dpollard's cis_regulatory_elements [51 articles] Export

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	Deletion Hotspots in AMACR Promoter CpG Island Are cis-Regulatory Elements Controlling the Gene Expression in the Colon [My Copy] PLoS Genet, Vol. 5, No. 1. (16 January 2009), e1000334. by Xiang Zhang, Irwin Leav, Monica P. Revelo, et al.Ranjan Deka, Mario Medvedovic, Zhong Jiang, Shuk-Mei Ho posted to cis_reg_polymorphism cis_regulatory_elements expression_polymorphism human polymorphism by dpollard on 2009-01-16 16:37:49 as along with 1 person and 2 groups JustinCrocker RockmanLab cis-regulatory-evolution
	Characterization of the Duffy gene promoter: evidence for tissue-specific abolishment of expression in Fy(a-b-) of black individuals. [My Copy] Biochem Biophys Res Commun, Vol. 222, No. 3. (24 May 1996), pp. 852-859. by S. Iwamoto, J. Li, N. Sugimoto, H. Okuda, E. Kajii posted to cis_regulatory_elements expression_divergence expression_pattern expression_polymorphism human modularity regulatory_evolution regulatory_sequence_evolution by dpollard on 2007-12-05 23:03:10 as along with 2 groups EisenLab cis-regulatory-evolution
	Ancient and Recent Positive Selection Transformed Opioid cis-Regulation in Humans. [My Copy] PLoS Biol, Vol. 3, No. 12. (15 November 2005) by Matthew V V. Rockman, Matthew W W. Hahn, Nicole Soranzo, Fritz Zimprich, David B B. Goldstein, Gregory A A. Wray posted to binding_site cis_regulatory_elements human regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:55:41 as along with 10 people and 4 groups provero mbj imouthesmp indigoviolet Archaeogenetics happy_manatee djkt mgaldzic cisevol jphekman cube_and_beyond EisenLab CHIP cis-regulatory-evolution
	Detection of the signature of natural selection in humans: evidence from the Duffy blood group locus. [My Copy] Am J Hum Genet, Vol. 66, No. 5. (May 2000), pp. 1669-1679. by M. T. Hamblin, A. Di Rienzo posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:53:19 as along with 2 groups EisenLab cis-regulatory-evolution
	Disruption of a GATA motif in the Duffy gene promoter abolishes erythroid gene expression in Duffy-negative individuals. [My Copy] Nat Genet, Vol. 10, No. 2. (June 1995), pp. 224-228. by C. Tournamille, Y. Colin, J. P. Cartron, C. Le Van Kim posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:51:01 as along with 2 groups EisenLab cis-regulatory-evolution
	Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila. [My Copy] Nature, Vol. 433, No. 7025. (3 February 2005), pp. 481-487. by N. Gompel, B. Prud'homme, P. J. Wittkopp, V. A. Kassner, S. B. Carroll posted to binding_site cis_regulatory_elements drosophila pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:48:37 as along with 7 people and 2 groups athma balabu emilyhare adepace cisevol emptyhb pradiptaray EisenLab cis-regulatory-evolution
	CisModule: De novo discovery of cis-regulatory modules by hierarchical mixture modeling [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 33. (17 August 2004), pp. 12114-12119. by Qing Zhou, Wing H. Wong posted to ab_initio cis_regulatory_elements clustering method prediction by dpollard on 2007-12-05 22:46:33 as along with 4 people and 1 group tonamswish isimpson indigoviolet ep161302 EisenLab
	Regulation of Body Pigmentation by the Abdominal-B Hox Protein and Its Gain and Loss in Drosophila Evolution [My Copy] Cell, Vol. 125, No. 7. (30 June 2006), pp. 1387-1399. by Sangyun Jeong, Antonis Rokas, Sean B. Carroll posted to binding_site cis_regulatory_elements pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:44:47 as along with 2 people and 2 groups emptyhb emilyhare EisenLab cis-regulatory-evolution
