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Publications

Revealing global regulatory perturbations across human cancers
Molecular Cell. 2009 Dec 11; 36:900-911
Goodarzi, H., Elemento, O., Tavazoie S.



Preview in the same issue:
A FIRE-y PAGE in computational analysis of cancer profiles
Prensner, JR, Chinnaiyan, AM.

Global protein occupancy landscape of a bacterial genome
Molecular Cell. 2009 Jul 31;35(2):247-53

Vora T., Hottes, AK., Tavazoie S.

  

Global discovery of adaptive mutations
Nature Methods. 2009 Aug; 6(8):581-3
Goodarzi H., Hottes, AK., Tavazoie S.

  

 Coupling of zygotic transcription to mitotic control at the Drosophila mid-blastula transition.
Development. 2009 Jun;136(12):2101-10.
Lu X, Li JM, Elemento O, Tavazoie S, Wieschaus EF.

  

 Genetic architecture of intrinsic antibiotic susceptibility.
PLoS ONE. 2009 May 20;4(5):e5629.
Girgis HS, Hottes AK, Tavazoie S.

  

 Genetic dissection of an exogenously induced biofilm in laboratory and clinical isolates of E. coli.
PLoS Pathog. 2009 May;5(5):e1000432. Epub 2009 May 15.
Amini S, Goodarzi H, Tavazoie S.

  

 Microarray profiling of phage-display selections for rapid mapping of transcription factor-DNA interactions.
PLoS Genet. 2009 Apr;5(4):e1000449. Epub 2009 Apr 10.
Freckleton G, Lippman SI, Broach JR, Tavazoie S.

  

 let-7 Overexpression leads to an increased fraction of cells in G2/M, direct down-regulation of Cdc34, and stabilization of Wee1 kinase in primary fibroblasts.
J Biol Chem. 2009 Mar 13;284(11):6605-9. Epub 2009 Jan 6.
Legesse-Miller A, Elemento O, Pfau SJ, Forman JJ, Tavazoie S, Coller HA.

  

 Predictive behavior within microbial genetic networks
Science (2008) 320:1313-1317, Epub 2008 May 8
Tagkopoulos, I., Liu, Y. and Tavazoie, S.

  

 A universal framework for regulatory element discovery across all genomes and data-types
Molecular Cell (2007) 28(2):337-50
Elemento O., Slonim, N. and Tavazoie, S
Highlight in Nature Reviews Genetics 8:908-909

  

 A comprehensive genetic characterization of bacterial motility
PLoS Genetics (2007) 3 (9): e154
Girgis, H., Liu, Y., Ryu, W. and Tavazoie S.
Highlight in Nature Reviews Genetics 8:653-653

  

 Unmasking the zygotic genome using chromosome deletion in the Drosophila embryo.
PLoS Biology (2007) 5(5): e117
De Renzis, S., Elemento, O., Tavazoie, S. and Wieschaus, E.F.

 

 Fastcompare:  A non-alignment approach for genome-scale discovery of DNA and mRNA regulatory elements using network-level conservation
Methods in Mol. Biol., Comparative Genomics, 2007
Elemento. O. and Tavazoie, S.

  

 Role of transcription factor Kar4 in regulating downstream events in the Saccharomyces cerevisiae pheromone response pathway.
Mol. Cell Biol. 2006 Nov. 13, Epub
Lahav, R., Gammie, A., Tavazoie, S. and Rose, M.D.

  

 Ab initio genotype-phenotype association reveals the intrinsic modularity of genetic networks.
Molecular Systems Biology 2006; 2:2006.0005. Epub 2006 Jan 31.
(Slonim, N., Elemento, O., equal contribution) and Tavazoie, S.

  

Revealing posttranscriptional regulatory elements through network-level conservation.
PLoS Computational Biology 2005 Dec; 1(7): e69 Epub 2005 Dec. 9.
(Chan, S., Elemento, O., equal contribution) and Tavazoie, S.

  

Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach.
Genome Biology (2005) 6(2):R18. Epub 2005 Jan 26.
Elemento, O. and Tavazoie S.

  

Mapping global histone acetylation patterns to gene expression.
Cell 2004 Jun 11; 117(6):721-33
Kurdistani S.K. , Tavazoie S. and Grunstein M.

  

Predicting gene expression from sequence.
Cell 2004 Apr 16; 117(2):185-98
Beer M.A. and Tavazoie S.
Highlight in Nature Reviews Genetics (PDF)

  

A cross-genomic approach for systematic mapping of phenotypic traits to genes.
Genome Research 2004 Jan; 14(1):109-15.
Jim K., Parmar K., Singh M. and Tavazoie S.

  

Whole-genome discovery of transcription factor binding sites by network-level conservation.
Genome Research 2004 Jan; 14(1):99-108.
Pritsker, M., Liu, Y., Beer, M. and Tavazoie, S.

  

Ras and Gpa2 mediate one branch of a redundant glucose signaling pathway in yeast.
PLoS Biology 2004 May; 2 (5): Epub 2004 May 11
Wang, Y., Pierce, M., Schneper, L., Güldal, CG., Zhang, X., Tavazoie, S. and Broach, J.R.

  

Genomewide binding map of RPD3 histone deacetylase in yeast.
Nature Genetics 2002 31: 248-254.
Kurdistani S., Robyr D., Tavazoie S. and Grunstein M.

  

Selection analyses of insertional mutants using subgenic-resolution arrays.
Nature Biotechnology 2001 19: 1060-1065.
Badarinarayana V., Estep P.W. 3rd, Shendure J., Edwards J., Tavazoie S., Lam F. and Church G.M.

  

Computational identification of cis-regulatory elements within functionally related groups of genes in Saccharomyces cerevisiae.
Journal of Molecular Biology 2000 296: 1205-1214.
Hughes J.D., Estep P.W., Tavazoie S. and Church G.M.

  

Systematic determination of genetic network architecture.
Nature Genetics 1999 22: 281-285.
Tavazoie S., Hughes J.D., Campbell M.J., Cho R.J. and Church G.M.

  

Quantitative whole-genome analysis of DNA-protein interactions by in vivo methylase protection in E. coli.
Nature Biotechnology 1998 16: 566-571.
Tavazoie S. and Church G.M.