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Items: 15


Promoter Architecture and Sex-Specific Gene Expression in Daphnia pulex.

Raborn RT, Spitze K, Brendel VP, Lynch M.

Genetics. 2016 Oct;204(2):593-612. Epub 2016 Aug 31.


xGDBvm: A Web GUI-Driven Workflow for Annotating Eukaryotic Genomes in the Cloud.

Duvick J, Standage DS, Merchant N, Brendel VP.

Plant Cell. 2016 Apr;28(4):840-54. doi: 10.1105/tpc.15.00933. Epub 2016 Mar 28.


Genome, transcriptome and methylome sequencing of a primitively eusocial wasp reveal a greatly reduced DNA methylation system in a social insect.

Standage DS, Berens AJ, Glastad KM, Severin AJ, Brendel VP, Toth AL.

Mol Ecol. 2016 Apr;25(8):1769-84. doi: 10.1111/mec.13578. Epub 2016 Mar 15.


Discovery and expression analysis of alternative splicing events conserved among plant SR proteins.

Rauch HB, Patrick TL, Klusman KM, Battistuzzi FU, Mei W, Brendel VP, Lal SK.

Mol Biol Evol. 2014 Mar;31(3):605-13. doi: 10.1093/molbev/mst238. Epub 2013 Dec 19.


Single nucleotide polymorphisms of human STING can affect innate immune response to cyclic dinucleotides.

Yi G, Brendel VP, Shu C, Li P, Palanathan S, Cheng Kao C.

PLoS One. 2013 Oct 21;8(10):e77846. doi: 10.1371/journal.pone.0077846. eCollection 2013.


ParsEval: parallel comparison and analysis of gene structure annotations.

Standage DS, Brendel VP.

BMC Bioinformatics. 2012 Aug 1;13:187. doi: 10.1186/1471-2105-13-187.


TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction.

Doyle EL, Booher NJ, Standage DS, Voytas DF, Brendel VP, Vandyk JK, Bogdanove AJ.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W117-22. doi: 10.1093/nar/gks608. Epub 2012 Jun 12.


Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp.

Bogdanove AJ, Koebnik R, Lu H, Furutani A, Angiuoli SV, Patil PB, Van Sluys MA, Ryan RP, Meyer DF, Han SW, Aparna G, Rajaram M, Delcher AL, Phillippy AM, Puiu D, Schatz MC, Shumway M, Sommer DD, Trapnell C, Benahmed F, Dimitrov G, Madupu R, Radune D, Sullivan S, Jha G, Ishihara H, Lee SW, Pandey A, Sharma V, Sriariyanun M, Szurek B, Vera-Cruz CM, Dorman KS, Ronald PC, Verdier V, Dow JM, Sonti RV, Tsuge S, Brendel VP, Rabinowicz PD, Leach JE, White FF, Salzberg SL.

J Bacteriol. 2011 Oct;193(19):5450-64. doi: 10.1128/JB.05262-11. Epub 2011 Jul 22.


The BioExtract Server: a web-based bioinformatic workflow platform.

Lushbough CM, Jennewein DM, Brendel VP.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W528-32. doi: 10.1093/nar/gkr286. Epub 2011 May 5.


An overview of the BioExtract Server: a distributed, Web-based system for genomic analysis.

Lushbough CM, Brendel VP.

Adv Exp Med Biol. 2010;680:361-9. doi: 10.1007/978-1-4419-5913-3_41.


Genome-wide distribution of transposed Dissociation elements in maize.

Vollbrecht E, Duvick J, Schares JP, Ahern KR, Deewatthanawong P, Xu L, Conrad LJ, Kikuchi K, Kubinec TA, Hall BD, Weeks R, Unger-Wallace E, Muszynski M, Brendel VP, Brutnell TP.

Plant Cell. 2010 Jun;22(6):1667-85. doi: 10.1105/tpc.109.073452. Epub 2010 Jun 25.


Common introns within orthologous genes: software and application to plants.

Wilkerson MD, Ru Y, Brendel VP.

Brief Bioinform. 2009 Nov;10(6):631-44. doi: 10.1093/bib/bbp051.


Regional mutagenesis using Dissociation in maize.

Ahern KR, Deewatthanawong P, Schares J, Muszynski M, Weeks R, Vollbrecht E, Duvick J, Brendel VP, Brutnell TP.

Methods. 2009 Nov;49(3):248-54. doi: 10.1016/j.ymeth.2009.04.009. Epub 2009 Apr 24.


MaizeGDB becomes 'sequence-centric'.

Sen TZ, Andorf CM, Schaeffer ML, Harper LC, Sparks ME, Duvick J, Brendel VP, Cannon E, Campbell DA, Lawrence CJ.

Database (Oxford). 2009;2009:bap020. doi: 10.1093/database/bap020. Epub 2009 Dec 7.


Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment.

Agrawal A, Brendel VP, Huang X.

Int J Comput Biol Drug Des. 2008;1(4):347-67. Review.


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