	Genome-wide analysis of clustered Dorsal binding sites identifies putative target genes in the Drosophila embryo. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 2. (22 January 2002), pp. 763-768. by M. Markstein, P. Markstein, V. Markstein, M. S. Levine posted to cis_regulatory_elements clustering drosophila embryonic_patterning method prediction by dpollard on 2007-12-05 20:41:26 as along with 2 people and 1 group emptyhb indigoviolet EisenLab
	Transcriptional regulatory code of a eukaryotic genome [My Copy] Nature, Vol. 431, No. 7004. (02 September 2004), pp. 99-104. by Christopher T. Harbison, D. Benjamin Gordon, Tong I. Lee, et al.Nicola J. Rinaldi, Kenzie D. Macisaac, Timothy W. Danford, Nancy M. Hannett, Jean-Bosco Tagne, David B. Reynolds, Jane Yoo, Ezra G. Jennings, Julia Zeitlinger, Dmitry K. Pokholok, Manolis Kellis, P. Alex Rolfe, Ken T. Takusagawa, Eric S. Lander, David K. Gifford, Ernest Fraenkel, Richard A. Young posted to chip_chip cis_regulatory_elements yeast by dpollard on 2007-12-04 00:29:15 as along with 29 people and 8 groups viren4388 daveGerrard Dulce talponer wowalz siebert alokm tuck lyongu kaspermunch balicea kt dchughes nirfriedman cmm nickluscombe kengg gespim koller lusk nklee cisevol njcitulike xili03 brant mariakmejia kristallreiner snow_dragon aalibes Bioinformatics EisenLab FAB-lab G4ID EBI-regulation Plantandetc Genetics-of-Gambling BergmanLab
	Dominant gain-of-function mutations that lead to misregulation of the C. elegans heterochronic gene lin-14, and the evolutionary implications of dominant mutations in pattern-formation genes. [My Copy] Dev Suppl, Vol. 1 (1991), pp. 47-54. by G. Ruvkun, B. Wightman, T. Bürglin, P. Arasu posted to cis_regulatory_elements co_dominance dominance nematode semi_dominance seminal_paper by dpollard on 2007-11-26 00:38:21 as along with 2 people and 2 groups thegoose2 tharris C. elegans / WormBase EisenLab
	Nucleotide sequence of an RNA polymerase binding site at an early T7 promoter. [My Copy] Proc Natl Acad Sci U S A, Vol. 72, No. 3. (March 1975), pp. 784-788. by D. Pribnow posted to binding_site cis_regulatory_elements conservation seminal_paper by dpollard on 2007-11-26 00:28:07 as along with 1 group EisenLab
	Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus. [My Copy] Evol Dev, Vol. 6, No. 5. (t 2004), pp. 325-335. by J. Costas, P. S. Pereira, C. P. Vieira, S. Pinho, J. Vieira, F. Casares posted to cis_regulatory_elements drosophila expression_divergence expression_pattern turnover by dpollard on 2007-11-21 01:23:45 as along with 2 groups EisenLab cis-regulatory-evolution
	Turnover of binding sites for transcription factors involved in early Drosophila development. [My Copy] Gene, Vol. 310 (22 May 2003), pp. 215-220. by J. Costas, F. Casares, J. Vieira posted to binding_site cis_regulatory_elements drosophila turnover by dpollard on 2007-11-21 01:22:24 as along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
	Reliable prediction of regulator targets using 12 Drosophila genomes [My Copy] Genome Research, Vol. 17, No. 12. (7 December 2007), pp. 1919-1931. by Pouya Kheradpour, Alexander Stark, Sushmita Roy, Manolis Kellis posted to cis_regulatory_elements drosophila eisen_journal_club matt_presented prediction round_robin by dpollard on 2007-11-17 00:01:32 as along with 9 people and 2 groups heliopais valeriehilgers lp2 nklee maximilianh roys caseybrown emptyhb barwil EisenLab cis-regulatory-evolution
