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Items: 17


Read Mapping and Transcript Assembly: A Scalable and High-Throughput Workflow for the Processing and Analysis of Ribonucleic Acid Sequencing Data.

Peri S, Roberts S, Kreko IR, McHan LB, Naron A, Ram A, Murphy RL, Lyons E, Gregory BD, Devisetty UK, Nelson ADL.

Front Genet. 2020 Jan 24;10:1361. doi: 10.3389/fgene.2019.01361. eCollection 2019.


RNA-Seq analysis of soft rush (Juncus effusus): transcriptome sequencing, de novo assembly, annotation, and polymorphism identification.

Arslan M, Devisetty UK, Porsch M, Große I, Müller JA, Michalski SG.

BMC Genomics. 2019 Jun 13;20(1):489. doi: 10.1186/s12864-019-5886-8.


The role of a class III gibberellin 2-oxidase in tomato internode elongation.

Schrager-Lavelle A, Gath NN, Devisetty UK, Carrera E, López-Díaz I, Blázquez MA, Maloof JN.

Plant J. 2019 Feb;97(3):603-615. doi: 10.1111/tpj.14145. Epub 2019 Jan 5.


Network Analysis Reveals a Role for Salicylic Acid Pathway Components in Shade Avoidance.

Nozue K, Devisetty UK, Lekkala S, Mueller-Moulé P, Bak A, Casteel CL, Maloof JN.

Plant Physiol. 2018 Dec;178(4):1720-1732. doi: 10.1104/pp.18.00920. Epub 2018 Oct 22.


Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure.

Chougule KM, Wang L, Stein JC, Wang X, Devisetty UK, Klein RR, Ware D.

Curr Protoc Bioinformatics. 2018 Sep;63(1):e53. doi: 10.1002/cpbi.53. Epub 2018 Aug 31.


Using RNA-Seq for Genomic Scaffold Placement, Correcting Assemblies, and Genetic Map Creation in a Common Brassica rapa Mapping Population.

Markelz RJC, Covington MF, Brock MT, Devisetty UK, Kliebenstein DJ, Weinig C, Maloof JN.

G3 (Bethesda). 2017 Jul 5;7(7):2259-2270. doi: 10.1534/g3.117.043000.


Evolinc: A Tool for the Identification and Evolutionary Comparison of Long Intergenic Non-coding RNAs.

Nelson ADL, Devisetty UK, Palos K, Haug-Baltzell AK, Lyons E, Beilstein MA.

Front Genet. 2017 May 9;8:52. doi: 10.3389/fgene.2017.00052. eCollection 2017.


The Divergence of Flowering Time Modulated by FT/TFL1 Is Independent to Their Interaction and Binding Activities.

Wang Z, Yang R, Devisetty UK, Maloof JN, Zuo Y, Li J, Shen Y, Zhao J, Bao M, Ning G.

Front Plant Sci. 2017 May 8;8:697. doi: 10.3389/fpls.2017.00697. eCollection 2017.


Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms.

Joyce BL, Haug-Baltzell AK, Hulvey JP, McCarthy F, Devisetty UK, Lyons E.

J Vis Exp. 2017 May 9;(123). doi: 10.3791/55009.


Bringing your tools to CyVerse Discovery Environment using Docker.

Devisetty UK, Kennedy K, Sarando P, Merchant N, Lyons E.

F1000Res. 2016 Jun 21;5:1442. eCollection 2016.


A Genomic Analysis of Factors Driving lincRNA Diversification: Lessons from Plants.

Nelson AD, Forsythe ES, Devisetty UK, Clausen DS, Haug-Batzell AK, Meldrum AM, Frank MR, Lyons E, Beilstein MA.

G3 (Bethesda). 2016 Sep 8;6(9):2881-91. doi: 10.1534/g3.116.030338.


Genetic architecture, biochemical underpinnings and ecological impact of floral UV patterning.

Brock MT, Lucas LK, Anderson NA, Rubin MJ, Markelz RJ, Covington MF, Devisetty UK, Chapple C, Maloof JN, Weinig C.

Mol Ecol. 2016 Mar;25(5):1122-40. doi: 10.1111/mec.13542. Epub 2016 Feb 23.


Modeling development and quantitative trait mapping reveal independent genetic modules for leaf size and shape.

Baker RL, Leong WF, Brock MT, Markelz RJ, Covington MF, Devisetty UK, Edwards CE, Maloof J, Welch S, Weinig C.

New Phytol. 2015 Oct;208(1):257-68. doi: 10.1111/nph.13509. Epub 2015 Jun 17.


Polymorphism identification and improved genome annotation of Brassica rapa through Deep RNA sequencing.

Devisetty UK, Covington MF, Tat AV, Lekkala S, Maloof JN.

G3 (Bethesda). 2014 Aug 12;4(11):2065-78. doi: 10.1534/g3.114.012526. Erratum in: G3 (Bethesda). 2017 Jul 5;7(7):2405.


Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato.

Koenig D, Jiménez-Gómez JM, Kimura S, Fulop D, Chitwood DH, Headland LR, Kumar R, Covington MF, Devisetty UK, Tat AV, Tohge T, Bolger A, Schneeberger K, Ossowski S, Lanz C, Xiong G, Taylor-Teeples M, Brady SM, Pauly M, Weigel D, Usadel B, Fernie AR, Peng J, Sinha NR, Maloof JN.

Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):E2655-62. doi: 10.1073/pnas.1309606110. Epub 2013 Jun 26.


Accurate timekeeping is controlled by a cycling activator in Arabidopsis.

Hsu PY, Devisetty UK, Harmer SL.

Elife. 2013 Apr 30;2:e00473. doi: 10.7554/eLife.00473.


The RAD51 and DMC1 homoeologous genes of bread wheat: cloning, molecular characterization and expression analysis.

Devisetty UK, Mayes K, Mayes S.

BMC Res Notes. 2010 Sep 29;3:245. doi: 10.1186/1756-0500-3-245.

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