 Oct;19(10):4032-41. doi: 10.1091/mbc.E08-04-0420. Epub 2008 Jul 23.


The Mediator subunit MDT-15 confers metabolic adaptation to ingested material.

Taubert S, Hansen M, Van Gilst MR, Cooper SB, Yamamoto KR.

PLoS Genet. 2008 Feb 29;4(2):e1000021. doi: 10.1371/journal.pgen.1000021.


Conservation analysis predicts in vivo occupancy of glucocorticoid receptor-binding sequences at glucocorticoid-induced genes.

So AY, Cooper SB, Feldman BJ, Manuchehri M, Yamamoto KR.

Proc Natl Acad Sci U S A. 2008 Apr 15;105(15):5745-9. doi: 10.1073/pnas.0801551105. Epub 2008 Apr 11.


Genome-wide profiling identifies epithelial cell genes associated with asthma and with treatment response to corticosteroids.

Woodruff PG, Boushey HA, Dolganov GM, Barker CS, Yang YH, Donnelly S, Ellwanger A, Sidhu SS, Dao-Pick TP, Pantoja C, Erle DJ, Yamamoto KR, Fahy JV.

Proc Natl Acad Sci U S A. 2007 Oct 2;104(40):15858-63. Epub 2007 Sep 26.


Cell- and gene-specific regulation of primary target genes by the androgen receptor.

Bolton EC, So AY, Chaivorapol C, Haqq CM, Li H, Yamamoto KR.

Genes Dev. 2007 Aug 15;21(16):2005-17.


Determinants of cell- and gene-specific transcriptional regulation by the glucocorticoid receptor.

So AY, Chaivorapol C, Bolton EC, Li H, Yamamoto KR.

PLoS Genet. 2007 Jun;3(6):e94.


A conformational switch in the ligand-binding domain regulates the dependence of the glucocorticoid receptor on Hsp90.

Ricketson D, Hostick U, Fang L, Yamamoto KR, Darimont BD.

J Mol Biol. 2007 May 4;368(3):729-41. Epub 2007 Feb 22.


The ligand binding domain controls glucocorticoid receptor dynamics independent of ligand release.

Meijsing SH, Elbi C, Luecke HF, Hager GL, Yamamoto KR.

Mol Cell Biol. 2007 Apr;27(7):2442-51. Epub 2007 Jan 29.


Myostatin modulates adipogenesis to generate adipocytes with favorable metabolic effects.

Feldman BJ, Streeper RS, Farese RV Jr, Yamamoto KR.

Proc Natl Acad Sci U S A. 2006 Oct 17;103(42):15675-80. Epub 2006 Oct 9.


Novel arylpyrazole compounds selectively modulate glucocorticoid receptor regulatory activity.

Wang JC, Shah N, Pantoja C, Meijsing SH, Ho JD, Scanlan TS, Yamamoto KR.

Genes Dev. 2006 Mar 15;20(6):689-99.

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