	Programming gene expression with combinatorial promoters. [My Copy] Molecular systems biology, Vol. 3 (13 November 2007) by Robert Sidney S. Cox, Michael G. Surette, Michael B. Elowitz posted to cis_regulatory_elements eisen_journal_club grammar rich_presented round_robin by dpollard on 2007-11-16 23:56:56 as along with 16 people and 3 groups balabu Synthetic_Biology_Literature Retchless tmmurali austin balicea kengg dbikard margaritis lusk cjeans zwang discreteonyxorb cabbagezs Ema tresch TranscriptionalRegulationWithThermodynamicModels EisenLab SynBioSys
	MORPH: Probabilistic Alignment Combined with Hidden Markov Models of cis-Regulatory Modules [My Copy] PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e216. by Saurabh Sinha, Xin He posted to alignment alignment_accuracy binding_site_alignment brant_presented cis_regulatory_elements eisen_journal_club method round_robin by dpollard on 2007-11-16 23:53:34 as along with 7 people and 2 groups ana cjeans zwang maximilianh hpaces Ema uwe EisenLab cis-regulatory-evolution
	Large-Scale Discovery of Promoter Motifs in Drosophila melanogaster [My Copy] PLoS Comput Biol, Vol. 3, No. 1. (19 January 2007), e7. by Thomas A. Down, Casey M. Bergman, Jing Su, Tim J. P. Hubbard posted to binding_site cis_regulatory_elements drosophila motif_detection by dpollard on 2007-11-14 21:19:05 as along with 11 people and 1 group daveGerrard ychromosome timhubbard lusk wowalz indigoviolet dquest SeungjoonOh nklee emptyhb isimpson EisenLab
	The Evolution of Transcriptional Regulation in Eukaryotes [My Copy] Mol Biol Evol, Vol. 20, No. 9. (1 September 2003), pp. 1377-1419. by Gregory A. Wray, Matthew W. Hahn, Ehab Abouheif, et al.James P. Balhoff, Margaret Pizer, Matthew V. Rockman, Laura A. Romano posted to cis_regulatory_elements regulatory_evolution review variation by dpollard on 2007-11-08 00:23:59 as along with 11 people and 5 groups athma provero wrowell ana adepace nickluscombe anatiferous mimulus_99 cisevol emptyhb emmahe structural_bioinformatics Bioinformatics EisenLab EBI-regulation cis-regulatory-evolution
	The evolutionary significance of cis-regulatory mutations [My Copy] Nature Reviews Genetics, Vol. 8, No. 3., pp. 206-216. by Gregory A. Wray posted to cis_regulatory_elements polymorphism regulatory_evolution review variation by dpollard on 2007-11-08 00:12:33 as along with 9 people and 4 groups athma maximilianh provero brant dchughes lusk mimulus_99 cisevol emptyhb EisenLab G4ID Genetics-of-Gambling cis-regulatory-evolution
	Transcriptional Control in the Segmentation Gene Network of Drosophila [My Copy] PLoS Biol, Vol. 2, No. 9. (31 August 2004), e271. by Mark D. Schroeder, Michael Pearce, John Fak, et al.HongQing Fan, Ulrich Unnerstall, Eldon Emberly, Nikolaus Rajewsky, Eric D. Siggia, Ulrike Gaul posted to cis_regulatory_elements embryonic_patterning expression_pattern method modeling prediction by dpollard on 2007-11-07 22:44:52 as along with 8 people and 5 groups daveGerrard indigoviolet adepace wrowell emptyhb dlmace pradiptaray balicea BergmanLab TranscriptionalRegulationWithThermodynamicModels EisenLab Cline_lab UH - Computational Biology
	An equilibrium partitioning model connecting gene expression and cis-motif content [My Copy] Bioinformatics, Vol. 22, No. 14. (15 July 2006), pp. e368-374. by Joe Mellor, Charles Delisi posted to cis_regulatory_elements expression_pattern modeling by dpollard on 2007-11-05 22:10:49 as along with 1 person and 1 group yevishere EisenLab
