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Items: 15


Dynamics of Gene Expression in Single Root Cells of Arabidopsis thaliana.

Jean-Baptiste K, McFaline-Figueroa JL, Alexandre CM, Dorrity MW, Saunders L, Bubb KL, Trapnell C, Fields S, Queitsch C, Cuperus JT.

Plant Cell. 2019 May;31(5):993-1011. doi: 10.1105/tpc.18.00785. Epub 2019 Mar 28.


Preferences in a trait decision determined by transcription factor variants.

Dorrity MW, Cuperus JT, Carlisle JA, Fields S, Queitsch C.

Proc Natl Acad Sci U S A. 2018 Aug 21;115(34):E7997-E8006. doi: 10.1073/pnas.1805882115. Epub 2018 Aug 1.


Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana.

Alexandre CM, Urton JR, Jean-Baptiste K, Huddleston J, Dorrity MW, Cuperus JT, Sullivan AM, Bemm F, Jolic D, Arsovski AA, Thompson A, Nemhauser JL, Fields S, Weigel D, Bubb KL, Queitsch C.

Mol Biol Evol. 2018 Apr 1;35(4):837-854. doi: 10.1093/molbev/msx326. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.


Deep learning of the regulatory grammar of yeast 5' untranslated regions from 500,000 random sequences.

Cuperus JT, Groves B, Kuchina A, Rosenberg AB, Jojic N, Fields S, Seelig G.

Genome Res. 2017 Dec;27(12):2015-2024. doi: 10.1101/gr.224964.117. Epub 2017 Nov 2.


A tetO Toolkit To Alter Expression of Genes in Saccharomyces cerevisiae.

Cuperus JT, Lo RS, Shumaker L, Proctor J, Fields S.

ACS Synth Biol. 2015 Jul 17;4(7):842-52. doi: 10.1021/sb500363y. Epub 2015 Mar 17.


New generation of artificial MicroRNA and synthetic trans-acting small interfering RNA vectors for efficient gene silencing in Arabidopsis.

Carbonell A, Takeda A, Fahlgren N, Johnson SC, Cuperus JT, Carrington JC.

Plant Physiol. 2014 May;165(1):15-29. doi: 10.1104/pp.113.234989. Epub 2014 Mar 19.


Phytophthora have distinct endogenous small RNA populations that include short interfering and microRNAs.

Fahlgren N, Bollmann SR, Kasschau KD, Cuperus JT, Press CM, Sullivan CM, Chapman EJ, Hoyer JS, Gilbert KB, Gr├╝nwald NJ, Carrington JC.

PLoS One. 2013 Oct 21;8(10):e77181. doi: 10.1371/journal.pone.0077181. eCollection 2013.


Functional analysis of three Arabidopsis ARGONAUTES using slicer-defective mutants.

Carbonell A, Fahlgren N, Garcia-Ruiz H, Gilbert KB, Montgomery TA, Nguyen T, Cuperus JT, Carrington JC.

Plant Cell. 2012 Sep;24(9):3613-29. doi: 10.1105/tpc.112.099945. Epub 2012 Sep 28.


Evolution and functional diversification of MIRNA genes.

Cuperus JT, Fahlgren N, Carrington JC.

Plant Cell. 2011 Feb;23(2):431-42. doi: 10.1105/tpc.110.082784. Epub 2011 Feb 11. Review.


Identification of genes required for de novo DNA methylation in Arabidopsis.

Greenberg MV, Ausin I, Chan SW, Cokus SJ, Cuperus JT, Feng S, Law JA, Chu C, Pellegrini M, Carrington JC, Jacobsen SE.

Epigenetics. 2011 Mar;6(3):344-54. Epub 2011 Mar 1.


Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis.

Cuperus JT, Carbonell A, Fahlgren N, Garcia-Ruiz H, Burke RT, Takeda A, Sullivan CM, Gilbert SD, Montgomery TA, Carrington JC.

Nat Struct Mol Biol. 2010 Aug;17(8):997-1003. doi: 10.1038/nsmb.1866. Epub 2010 Jun 18.


Identification of MIR390a precursor processing-defective mutants in Arabidopsis by direct genome sequencing.

Cuperus JT, Montgomery TA, Fahlgren N, Burke RT, Townsend T, Sullivan CM, Carrington JC.

Proc Natl Acad Sci U S A. 2010 Jan 5;107(1):466-71. doi: 10.1073/pnas.0913203107. Epub 2009 Dec 14.


Regulation and functional specialization of small RNA-target nodes during plant development.

Rubio-Somoza I, Cuperus JT, Weigel D, Carrington JC.

Curr Opin Plant Biol. 2009 Oct;12(5):622-7. doi: 10.1016/j.pbi.2009.07.003. Epub 2009 Aug 19. Review.


Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formation.

Montgomery TA, Howell MD, Cuperus JT, Li D, Hansen JE, Alexander AL, Chapman EJ, Fahlgren N, Allen E, Carrington JC.

Cell. 2008 Apr 4;133(1):128-41. doi: 10.1016/j.cell.2008.02.033. Epub 2008 Mar 13.


Translation start sequences affect the efficiency of silencing of Agrobacterium tumefaciens T-DNA oncogenes.

Lee H, Humann JL, Pitrak JS, Cuperus JT, Parks TD, Whistler CA, Mok MC, Ream LW.

Plant Physiol. 2003 Nov;133(3):966-77. Epub 2003 Sep 4.

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