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Publications

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1995
Accurate determination of DNA in agarose gels using the novel algorithm GelScann(1.0)., Metzker, M. L., Allain K. M., and Gibbs R. A. , Computer applications in the biosciences : CABIOS, 1995 Apr, Volume 11, Issue 2, p.187-94, (1995) Abstract
2008
High-precision, whole-genome sequencing of laboratory strains facilitates genetic studies., Srivatsan, Anjana, Han Yi, Peng Jianlan, Tehranchi Ashley K., Gibbs Richard, Wang Jue D., and Chen Rui , PLoS genetics, 2008, Volume 4, Issue 8, p.e1000139, (2008) Abstract
2012
Identification of a single-stranded DNA virus associated with citrus chlorotic dwarf disease, a new member in the family Geminiviridae., Loconsole, Giuliana, Saldarelli Pasquale, Doddapaneni Harshavardhan, Savino Vito, Martelli Giovanni P., and Saponari Maria , Virology, 2012 Oct 10, Volume 432, Issue 1, p.162-72, (2012) Abstract
2009
Complete genome sequence of citrus huanglongbing bacterium, 'Candidatus Liberibacter asiaticus' obtained through metagenomics., Duan, Yongping, Zhou Lijuan, Hall David G., Li Wenbin, Doddapaneni Harshavardhan, Lin Hong, Liu Li, Vahling Cheryl M., Gabriel Dean W., Williams Kelly P., et al. , Molecular plant-microbe interactions : MPMI, 2009 Aug, Volume 22, Issue 8, p.1011-20, (2009) Abstract
The 8q24 cancer risk variant rs6983267 shows long-range interaction with MYC in colorectal cancer., Pomerantz, Mark M., Ahmadiyeh Nasim, Jia Li, Herman Paula, Verzi Michael P., Doddapaneni Harshavardhan, Beckwith Christine A., Chan Jennifer A., Hills Adam, Davis Matt, et al. , Nature genetics, 2009 Aug, Volume 41, Issue 8, p.882-4, (2009) Abstract
2010
P450 redox enzymes in the white rot fungus Phanerochaete chrysosporium: gene transcription, heterologous expression, and activity analysis on the purified proteins., Subramanian, Venkataramanan, Doddapaneni Harshavardhan, Syed Khajamohiddin, and Yadav Jagjit S. , Current microbiology, 2010 Oct, Volume 61, Issue 4, p.306-14, (2010) Abstract
A new diagnostic system for ultra-sensitive and specific detection and quantification of Candidatus Liberibacter asiaticus, the bacterium associated with citrus Huanglongbing., Lin, Hong, Chen Chuanwu, Doddapaneni Harshavardhan, Duan Yongping, Civerolo Edwin L., Bai Xianjin, and Zhao Xiaolong , Journal of microbiological methods, 2010 Apr, Volume 81, Issue 1, p.17-25, (2010) Abstract
2004
Differential regulation and xenobiotic induction of tandem P450 monooxygenase genes pc-1 (CYP63A1) and pc-2 (CYP63A2) in the white-rot fungus Phanerochaete chrysosporium., Doddapaneni, Harshavardhan, and Yadav Jagjit S. , Applied microbiology and biotechnology, 2004 Oct, Volume 65, Issue 5, p.559-65, (2004) Abstract
2005
2006
Analysis of the genome-wide variations among multiple strains of the plant pathogenic bacterium Xylella fastidiosa., Doddapaneni, Harshavardhan, Yao Jiqiang, Lin Hong, Walker Andrew M., and Civerolo Edwin L. , BMC genomics, 2006, Volume 7, p.225, (2006) Abstract
P450ome of the white rot fungus Phanerochaete chrysosporium: structure, evolution and regulation of expression of genomic P450 clusters., Yadav, J. S., Doddapaneni H., and Subramanian V. , Biochemical Society transactions, 2006 Dec, Volume 34, Issue Pt 6, p.1165-9, (2006) Abstract
2007
Expression of a beta-glucosidase gene results in increased accumulation of salicylic acid in transgenic Nicotiana tabacum cv. Xanthi-nc NN genotype., Yao, Jiqiang, Huot Bethany, Foune Catherine, Doddapaneni Harshavardhan, and Enyedi Alexander , Plant cell reports, 2007 Mar, Volume 26, Issue 3, p.291-301, (2007) Abstract