	A logical analysis of the Drosophila gap-gene system. [My Copy] J Theor Biol, Vol. 211, No. 2. (21 July 2001), pp. 115-141. by L. Sánchez, D. Thieffry posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling by dpollard on 2007-11-05 21:22:06 as along with 4 people and 2 groups Antoine_Decrulle bshkspr bayesian adepace EisenLab UH - Computational Biology
	From gradients to stripes in Drosophila embryogenesis: filling in the gaps [My Copy] Trends in Genetics, Vol. 12, No. 11. (November 1996), pp. 478-483. by Rolando Rivera-Pomar, Herbert Jackle posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling by dpollard on 2007-11-05 21:21:07 as along with 1 group EisenLab
	Gradients and thresholds: BMP response gradients unveiled in Drosophila embryos [My Copy] Trends in Genetics, Vol. 19, No. 12. (December 2003), pp. 701-708. by Laurel A. Raftery, David J. Sutherland posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling by dpollard on 2007-11-05 21:19:38 as along with 1 group EisenLab
	Transcriptional regulation by the numbers: applications [My Copy] Current Opinion in Genetics & Development, Vol. 15, No. 2. (April 2005), pp. 125-135. by L. Bintu, N. Buchler, H. Garcia, et al.U. Gerland, T. Hwa, J. Kondev, T. Kuhlman, R. Phillips posted to cis_regulatory_elements expression_pattern modeling by dpollard on 2007-11-05 21:14:35 as along with 6 people and 1 group jjray siebert imouthesmp madhadron dquest discreteonyxorb EisenLab
	Smad Affinity Can Direct Distinct Readouts of the Embryonic Extracellular Dpp Gradient in Drosophila [My Copy] Current Biology, Vol. 14, No. 17. (7 September 2004), pp. 1550-1558. by Stephen J. Wharton, Sanjay P. Basu, Hilary L. Ashe posted to cis_regulatory_elements expression_pattern modeling by dpollard on 2007-11-05 21:13:34 as along with 1 group EisenLab
	Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information. [My Copy] Nucleic Acids Res, Vol. 31, No. 20. (15 October 2003), pp. 6016-6026. by V. J. Makeev, A. P. Lifanov, A. G. Nazina, D. A. Papatsenko posted to binding_site cis_regulatory_elements drosophila grammar helical_phasing by dpollard on 2007-10-31 22:40:43 as along with 2 people and 2 groups lusk oannes EisenLab Regulomics_UCHSC
	Interaction of Gal repressor with inducer and operator: induction of gal transcription from repressor-bound DNA. [My Copy] Proc Natl Acad Sci U S A, Vol. 94, No. 7. (1 April 1997), pp. 2957-2962. by S. Chatterjee, Y. N. Zhou, S. Roy, S. Adhya posted to binding_site cis_regulatory_elements grammar steric_repression yeast by dpollard on 2007-10-31 21:26:00 as along with 1 group EisenLab
	Phylogenetic simulation of promoter evolution: estimation and modeling of binding site turnover events and assessment of their impact on alignment tools. [My Copy] Genome biology, Vol. 8, No. 10. (24 October 2007), R225. by Weichun Huang, Joseph R. Nevins, Uwe Ohler posted to alignment_accuracy cis_regulatory_elements simulation turnover by dpollard on 2007-10-30 18:55:43 as along with 5 people and 2 groups lusk djkt stajich Garamonfok maximilianh EisenLab cis-regulatory-evolution
	Functional Architecture and Evolution of Transcriptional Elements That Drive Gene Coexpression [My Copy] Science, Vol. 317, No. 5844. (14 September 2007), pp. 1557-1560. by Christopher D. Brown, David S. Johnson, Arend Sidow posted to cis_regulatory_elements colin_presented conservation eisen_journal_club grammar in_depth regulatory_evolution round_robin stew_presented by dpollard on 2007-10-29 18:57:23 as along with 10 people and 2 groups pradiptaray djkt joepickrell zwang Garamonfok Stew mimulus_99 maximilianh cisevol emptyhb EisenLab cis-regulatory-evolution
