Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach
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* Corresponding author: Saeed Tavazoie tavazoie@molbio.princeton.edu
Genome Biology 2005, 6:R18 doi:10.1186/gb-2005-6-2-r18
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BioMed Central: 18 citations
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Classifying transcription factor targets and discovering relevant biological features Dustin T Holloway, Mark Kon, Charles DeLisi Biology Direct 2008, 3:22 (30 May 2008) |
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Xochitl C Morgan, Shulin Ni, Daniel P Miranker, Vishwanath R Iyer BMC Bioinformatics 2007, 8:445 (15 November 2007) |
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Identifications of conserved 7-mers in 3'-UTRs and microRNAs in Drosophila Jin Gu, Hu Fu, Xuegong Zhang, Yanda Li BMC Bioinformatics 2007, 8:432 (8 November 2007) |
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Sequences conserved by selection across mouse and human malaria species Hideo Imamura, Jason H Persampieri, Jeffrey H Chuang BMC Genomics 2007, 8:372 (15 October 2007) |
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A comparative genomics approach to identifying the plasticity transcriptome Andreas R Pfenning, Russell Schwartz, Alison L Barth BMC Neuroscience 2007, 8:20 (13 March 2007) |
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WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences Giulio Pavesi, Federico Zambelli, Graziano Pesole BMC Bioinformatics 2007, 8:46 (7 February 2007) |
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Klaas Vandepoele, Tineke Casneuf, Yves Van de Peer Genome Biology 2006, 7:R103 (7 November 2006) A strategy combining classical motif overrepresentation in co-regulated genes with comparative footprinting is applied to identify 80 transcription factor binding sites and 139 regulatory modules in Arabidopsis thaliana. |
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Jie Wu, Xiaohui Xie Genome Biology 2006, 7:R85 (26 September 2006) Using comparative sequence analysis, a network among REST, CREB and brain-related miRNAs is propsed to mediate neuronal gene expression. |
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Meta-analysis discovery of tissue-specific DNA sequence motifs from mammalian gene expression data Bertrand R Huber, Martha L Bulyk BMC Bioinformatics 2006, 7:229 (27 April 2006) |