line decor

 
 

Asterisk (*) indicates co-first author with equal contribution

2010

  1. Wang X and Liu XS.  Systemmatic curation of miRBase microRNA annotation using deep sequencing data for Drosophila and C.elegans. (2010) Submitted.
  2. Wang X, Liu T, Wentz J and Liu XS.  Computational dissection of Arabidopsis smRNAome leads to identification of RNA intereference mechanisms associated with transcription start sites. (2010)  Submmited.

 

2009

  1. Wang X, Elling A, Li X, Li L, Charron J, Martinessen R, Wang J, Peng Z, Qi Y, Liu XS and Deng X.  Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and smRNA transcriptomes in maize. (2009 April) The Plant Cell; In press.
  2. Wang X, Yu Z, Deng XW, Li L.  Characterization of transcriptionally active regions in the rice genome uncovers novel transcribed gene fragments. (2009 March)  Bioinformatics; Epub on March 16, 2009 doi:10.1093/bioinformatics/btp147.
  3. Zhou J*, Wang X*, He K, Stocl V, Tongprasit W, Elling A, Charron J, Deng XW.  Global mapping of histone H3 lysine 9 acetylation and dimethylation in Arabidopsis genome by ChIP-on-Chip (2009 Feb) Submitted to Plant Molecular Biology.
  4. He H, Wang X, Li L, Deng XW, Chen R. A model based algorithm for screening allelic variations on SNP microarrays in Rice (2009 April). Submitted to The Plant Journal.

 

2008

  1. Li X*, Wang X*, He K, Ma Y, Su N, He H, Stolc V, Tongprasit W, Jin W, Jiang J, Terzaghi W, Li S & Deng XW.  High-Resolution Mapping of Epigenetic Modifications of the Rice Genome Uncovers Interplay between DNA Methylation, Histone Methylation, and Gene Expression. (2008 Feb) The Plant Cell.; 20: 259-276
  2. Wang X.  Statistical Analysis of Tiling-path microarrays. A review chapter for the book Oligonucleotide Array Sequence Analysis, (2008); NOVA Science Publisher, New York, USA ISBN: 978-1-60456-542-3
  3. Peng Z, Zhang H, Liu T, Dzikiewicz K, Li S, Wang X, Hu G, Zhu Z, Wei X, Zhu Q, Sun Z,Ge S, Ma L, Li L and Deng XW. (2008 Oct) Characterization of the genome expression trends in the heading-stage panicle of six rice lineages. Genomics; Epub 2008, 11
  4. Yin BL, Guo L, Zhang DF, Terzaghi W, Wang XF, Liu TT, He H, Cheng ZK and Deng XW.  Integration of Cytological Features with Molecular and Epigenetic Properties of Rice Chromosome 4. (2008 Aug) Molecular Plant 1: 816-829;
  5. Zhang HY, He H, Chen LB, Li L, Liang MZ, Wang XF, Liu XG, He GM, Chen RS, Ma LG, and Deng XW.  A Genome-Wide Transcription Analysis Reveals a Close Correlation of Promoter INDEL Polymorphism and Heterotic Gene Expression in Rice Hybrids. (2008 Aug) Molecular Plant; 1: 720-731;
  6. Li L, He H, Zhang J, Wang X, Bai S, Stolc V, Tongprasit W, Young ND, Yu O, Deng XW.  Transcriptional analysis of highly syntenic regions between Medicago truncatula and Glycine max using tiling microarrays. (2008 Mar) Genome Biology.; 19;9(3):R57

 

2007

  1. Li L*, Wang X*, Sasidharan R., Stolc V, Deng W, He H, Korbel J, Chen X, Tongprasit W, Ronald P, Chen R, Gerstein M, Deng XW.  Global Identification and Characterization of Transcriptionally Active Regions in the Rice Genome (2007 Jan) PLoS ONE.; 2(3): e294
  2. Zhou J*, Wang X*, Jiao Y, Qin Y, Liu X, He K, Chen C, Ma L, Wang J, Xiong L, Zhang Q, Fan L, Deng XW. Global genome expression analysis of rice in response to drought and high-salinity stresses in shoot, flag leaf, and panicle.  (2007 Mar) Plant Molecular Biology; 63(5):591-608. Epub 2007 Jan 16

 

2006

  1. Wang X, He H, Li L, Chen R, Deng XW, Li S.  NMPP: a user-customized NimbleGen microarray data processing pipeline. Bioinformatics.; (2006 Dec); 22(23): 2955-7; Epub 2006 Oct 12
  2. Wang X, Li L, Chen C, Wang J, Li S, and Deng XW.  Analysis of oligo hybridization properties by high-resolution tiling arrays in rice. Proceeding report, 5th International Rice Genetics Symposium; (2006 May) 65-76. 19-23; Philippines
  3. Li L*, Wang X*, Stolc V, Li X, Zhang D, Su N, Tongprasit W, Li S, Cheng Z, Wang J, Deng XW.  Genome-wide transcription analyses in rice using tiling microarrays. (2006 Jan); Nature Genetics; 38: 124 – 129. Epub Dec 20

 

2005

    1. Li L*, Wang X*, Xia M, Stolc V, Su N, Peng Z, Li S, Wang J, Wang X, Deng XW. Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture. (2005 June) Genome Biology.; 6(6):R52.
    2. Stolc V*, Li L*, Wang X*, Li X, Su N, Tongprasit W, Han B, Xue Y, Li J, Snyder1 M, Gerstein M, Wang J, Deng XW.  A pilot study of transcription unit analysis in rice using tiling-path microarray. (2005 Sep) Plant Molecular Biology.; 59(1):137–14
    3. Ma L, Chen C, Liu X，Jiao Y, Su N, Li L, Wang X, Cao M, Sun N, Zhang X, Bao J, Li J, Pedersen S, Bolund L, Zhao H, Yuan L, Wong GKS, Wang J, Deng XW, Wang J.  A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. (2005 Sep) Genome Research. 15(9):1274-1283
    4. Jiao Y*, Jia P*, Wang X*, Su N, Yu S, Zhang D, Ma L, Feng Q, Jin Z, Li L, Xue Y, Cheng Z, Zhao H, Han B, Deng XW.  A Tiling Microarray Expression Analysis of Rice Chromosome 4 Suggests a Chromosome-Level Regulation of Transcription. (2005 Jun) The Plant Cell.; 17(6):1641-57. Epub 2005 Apr 29
    5. Li L, Wang X, Li X, Su N, Stolc V, Han B, Li J, Xue Y, Wang J, Deng XW.  Toward genome-wide transcriptional analysis in rice using MAS oligonucelotide tiling-path microarrays. (2005 Jan) In Rice Is Life: Scientific Perspectives for World Rice Research Conference held in Tokyo and Tsukuba, Japan.