	Making connections: boundaries and insulators in Drosophila. [My Copy] Curr Opin Genet Dev (26 September 2007) by Robert K K. Maeda, François Karch posted to chromatin chromatin_modification cis_regulatory_elements drosophila insulators by dpollard on 2007-10-25 02:15:41 as along with 2 people and 2 groups sebastien_vigneau dchughes CTCF EisenLab
	PAZAR: a framework for collection and dissemination of cis-regulatory sequence annotation [My Copy] Genome Biology, Vol. 8 (04 October 2007), R207. by Elodie Portales-Casamar, Stefan Kirov, Jonathan Lim, et al.Stuart Lithwick, Magdalena I. Swanson, Amy Ticoll, Jay Snoddy, Wyeth W. Wasserman posted to cis_regulatory_elements database by dpollard on 2007-10-25 01:54:33 as along with 2 people and 3 groups cisevol pradiptaray EisenLab cis-regulatory-evolution BergmanLab
	Modeling DNA-binding of Escherichia coli sigma70 exhibits a characteristic energy landscape around strong promoters [My Copy] Nucl. Acids Res. (16 October 2007), gkm720. by Johanna Weindl, Pavol Hanus, Zaher Dawy, Juergen Zech, Joachim Hagenauer, Jakob C. Mueller posted to bacteria cis_regulatory_elements eisen_journal_club energy_landscape promoter rich_presented round_robin by dpollard on 2007-10-25 01:24:56 as along with 3 people and 1 group jjray operon maximilianh EisenLab
	Functional diversification of sonic hedgehog paralog enhancers identified by phylogenomic reconstruction [My Copy] Genome Biology, Vol. 8 (08 June 2007), R106. by Yavor Hadzhiev, Michael Lang, Raymond Ertzer, Axel Meyer, Uwe Straehle, Ferenc Mueller posted to cis_regulatory_elements crm eisen_journal_club grammar in_depth_suggestion regulatory_evolution regulatory_sequence_evolution rich_presented round_robin by dpollard on 2007-08-01 22:37:08 as along with 4 people and 2 groups jochenG maximilianh cjeans cisevol EisenLab cis-regulatory-evolution
	Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses [My Copy] Genome Biology, Vol. 8 (05 June 2007), R101. by Long Li, Qianqian Zhu, Xin He, Saurabh Sinha, Marc S. Halfon posted to angela_presented cis_regulatory_elements crm drosophila eisen_journal_club enhancer regulatory_sequence_evolution round_robin by dpollard on 2007-07-02 21:12:58 as along with 5 people and 1 group JustinCrocker lusk cjeans maximilianh isimpson EisenLab
	A Survey of Genomic Properties for the Detection of Regulatory Polymorphisms [My Copy] PLoS Computational Biology, Vol. 3, No. 6. (1 June 2007), e106. by Stephen B. Montgomery, Obi L. Griffith, Johanna M. Schuetz, Angela Brooks-Wilson, Steven J. Jones posted to cis_regulatory_elements eisen_journal_club prediction regulatory_polymorphism round_robin sequence_properties snp venky_presented by dpollard on 2007-06-15 22:54:33 as along with 1 person and 3 groups cisevol Bioinformatics EisenLab cis-regulatory-evolution
	Colloquium Papers: Emerging principles of regulatory evolution. [My Copy] Proc Natl Acad Sci U S A, Vol. 104 Suppl 1 (15 May 2007), pp. 8605-8612. by B. Prud'homme, N. Gompel, S. B. Carroll posted to cis_regulatory_elements evolution regulatory_evolution review by dpollard on 2007-06-14 23:47:29 as along with 5 people and 2 groups daveGerrard athma blobbybirdman cisevol emptyhb EisenLab cis-regulatory-evolution
	Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome [My Copy] Genome Biology, Vol. 8 (16 May 2007), R84. by Shaun Mahony, David L. Corcoran, Eleanor Feingold, Panayiotis V. Benos posted to binding_site cis_regulatory_elements comparative_genomics conservation eisen_journal_club in_depth_suggestion mammal by dpollard on 2007-06-14 23:45:44 as along with 3 people and 2 groups andersbj dorotagospodarczyk maralena EisenLab microRNA
	The stars and stripes of animal bodies: evolution of regulatory elements mediating pigment and bristle patterns in Drosophila. [My Copy] Trends Genet (10 May 2007) by Pat Simpson posted to cis_regulatory_elements drosophila morphological_evolution review by dpollard on 2007-06-13 22:25:39 as along with 1 group EisenLab
	Computational annotation of transcription factor binding sites in D. Melanogaster developmental genes. [My Copy] Genome Inform, Vol. 17, No. 2. (2006), pp. 14-24. by V. Narang, W. K. Sung, A. Mittal posted to binding_site cis_regulatory_elements crm drosophila prediction by dpollard on 2007-06-13 22:20:42 as along with 1 group EisenLab
	Binding Site Graphs: A New Graph Theoretical Framework for Prediction of Transcription Factor Binding Sites [My Copy] PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e90. by Timothy E. Reddy, Charles Delisi, Boris E. Shakhnovich posted to cis_regulatory_elements method prediction by dpollard on 2007-05-31 23:16:30 as along with 2 people and 1 group adepace ajgentles EisenLab
	SPACER: identification of cis-regulatory elements with non-contiguous critical residues. [My Copy] Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 1029-1031. by A. Chakravarty, J. M. Carlson, R. S. Khetani, C. E. DeZiel, R. H. Gross posted to binding_site cis_regulatory_elements clustering method prediction by dpollard on 2007-05-23 01:10:50 as along with 1 group EisenLab
	A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction [My Copy] Bioinformatics, Vol. 23, No. 14. (15 July 2007), pp. 1718-1727. by Lee A. Newberg, William A. Thompson, Sean Conlan, Thomas M. Smith, Lee A. McCue, Charles E. Lawrence posted to cis_regulatory_elements clustering discovery method motif prediction by dpollard on 2007-05-23 00:29:25 as along with 7 people and 1 group vingron operon Dulce Mehlhorn cjeans sconlan siebert EisenLab
	Cis-regulatory elements in the Accord retrotransposon result in tissue-specific expression of the Drosophila melanogaster insecticide resistance gene Cyp6g1. [My Copy] Genetics, Vol. 175, No. 3. (1 March 2007), pp. 1071-1077. by Henry Chung, Michael R. Bogwitz, Caroline McCart, et al.Alex Andrianopoulos, Richard H. Ffrench-Constant, Philip Batterham, Phillip J. Daborn posted to cis_regulatory_elements drosophila expression tissue_specific transposable_elements by dpollard on 2007-03-26 07:55:30 as along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
	Two medfly promoters that have originated by recent gene duplication drive distinct sex, tissue and temporal expression patterns. [My Copy] Genetics, Vol. 156, No. 1. (September 2000), pp. 173-182. by G. K. Christophides, I. Livadaras, C. Savakis, K. Komitopoulou posted to cis_regulatory_elements duplication eisen_journal_club emily_presented expression_divergence insect regulatory_sequence round_robin by dpollard on 2007-03-19 05:50:08 as along with 2 people and 1 group brant adepace EisenLab
	Histone Replacement Marks the Boundaries of cis-Regulatory Domains [My Copy] Science, Vol. 315, No. 5817. (9 March 2007), pp. 1408-1411. by Yoshiko Mito, Jorja G. Henikoff, Steven Henikoff posted to cis_regulatory_elements dynamics eisen_journal_club in_depth_suggestion nucleosome rich_presented round_robin by dpollard on 2007-03-16 20:42:42 as along with 3 people and 1 group olympos epigenetics bpcusack EisenLab
