Evidence-based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling

Yingyao Zhou, Vandana Ramachandran, Kota Arun Kumar, Scott Westenberger, Phillippe Refour, Bin Zhou, Fengwu Li, Jason A. Young, Kaisheng Chen, David Plouffe, Kerstin Henson, Victor Nussenzweig, Jane Carlton, Joseph M. Vinetz, Manoj T. Duraisingh, Elizabeth A. Winzeler. To appear in PLoS One. 2008
[GNF Web Site | PubMed ]

In silico discovery of transcription regulatory elements in Plasmodium falciparum

Jason A. Young, Jeffery R. Johnson, Chris Benner, S. Frank Yan, Kaisheng Chen, Karine G. Le Roch, Yingyao Zhou, Elizabeth A. Winzeler. BMC Genomics. 2008 9:70
[GNF Web Site | BMC Genomics]

Distinct physiological states of Plasmodium falciparum in malaria-infected patients

J. P. Daily, D. Scanfeld, N. Pochet, K. Le Roch, D. Plouffe, M. Kamal, O. Sarr, S. Mboup, O. Ndir, D. Wypij, K. Levasseur, E. Thomas, P. Tamayo, C. Dong, Y. Zhou, E. S. Lander, D. Ndiaye, D. Wirth, E. A. Winzeler, J. P. Mesirov & A. Regev. Nature. 2007 450(7172)1091-5
[GNF Web Site | PubMed]

A Probability-based Approach for the Analysis of Large-scale RNAi Screens

Renate Konig, Chih-yuan Chiang, Buu P. Tu, S. Frank Yan, Paul D. DeJesus, Angelica Romero, Tobias Bergauer, Anthony Orth, Ute Krueger, Yingyao Zhou, and Sumit K. Chanda. Nature Method. 2007. doi: 10.1038/nmeth1089
[GNF Web Site | PubMed ID: 17828270 ]

Large-Scale Annotation of Small-Molecule Libraries Using Public Databases

Yingyao Zhou, Bin Zhou, Kaisheng Chen, S. Frank Yan, Frederick J. King, Shumei Jiang, and Elizabeth A. Winzeler. J. Chem. Inf. Model. 2007. 47(4):1386-1394.
[GNF Web Site | PubMed ID: 17608408]

Scanning for allelic diversity in the malaria parasite

Claire Kidgell, Sarah K. Volkman, Johanna Daily, Justin O. Borevitz, David Plouffe, Yingyao Zhou, Jeffrey R. Johnson, Karine G. Le Roch, Ousmane Sarr, Omar Ndir, Soulyemane Mboup, Serge Batalov, Dyann F. Wirth and Elizabeth A. Winzeler. PLOS Pathogen. 2006. 2(6):e57.
[GNF Web Site | PubMed ID: 16789840]

The Plasmodium falciparum sexual development transcriptome: A microarray analysis using ontology-based pattern identification

Young JA, Fivelman QL, Blair PL, de la Vega P, Le Roch KG, Zhou Y, Carucci DJ, Baker DA, Winzeler EA. Mol Biochem Parasitol. 2005 Sep;143(1):67-79.
[GNF Web Site | PubMed ID: 16005087]

In silico gene function prediction using ontology-based pattern identification

Yingyao Zhou, Jason A. Young, Andrey Santrosyan, Kaisheng Chen, S. Frank Yan, Elizabeth A. Winzeler. Bioinformatics. 2005. 21(7):1237-45.
[GNF Web Site | PubMed ID: 15531612]

Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays

Barrera L, Benner C, Tao YC, Winzeler E, Zhou Y. BMC Bioinformatics. 2004 Apr 20;5(1):42.
[GNF Web Site | PubMed ID: 15099405]

Discovery of gene function by expression profiling of the malaria parasite life cycle

Le Roch KG, Zhou Y, Blair PL, Grainger M, Moch JK, Haynes JD, De La Vega P, Holder AA, Batalov S, Carucci DJ, Winzeler EA. Science. 2003 Sep 12;301(5639):1503-8. Epub 2003 Jul 31.
[GNF Web Site | PubMed ID: 12893887]

Match-Only Integral Distribution (MOID) Algorithm for High-Density Oligonucleotide Array Analysis

Zhou Y, Abagyan R. BMC Bioinformatics. 2002;3(1):3. Epub 2002 Jan 22.
[GNF Web Site | PubMed ID: 11835687]

Statistical Validation of Structure-Selectivity Relationship Using NCI Cancer Database

Li J, Benner C, Jiang T, Zhou Y. METMBS 2003: 146-151
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