376 related articles for article (PubMed ID: 17040121)
1. Large-scale turnover of functional transcription factor binding sites in Drosophila.
Moses AM; Pollard DA; Nix DA; Iyer VN; Li XY; Biggin MD; Eisen MB
PLoS Comput Biol; 2006 Oct; 2(10):e130. PubMed ID: 17040121
[TBL] [Abstract][Full Text] [Related]
2. Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura.
Berman BP; Pfeiffer BD; Laverty TR; Salzberg SL; Rubin GM; Eisen MB; Celniker SE
Genome Biol; 2004; 5(9):R61. PubMed ID: 15345045
[TBL] [Abstract][Full Text] [Related]
3. PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny.
Siddharthan R; Siggia ED; van Nimwegen E
PLoS Comput Biol; 2005 Dec; 1(7):e67. PubMed ID: 16477324
[TBL] [Abstract][Full Text] [Related]
4. Does positive selection drive transcription factor binding site turnover? A test with Drosophila cis-regulatory modules.
He BZ; Holloway AK; Maerkl SJ; Kreitman M
PLoS Genet; 2011 Apr; 7(4):e1002053. PubMed ID: 21572512
[TBL] [Abstract][Full Text] [Related]
5. Comparative gene expression analysis of Dtg, a novel target gene of Dpp signaling pathway in the early Drosophila melanogaster embryo.
Hodar C; Zuñiga A; Pulgar R; Travisany D; Chacon C; Pino M; Maass A; Cambiazo V
Gene; 2014 Feb; 535(2):210-7. PubMed ID: 24321690
[TBL] [Abstract][Full Text] [Related]
6. Evolutionary mirages: selection on binding site composition creates the illusion of conserved grammars in Drosophila enhancers.
Lusk RW; Eisen MB
PLoS Genet; 2010 Jan; 6(1):e1000829. PubMed ID: 20107516
[TBL] [Abstract][Full Text] [Related]
7. Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila.
Halligan DL; Eyre-Walker A; Andolfatto P; Keightley PD
Genome Res; 2004 Feb; 14(2):273-9. PubMed ID: 14762063
[TBL] [Abstract][Full Text] [Related]
8. Ancestral resurrection of the Drosophila S2E enhancer reveals accessible evolutionary paths through compensatory change.
Martinez C; Rest JS; Kim AR; Ludwig M; Kreitman M; White K; Reinitz J
Mol Biol Evol; 2014 Apr; 31(4):903-16. PubMed ID: 24408913
[TBL] [Abstract][Full Text] [Related]
9. Evolutionary plasticity of polycomb/trithorax response elements in Drosophila species.
Hauenschild A; Ringrose L; Altmutter C; Paro R; Rehmsmeier M
PLoS Biol; 2008 Oct; 6(10):e261. PubMed ID: 18959483
[TBL] [Abstract][Full Text] [Related]
10. Microevolution of cis-regulatory elements: an example from the pair-rule segmentation gene fushi tarazu in the Drosophila melanogaster subgroup.
Bakkali M
PLoS One; 2011; 6(11):e27376. PubMed ID: 22073317
[TBL] [Abstract][Full Text] [Related]
11. Tracing the evolutionary history of Drosophila regulatory regions with models that identify transcription factor binding sites.
Dermitzakis ET; Bergman CM; Clark AG
Mol Biol Evol; 2003 May; 20(5):703-14. PubMed ID: 12679540
[TBL] [Abstract][Full Text] [Related]
12. In silico evolution of the Drosophila gap gene regulatory sequence under elevated mutational pressure.
Chertkova AA; Schiffman JS; Nuzhdin SV; Kozlov KN; Samsonova MG; Gursky VV
BMC Evol Biol; 2017 Feb; 17(Suppl 1):4. PubMed ID: 28251865
[TBL] [Abstract][Full Text] [Related]
13. Interaction between zeste binding sites does not block isolated yellow enhancers in Drosophila melanogaster.
Zobacheva PY; Kulliev AP; Georgiev PG; Mel'nikova LS
Dokl Biochem Biophys; 2003; 391():229-31. PubMed ID: 14531075
[No Abstract] [Full Text] [Related]
14. Identification of Lineage-Specific Cis-Regulatory Modules Associated with Variation in Transcription Factor Binding and Chromatin Activity Using Ornstein-Uhlenbeck Models.
Naval-Sánchez M; Potier D; Hulselmans G; Christiaens V; Aerts S
Mol Biol Evol; 2015 Sep; 32(9):2441-55. PubMed ID: 25944915
[TBL] [Abstract][Full Text] [Related]
15. Natural selection in a population of Drosophila melanogaster explained by changes in gene expression caused by sequence variation in core promoter regions.
Sato MP; Makino T; Kawata M
BMC Evol Biol; 2016 Feb; 16():35. PubMed ID: 26860869
[TBL] [Abstract][Full Text] [Related]
16. An organizational model of transcription factor binding sites for a histone promoter in D. melanogaster.
Crayton ME; Ladd CE; Sommer M; Hampikian G; Strausbaugh LD
In Silico Biol; 2004; 4(4):537-48. PubMed ID: 15752071
[TBL] [Abstract][Full Text] [Related]
17. zeste, a nonessential gene, potently activates Ultrabithorax transcription in the Drosophila embryo.
Laney JD; Biggin MD
Genes Dev; 1992 Aug; 6(8):1531-41. PubMed ID: 1644294
[TBL] [Abstract][Full Text] [Related]
18. Spatial distribution of predicted transcription factor binding sites in Drosophila ChIP peaks.
Pettie KP; Dresch JM; Drewell RA
Mech Dev; 2016 Aug; 141():51-61. PubMed ID: 27264535
[TBL] [Abstract][Full Text] [Related]
19. A biophysical model for analysis of transcription factor interaction and binding site arrangement from genome-wide binding data.
He X; Chen CC; Hong F; Fang F; Sinha S; Ng HH; Zhong S
PLoS One; 2009 Dec; 4(12):e8155. PubMed ID: 19956545
[TBL] [Abstract][Full Text] [Related]
20. Identification of functional transcription factor binding sites using closely related Saccharomyces species.
Doniger SW; Huh J; Fay JC
Genome Res; 2005 May; 15(5):701-9. PubMed ID: 15837806
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
