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Volker Brendel
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14
Karlin, Samuel
9
Walbot, Virginia
8
Dong, Qunfeng
7
Schlueter, Shannon
6
Zhu, Wei
6
Wilkerson, Matthew
5
Lawrence, Carolyn
4
Kleffe, Jürgen
4
Wang, Bing-Bing
3
Kurtz, Stefan
3
Gai, Xiaowu
2
Fernandes, John
2
Chandler, Vicki
2
Seigfried, Trent
2
Wittig, Burghardt
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All Publications
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2008: Tasma I Made; Brendel Volker; Whitham Steven A; Bhattacharyya Madan K
Expression and evolution of the phosphoinositide-specific phospholipase C gene family in Arabidopsis thaliana.
Plant physiology and biochemistry : PPB / Société française de physiologie végétale 2008;46(7):627-37.
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2008: Duvick Jon; Fu Ann; Muppirala Usha; Sabharwal Mukul; Wilkerson Matthew D; Lawrence Carolyn J; Lushbough Carol; Brendel Volker
PlantGDB: a resource for comparative plant genomics.
Nucleic acids research 2008;36(Database issue):D959-65.
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2008: Lu Hong; Patil Prabhu; Van Sluys Marie-Anne; White Frank F; Ryan Robert P; Dow J Maxwell; Rabinowicz Pablo; Salzberg Steven L; Leach Jan E; Sonti Ramesh; Brendel Volker; Bogdanove Adam J
Acquisition and evolution of plant pathogenesis-associated gene clusters and candidate determinants of tissue-specificity in xanthomonas.
PloS one 2008;3(11):e3828.
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2008: Sparks Michael E; Brendel Volker
MetWAMer: eukaryotic translation initiation site prediction.
BMC bioinformatics 2008;9():381.
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2007: Brendel Volker; Kurtz Stefan; Pan Xioakang
Visualization of syntenic relationships with SynBrowse.
Methods in molecular biology (Clifton, N.J.) 2007;396():153-63.
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2007: Dong Qunfeng; Wilkerson Matthew D; Brendel Volker
Tracembler--software for in-silico chromosome walking in unassembled genomes.
BMC bioinformatics 2007;8():151.
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2006: Wang Bing-Bing; Brendel Volker
Genomewide comparative analysis of alternative splicing in plants.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(18):7175-80.
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2006: Wang Bing-Bing; Brendel Volker
Molecular characterization and phylogeny of U2AF35 homologs in plants.
Plant physiology 2006;140(2):624-36.
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2006: Schlueter Shannon D; Wilkerson Matthew D; Dong Qunfeng; Brendel Volker
xGDB: open-source computational infrastructure for the integrated evaluation and analysis of genome features.
Genome biology 2006;7(11):R111.
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2006: Wilkerson Matthew D; Schlueter Shannon D; Brendel Volker
yrGATE: a web-based gene-structure annotation tool for the identification and dissemination of eukaryotic genes.
Genome biology 2006;7(7):R58.
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2005: Sparks Michael E; Brendel Volker
Incorporation of splice site probability models for non-canonical introns improves gene structure prediction in plants.
Bioinformatics (Oxford, England) 2005;21 Suppl 3():iii20-30.
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2005: Dong Qunfeng; Lawrence Carolyn J; Schlueter Shannon D; Wilkerson Matthew D; Kurtz Stefan; Lushbough Carol; Brendel Volker
Comparative plant genomics resources at PlantGDB.
Plant physiology 2005;139(2):610-8.
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2005: Pan Xiaokang; Stein Lincoln; Brendel Volker
SynBrowse: a synteny browser for comparative sequence analysis.
Bioinformatics (Oxford, England) 2005;21(17):3461-8.
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2005: Lawrence Carolyn J; Seigfried Trent E; Brendel Volker
The maize genetics and genomics database. The community resource for access to diverse maize data.
Plant physiology 2005;138(1):55-8.
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2005: Schlueter Shannon D; Wilkerson Matthew D; Huala Eva; Rhee Seung Y; Brendel Volker
Community-based gene structure annotation.
Trends in plant science 2005;10(1):9-14.
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2005: Dong Qunfeng; Kroiss Lori; Oakley Fredrick D; Wang Bing-Bing; Brendel Volker
Comparative EST analyses in plant systems.
Methods in enzymology 2005;395():400-18.
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2004: Brendel Volker; Xing Liqun; Zhu Wei
Gene structure prediction from consensus spliced alignment of multiple ESTs matching the same genomic locus.
Bioinformatics (Oxford, England) 2004;20(7):1157-69.
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2004: Baran Sanford B; Lawrence Carolyn J; Brendel Volker
Plant genome research outreach portal. A gateway to plant genome research "outreach" programs and activities.