	Computational methods for transcriptional regulation. [My Copy] Curr Opin Genet Dev, Vol. 15, No. 2. (April 2005), pp. 214-221. by E. D. Siggia posted to cis_regulatory_elements expression_pattern gene_expression method modeling prediction by dpollard on 2007-03-15 00:30:41 as along with 7 people and 2 groups barry koller bertelsen Borelli nklee balicea jjray Bioinformatics EisenLab
	The identification and functional characterisation of conserved regulatory elements in developmental genes. [My Copy] Brief Funct Genomic Proteomic, Vol. 3, No. 4. (February 2005), pp. 332-350. by T. Dickmeis, F. Müller posted to cis_regulatory_elements conserved development prediction regulatory_sequence transcription_factor by dpollard on 2007-03-15 00:27:26 as along with 1 person and 1 group brant EisenLab
	Prediction of cis-regulatory elements using binding site matrices--the successes, the failures and the reasons for both. [My Copy] Curr Opin Genet Dev, Vol. 15, No. 4. (August 2005), pp. 395-402. by T. Vavouri, G. Elgar posted to binding_site cis_regulatory_elements method motif pattern prediction pwm regulatory_sequence by dpollard on 2007-03-15 00:24:34 as along with 6 people and 2 groups troels_marstrand kaspermunch adepace lusk Stew brant Bioinformatics EisenLab

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drosophila	119
eisen_journal_club	115
round_robin	94
evolution	71
method	56
cis_regulatory_elements	51
gene	45
prediction	43
expression	40
binding_site	32
transcription	27
alignment	25
yeast	25
review	24
development	22
variation	22
in_depth_suggestion	20
transcription_factor	19
motif	18
phylogeny	18
selection	18
expression_pattern	17
turnover	17
binding	16
genome_architecture	16
polymorphism	16
regulatory_evolution	16
rockman_journal_club	16
adaptive	15
conserved	15
dan_presented	15
network	15
qtl	15
rate	15
gene_expression	14
human	14
modeling	14
devin_presented	13
genome_size	13
noncoding	13
c_elegans	12
colin_presented	12
grammar	12
indels	12
pattern	12
population_genetics	12
chip_chip	11
in_depth	11
promoter	11
rnai	11
embryonic_patterning	10
regulatory_sequence_evolution	10
rich_presented	10
allele-specific	9
association_mapping	9
eqtl	9
expression_divergence	9
insect	9
model	9
ab_initio	8
alignment_accuracy	8
angela_presented	8
duplication	8
mammal	8
regulatory_sequence	8
small_rnas	8
stuart_presented	8
venky_presented	8
adaptation	7
chromatin	7
constraint	7
lab_library	7
matt_presented	7
protein	7
pwm	7
regulation	7
speciation	7
annotation	6
array	6
clustering	6
comparative	6
conservation	6
crm	6
embryo	6
emily_presented	6
epistasis	6
expression_polymorphism	6
regulatory_polymorphism	6
brain	5
enhancer	5
evo_devo	5
insulators	5
motif_detection	5
mutation	5
nucleosome	5
population_structure	5
recombination	5
reconstruction	5
regulatory_network	5
seminal_paper	5
structure	5
system	5
transposable_elements	5
vertebrate	5
bacteria	4
brant_presented	4
chromatin_modification	4
discovery	4
dynamics	4
environment	4
gene_family	4
genome_wide	4
indel	4
insects	4
lenny_presented	4
nervous	4
neuro	4
snps	4
te	4
worms	4
accuracy	3
affinity	3
argonaute	3
cis_vs_trans	3
coactivator	3
comparative_genomics	3
correlation	3
dominance	3
effect_size	3
enhanceosome	3
experimental_evolution	3
fitness	3
genome	3
genome_sequence	3
genomic	3
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mapping	3
mechanism	3
microrna	3
morphological_evolution	3
mouse	3