nWayComp: a genome-wide sequence comparison tool for multiple strains/species of phylogenetically related microorganisms., Yao, Jiqiang, Lin Hong, Doddapaneni Harshavardhan, and Civerolo Edwin L. , In silico biology, 2007, Volume 7, Issue 2, p.195-200, (2007) Abstract
2008
Acquisition of uncharacterized sequences from Candidatus liberibacter, an unculturable bacterium, using an improved genomic walking method., Lin, Hong, Doddapaneni Harshavardhan, Bai Xianjing, Yao Jiqiang, Zhao Xiaolong, and Civerolo Edwin L. , Molecular and cellular probes, 2008 Feb, Volume 22, Issue 1, p.30-7, (2008) Abstract
Comparative phylogenomics and multi-gene cluster analyses of the Citrus Huanglongbing (HLB)-associated bacterium Candidatus Liberibacter., Doddapaneni, Harshavardhan, Liao Huihong, Lin Hong, Bai Xianjin, Zhao Xiaolong, Civerolo Edwin L., Irey Michael, Coletta-Filho Helvecio, and Pietersen Gerhard , BMC research notes, 2008, Volume 1, p.72, (2008) Abstract
2012
Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis., Fernandez-Fueyo, Elena, Ruiz-Dueñas Francisco J., Ferreira Patricia, Floudas Dimitrios, Hibbett David S., Canessa Paulo, Larrondo Luis F., James Tim Y., Seelenfreund Daniela, Lobos Sergio, et al. , Proceedings of the National Academy of Sciences of the United States of America, 2012 Apr 3, Volume 109, Issue 14, p.5458-63, (2012) Abstract
Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants., Price, Dana C., Chan Cheong Xin, Yoon Hwan Su, Yang Eun Chan, Qiu Huan, Weber Andreas P. M., Schwacke Rainer, Gross Jeferson, Blouin Nicolas A., Lane Chris, et al. , Science (New York, N.Y.), 2012 Feb 17, Volume 335, Issue 6070, p.843-7, (2012) Abstract
2009
Identification of differentially expressed miRNAs in chicken lung and trachea with avian influenza virus infection by a deep sequencing approach., Wang, Ying, Brahmakshatriya Vinayak, Zhu Huifeng, Lupiani Blanca, Reddy Sanjay M., Yoon Byung-Jun, Gunaratne Preethi H., Kim Jonghwan, Chen Rui, Wang Junjun, et al. , BMC genomics, 2009, Volume 10, p.512, (2009) Abstract
Mutation survey of known LCA genes and loci in the Saudi Arabian population., Li, Yumei, Wang Hui, Peng Jianlan, Gibbs Richard A., Lewis Richard Alan, Lupski James R., Mardon Graeme, and Chen Rui , Investigative ophthalmology & visual science, 2009 Mar, Volume 50, Issue 3, p.1336-43, (2009) Abstract
2006
Genome-wide identification of direct targets of the Drosophila retinal determination protein Eyeless., Ostrin, Edwin J., Li Yumei, Hoffman Kristi, Liu Jing, Wang Keqing, Zhang Li, Mardon Graeme, and Chen Rui , Genome research, 2006 Apr, Volume 16, Issue 4, p.466-76, (2006) Abstract
2005
Keeping an eye on the fly genome., Chen, Rui, and Mardon Graeme , Developmental biology, 2005 Jun 15, Volume 282, Issue 2, p.285-93, (2005) Abstract
Dual regulation and redundant function of two eye-specific enhancers of the Drosophila retinal determination gene dachshund., Pappu, Kartik S., Ostrin Edwin J., Middlebrooks Brooke W., Sili Beril Tavsanli, Chen Rui, Atkins Mardelle R., Gibbs Richard, and Mardon Graeme , Development (Cambridge, England), 2005 Jun, Volume 132, Issue 12, p.2895-905, (2005) Abstract
2004
Dynamic building of a BAC clone tiling path for the Rat Genome Sequencing Project., Chen, Rui, Sodergren Erica, Weinstock George M., and Gibbs Richard A. , Genome research, 2004 Apr, Volume 14, Issue 4, p.679-84, (2004) Abstract
The Atlas genome assembly system., Havlak, Paul, Chen Rui, Durbin James K., Egan Amy, Ren Yanru, Song Xing-Zhi, Weinstock George M., and Gibbs Richard A. , Genome research, 2004 Apr, Volume 14, Issue 4, p.721-32, (2004) Abstract


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