Plant physiology 2004;134(3):889.
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2004: Lawrence Carolyn J; Dong Qunfeng; Polacco Mary L; Seigfried Trent E; Brendel Volker
MaizeGDB, the community database for maize genetics and genomics.
Nucleic acids research 2004;32(Database issue):D393-7.
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2004: Dong Qunfeng; Schlueter Shannon D; Brendel Volker
PlantGDB, plant genome database and analysis tools.
Nucleic acids research 2004;32(Database issue):D354-9.
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2004: Wang Bing-Bing; Brendel Volker
The ASRG database: identification and survey of Arabidopsis thaliana genes involved in pre-mRNA splicing.
Genome biology 2004;5(12):R102.
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2004: Fernandes John; Dong Qunfeng; Schneider Bret; Morrow Darren J; Nan Guo-Ling; Brendel Volker; Walbot Virginia
Genome-wide mutagenesis of Zea mays L. using RescueMu transposons.
Genome biology 2004;5(10):R82.
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2003: Zhu Wei; Brendel Volker
Identification, characterization and molecular phylogeny of U12-dependent introns in the Arabidopsis thaliana genome.
Nucleic acids research 2003;31(15):4561-72.
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2003: Schlueter Shannon D; Dong Qunfeng; Brendel Volker
GeneSeqer@PlantGDB: Gene structure prediction in plant genomes.
Nucleic acids research 2003;31(13):3597-600.
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2003: Zhu Wei; Schlueter Shannon D; Brendel Volker
Refined annotation of the Arabidopsis genome by complete expressed sequence tag mapping.
Plant physiology 2003;132(2):469-84.
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2003: Kalyanaraman Anantharaman; Aluru Srinivas; Kothari Suresh; Brendel Volker
Efficient clustering of large EST data sets on parallel computers.
Nucleic acids research 2003;31(11):2963-74.
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2003: Dong Qunfeng; Roy Laura; Freeling Michael; Walbot Virginia; Brendel Volker
ZmDB, an integrated database for maize genome research.
Nucleic acids research 2003;31(1):244-7.
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2002: Chandler Vicki L; Brendel Volker
The Maize Genome Sequencing Project.
Plant physiology 2002;130(4):1594-7.
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2002: Zhu Wei; Brendel Volker
Gene structure identification with MyGV using cDNA evidence and protein homologs to improve ab initio predictions.
Bioinformatics (Oxford, England) 2002;18(5):761-2.
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2002: Shoemaker Randy; Keim Paul; Vodkin Lila; Retzel Ernest; Clifton Sandra W; Waterston Robert; Smoller David; Coryell Virginia; Khanna Anupama; Erpelding John; Gai Xiaowu; Brendel Volker; Raph-Schmidt Christina; Shoop E G; Vielweber C J; Schmatz Matt; Pape Deana; Bowers Yvette; Theising Brenda; Martin John; Dante Michael; Wylie Todd; Granger Cheryl
A compilation of soybean ESTs: generation and analysis.
Genome / National Research Council Canada = Génome / Conseil national de recherches Canada 2002;45(2):329-38.
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2002: Fernandes John; Brendel Volker; Gai Xiaowu; Lal Shailesh; Chandler Vicki L; Elumalai Rangasamy P; Galbraith David W; Pierson Elizabeth A; Walbot Virginia
Comparison of RNA expression profiles based on maize expressed sequence tag frequency analysis and micro-array hybridization.
Plant physiology 2002;128(3):896-910.
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2002: Brendel Volker; Zhu Wei
Computational modeling of gene structure in Arabidopsis thaliana.
Plant molecular biology 2002;48(1-2):49-58.
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2002: Brendel Volker; Kurtz Stefan; Walbot Virginia
Comparative genomics of Arabidopsis and maize: prospects and limitations.
Genome biology 2002;3(3):REVIEWS1005.
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2001: Xing L; Brendel V
Multi-query sequence BLAST output examination with MuSeqBox.
Bioinformatics (Oxford, England) 2001;17(8):744-5.
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2000: Usuka J; Brendel V
Gene structure prediction by spliced alignment of genomic DNA with protein sequences: increased accuracy by differential splice site scoring.
Journal of molecular biology 2000;297(5):1075-85.
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2000: Usuka J; Zhu W; Brendel V
Optimal spliced alignment of homologous cDNA to a genomic DNA template.
Bioinformatics (Oxford, England) 2000;16(3):203-11.
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2000: Gai X; Lal S; Xing L; Brendel V; Walbot V
Gene discovery using the maize genome database ZmDB.
Nucleic acids research 2000;28(1):94-6.
