A mutation degree model for the identification of transcriptional regulatory elements
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[1] Anna El'skaya,et al. COTRASIF: conservation-aided transcription-factor-binding site finder , 2009, Nucleic acids research.
[2] Sunchung Park,et al. Journal of Experimental Botany, Page 1 of 14 DOI: 10.1093/jxb/erg304 , 2003 .
[3] Gábor Tóth,et al. DoOP: Databases of Orthologous Promoters, collections of clusters of orthologous upstream sequences from chordates and plants , 2004, Nucleic Acids Res..
[4] Ting Wang,et al. Combining phylogenetic data with co-regulated genes to identify regulatory motifs , 2003, Bioinform..
[5] Bernd Hamann,et al. Phylo-VISTA: interactive visualization of multiple DNA sequence alignments , 2004, Bioinform..
[6] Mathieu Blanchette,et al. Motif Discovery in Heterogeneous Sequence Data , 2003, Pacific Symposium on Biocomputing.
[7] Jesse R. Raab,et al. Insulators and promoters: closer than we think , 2010, Nature Reviews Genetics.
[8] Jin Wang,et al. Enrichment of transcriptional regulatory sites in non-coding genomic region , 2004, Bioinform..
[9] Saurabh Sinha. PhyME: a software tool for finding motifs in sets of orthologous sequences. , 2007, Methods in molecular biology.
[10] Hongyu Zhao,et al. An Arabidopsis Promoter Microarray and its Initial Usage in the Identification of HY5 Binding Targets in Vitro , 2004, Plant Molecular Biology.
[11] O. Hobert. Gene Regulation by Transcription Factors and MicroRNAs , 2008, Science.
[12] C. Peterson,et al. Tissue-specific regulatory network extractor (TS-REX): a database and software resource for the tissue and cell type-specific investigation of transcription factor-gene networks , 2009, Nucleic acids research.
[13] B. De Moor,et al. The Effect of Orthology and Coregulation on Detecting Regulatory Motifs , 2010, PloS one.
[14] G. Church,et al. Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation , 1998, Nature Biotechnology.
[15] D. Haussler,et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. , 2005, Genome research.
[16] S. Kamauchi,et al. Gene expression in response to endoplasmic reticulum stress in Arabidopsis thaliana , 2005, The FEBS journal.
[17] Christina Boucher,et al. A Graph Clustering Approach to Weak Motif Recognition , 2007, WABI.
[18] Henry D. Priest,et al. Cis-regulatory elements in plant cell signaling. , 2009, Current opinion in plant biology.
[19] Li Yang,et al. Large-Scale cis-Element Detection by Analysis of Correlated Expression and Sequence Conservation between Arabidopsis and Brassica oleracea1[W] , 2006, Plant Physiology.
[20] Graziano Pesole,et al. Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes , 2009, Nucleic Acids Res..
[21] K. Akiyama,et al. Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray. , 2002, The Plant journal : for cell and molecular biology.
[22] Erik van Nimwegen,et al. PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny , 2005, PLoS Comput. Biol..
[23] A. Sandelin,et al. Applied bioinformatics for the identification of regulatory elements , 2004, Nature Reviews Genetics.
[24] Huaiqiu Zhu,et al. The Transcriptional Regulatory Mechanism of CYP72B1 and AUR3 in Response to Light, Auxin and Brassinosteroid*: The Transcriptional Regulatory Mechanism of CYP72B1 and AUR3 in Response to Light, Auxin and Brassinosteroid* , 2010 .
[25] Graziano Pesole,et al. WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences , 2007, BMC Bioinformatics.
[26] William Stafford Noble,et al. Assessing computational tools for the discovery of transcription factor binding sites , 2005, Nature Biotechnology.
[27] Kathleen Marchal,et al. Computational Approaches to Identify Promoters and cis-Regulatory Elements in Plant Genomes1 , 2003, Plant Physiology.
[28] Michael B. Eisen,et al. Phylogenetic Motif Detection by Expectation-Maximization on Evolutionary Mixtures , 2003, Pacific Symposium on Biocomputing.
[29] Martin C. Frith,et al. Discovering Sequence Motifs with Arbitrary Insertions and Deletions , 2008, PLoS Comput. Biol..
[30] Jian Ye,et al. BLAST: improvements for better sequence analysis , 2006, Nucleic Acids Res..
[31] Yukihisa Shimada,et al. Comprehensive Comparison of Auxin-Regulated and Brassinosteroid-Regulated Genes in Arabidopsis[w] , 2004, Plant Physiology.