multiple_alignment	3
nematode	3
neutral	3
noncoding_dna	3
spacing	3
stew_presented	3
test_for_selection	3
tree	3
whole_genome	3
3utr	2
adaptive_evolution	2
association	2
binding_site_alignment	2
bootstrap	2
cis	2
coexpression	2
color_variation	2
complex_trait	2
composition	2
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germline	2
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histone	2
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hox	2
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in-depth	2
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kenetics	2
length	2
lineage_specific	2
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loss	2
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modularity	2
noncoding_rna	2
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non-essential	2
parameter_estimation	2
pigmentation	2
placticity	2
positive_selection	2
protein_function_evolution	2
proteomics	2
pseudogene	2
purifying	2
repression	2
rna	2
sechellia	2
sequence_specificity	2
specific	2
translation_rate	2
vertibrates	2
website	2
454	1
acid	1
advanced_intercross	1
affy_array	1
americana	1
amino	1
amino_acid	1
anterior_posterior	1
antisense	1
antiviral	1
ap_x_dv	1
assembly	1
background_selection	1
base	1
bee	1
biochemical	1
biophysical_model	1
body	1
bristle	1
browser	1
cgh	1
chimp	1
chimpanzee	1
chip_seq	1
cis_reg_polymorphism	1
cnv	1
co_dominance	1
codon_usage	1
coevolution	1
cofactor	1
cognative_evolution	1
computational	1
concordance	1
cutoff	1
danr_presented	1
data	1
degredation	1
demography	1
detection	1
diffusion	1
disease	1
dnasei	1
dn_ds_ratio	1
domain	1
domains	1
domestication	1
dosage_compensation	1
encode	1
energy_landscape	1
eukaryote	1
even-skipped	1
experimental	1
experssion_pattern	1
extension	1
extrinsic	1
false_positive	1
fish	1
formation	1
fst	1
ftz	1
gc_content	1
genealogy	1
gene_by_environment_interaction	1
gene-expression	1
gene_function_evolution	1
genetic	1
genetic_interactions	1
genetic_screen	1
gene_vs_species_tree	1
genome_structure	1
germ	1
gwas	1
haplotype_inference	1
heart	1
helical_phasing	1
heterogeneity	1
heterotachy	1
horizontal_transfer	1
illumina_beads	1
imprinting	1
inbred_lines	1
in_situ	1
integration	1
interval_mapping	1
intron	1
intron_evolution	1
in_vitro	1
in_vivo	1
karyotype	1
lethality	1
life	1
lineage	1
low_frequency	1
markov	1
massively_parallel_signature_sequencing	1
maternal	1
matrix	1
metazoan	1
micro_array	1
morphology	1
multi-copy	1
multiple_testing	1
mutational_load	1
natural_selection	1
natural_variation	1
neo-y	1
neural	1
next_gen_sequencing	1
noise	1
non-neutral	1
nonstationary	1
not_recommended	1
odorant	1
paleoecology	1
parallel_evolution	1
paralog	1
paralog_divergence	1
phenotype	1
phenotypic_effect	1
physical	1
pirna	1
plan	1
plants	1
post_transcriptional_modification	1
properties	1
protein_dna_interaction	1
qst	1
range	1
rapid	1
regular_expressions	1
response	1
rna_structure	1
rnp	1
rules	1
scaling	1
segmentation	1
semi_dominance	1
sequence_properties	1
sequencing_error	1
sequencing_technology	1
sex	1
short	1
similarity	1
simulation	1
slightly_deleterious_mutations	1
snp	1
solexa	1
sorting	1
specialization	1
sperm	1
splicing	1
steric_repression	1
strains	1
structural_variation	1
substitution_rate_variation	1
symbiont	1
synteny	1
targets	1
theory	1
threshold	1
timing	1
tissue_specific	1
tissue-specific	1
trait_covariance	1
trait_decomposition	1
tree_topology	1
tribolium	1
virilis	1
weak	1
x_inactivation	1
x_vs_autosomes	1
zygotic	1

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