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1999: Chopra S; Brendel V; Zhang J; Axtell J D; Peterson T
Molecular characterization of a mutable pigmentation phenotype and isolation of the first active transposable element from Sorghum bicolor.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(26):15330-5.
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1999: Latijnhouwers M J; Pairoba C F; Brendel V; Walbot V; Carle-Urisote J C
Test of the combinatorial model of intron recognition in a native maize gene.
Plant molecular biology 1999;41(5):637-44.
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1998: Brendel V; Kleffe J
Prediction of locally optimal splice sites in plant pre-mRNA with applications to gene identification in Arabidopsis thaliana genomic DNA.
Nucleic acids research 1998;26(20):4748-57.
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1998: Ko C H; Brendel V; Taylor R D; Walbot V
U-richness is a defining feature of plant introns and may function as an intron recognition signal in maize.
Plant molecular biology 1998;36(4):573-83.
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1998: Brendel V; Kleffe J; Carle-Urioste J C; Walbot V
Prediction of splice sites in plant pre-mRNA from sequence properties.
Journal of molecular biology 1998;276(1):85-104.
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1998: Kleffe J; Hermann K; Vahrson W; Wittig B; Brendel V
GeneGenerator--a flexible algorithm for gene prediction and its application to maize sequences.
Bioinformatics (Oxford, England) 1998;14(3):232-43.
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1997: Carle-Urioste J C; Brendel V; Walbot V
A combinatorial role for exon, intron and splice site sequences in splicing in maize.
The Plant journal : for cell and molecular biology 1997;11(6):1253-63.
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1997: Brendel V; Brocchieri L; Sandler S J; Clark A J; Karlin S
Evolutionary comparisons of RecA-like proteins across all major kingdoms of living organisms.
Journal of molecular evolution 1997;44(5):528-41.
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1996: Kleffe J; Hermann K; Vahrson W; Wittig B; Brendel V
Logitlinear models for the prediction of splice sites in plant pre-mRNA sequences.
Nucleic acids research 1996;24(23):4709-18.
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1995: Karlin S; Weinstock G M; Brendel V
Bacterial classifications derived from recA protein sequence comparisons.
Journal of bacteriology 1995;177(23):6881-93.
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1994: Brendel V; Karlin S
Applications of statistical criteria in protein sequence analysis: case study of yeast RNA polymerase II subunits.
Computers & chemistry 1994;18(3):251-3.
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1993: Sapolsky R J; Brendel V; Karlin S
A comparative analysis of distinctive features of yeast protein sequences.
Yeast (Chichester, England) 1993;9(12):1287-98.
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1993: Brendel V; Perelson A S
Quantitative model of ColE1 plasmid copy number control.
Journal of molecular biology 1993;229(4):860-72.
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1993: Karlin S; Brendel V
Patchiness and correlations in DNA sequences.
Science (New York, N.Y.) 1993;259(5095):677-80.
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1992: Karlin S; Brendel V
Chance and statistical significance in protein and DNA sequence analysis.
Science (New York, N.Y.) 1992;257(5066):39-49.
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1992: Brendel V; Bucher P; Nourbakhsh I R; Blaisdell B E; Karlin S
Methods and algorithms for statistical analysis of protein sequences.
Proceedings of the National Academy of Sciences of the United States of America 1992;89(6):2002-6.
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1992: Karlin S; Brendel V; Bucher P
Significant similarity and dissimilarity in homologous proteins.
Molecular biology and evolution 1992;9(1):152-67.
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1991: Brendel V; Dohlman J; Blaisdell B E; Karlin S
Very long charge runs in systemic lupus erythematosus-associated autoantigens.
Proceedings of the National Academy of Sciences of the United States of America 1991;88(4):1536-40.
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1991: Karlin S; Bucher P; Brendel V; Altschul S F
Statistical methods and insights for protein and DNA sequences.
Annual review of biophysics and biophysical chemistry 1991;20():175-203.
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1990: Karlin S; Brendel V
Charge configurations in oncogene products and transforming proteins.
Oncogene 1990;5(1):85-95.
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1990: Karlin S; Blaisdell B E; Brendel V
Identification of significant sequence patterns in proteins.
Methods in enzymology 1990;183():388-402.
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1989: Brendel V; Karlin S
Association of charge clusters with functional domains of cellular transcription factors.
Proceedings of the National Academy of Sciences of the United States of America 1989;86(15):5698-702.
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1989: Karlin S; Blaisdell B E; Mocarski E S; Brendel V
A method to identify distinctive charge configurations in protein sequences, with application to human herpesvirus polypeptides.
Journal of molecular biology 1989;205(1):165-77.
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1988: Karlin S; Brendel V
Charge configurations in viral proteins.
Proceedings of the National Academy of Sciences of the United States of America 1988;85(24):9396-400.
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