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	Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes [My Copy] Genome Research, Vol. 15, No. 8. (August 2005), pp. 1034-1050. by Adam Siepel, Gill Bejerano, Jakob S. Pedersen, et al.Angie S. Hinrichs, Minmei Hou, Kate Rosenbloom, Hiram Clawson, John Spieth, LaDeana W. Hillier, Stephen Richards, George M. Weinstock, Richard K. Wilson, Richard A. Gibbs, W. James Kent, Webb Miller, David Haussler posted to phastcons by brant on 2007-07-26 21:03:04 as along with 21 people and 4 groups nicholasflann thegoose2 farhat skembel alessandroparini tharris bpb aprasad balajis eckart_bindewald indigoviolet pradiptaray adepace djkt olympos sujaikumar Stew cisevol dmc elfar AlexanderPico C. elegans / WormBase EisenLab cis-regulatory-evolution ConklinLab
	Identification and characterization of multi-species conserved sequences. [My Copy] Genome Res, Vol. 13, No. 12. (December 2003), pp. 2507-2518. by E. H. Margulies, M. Blanchette, D. Haussler, E. D. Green, posted to mcs by brant on 2007-07-26 21:02:19 as along with 6 people and 1 group aprasad operon ujh sujaikumar bezdan nklee EisenLab
	P[acman]: a BAC transgenic platform for targeted insertion of large DNA fragments in D. melanogaster. [My Copy] Science (New York, N.Y.), Vol. 314, No. 5806. (15 December 2006), pp. 1747-1751. by Koen J. Venken, Yuchun He, Roger A. Hoskins, Hugo J. Bellen posted to integrase recombineering transgenic by brant on 2006-12-27 21:19:37 as along with 1 person and 1 group emmahe EisenLab
	DPP-responsive silencers contain overlapping mad binding sites. [My Copy] J Biol Chem (6 July 2006) by Sheng Gao, Allen Laughon posted to dna-binding smads by brant on 2006-08-31 06:15:51 as along with 1 person and 1 group indigoviolet EisenLab
	Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b [My Copy] Genome Res. (10 December 2007), gr.6929408. by David M. Mcgaughey, Ryan M. Vinton, Jimmy Huynh, Amr Al-Saif, Michael A. Beer, Andrew S. Mccallion posted to comparative constraint enhancer_finding non-conserved by brant on 2008-02-18 20:40:04 as along with 2 people djkt maximilianh
	Identification of co-regulated transcripts affecting male body size in Drosophila [My Copy] Genome Biology, Vol. 6, No. 6. (2005) by Cynthia Coffman, Marta Wayne, Sergey Nuzhdin, Laura Higgins, Lauren Mcintyre posted to discovery factor_analysis gene network by brant on 2007-07-16 22:08:47 as along with 2 people and 1 group jbsaltz dpollard EisenLab
	BoCaTFBS: a boosted cascade learner to refine the binding sites suggested by ChIP-chip experiments [My Copy] Genome Biology, Vol. 7 (01 November 2006), R102. by Lu-Yong Wang, Michael Snyder, Mark Gerstein posted to chip-chip tools by brant on 2006-12-11 18:16:49 as along with 2 people and 2 groups jfr dpollard Bioinformatics EisenLab
	Genome scan for cis-regulatory DNA motifs associated with social behavior in honey bees. [My Copy] Proc Natl Acad Sci U S A (25 October 2006) by Saurabh Sinha, Xu Ling, Charles W W. Whitfield, Chengxiang Zhai, Gene E E. Robinson posted to behavior cis-regulation honeybee by brant on 2006-11-01 22:50:09 as along with 1 person and 1 group mimulus_99 EisenLab
	Scientific Software Development Is Not an Oxymoron [My Copy] PLoS Comput Biol In PLoS Comput Biol, Vol. 2, No. 9. (8 September 2006), e87. by Susan M. Baxter, Steven W. Day, Jacquelyn S. Fetrow, Stephanie J. Reisinger posted to best-practices compbio software by brant on 2006-10-11 16:18:11 as along with 13 people and 2 groups pipitone neilswainston jamesmorris daforerog mmwoodman agomez treangen fgibson aalibes hawkestein ddahlem rdiaz dolhuis EisenLab SNE
	Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. [My Copy] Nature, Vol. 448, No. 7153. (2 August 2007), pp. 553-560. by Tarjei S. Mikkelsen, Manching Ku, David B. Jaffe, et al.Biju Issac, Erez Lieberman, Georgia Giannoukos, Pablo Alvarez, William Brockman, Tae-Kyung K. Kim, Richard P. Koche, William Lee, Eric Mendenhall, Aisling O'Donovan, Aviva Presser, Carsten Russ, Xiaohui Xie, Alexander Meissner, Marius Wernig, Rudolf Jaenisch, Chad Nusbaum, Eric S. Lander, Bradley E. Bernstein posted to chromatin solexa by brant on 2007-08-02 00:57:25 as along with 20 people and 1 group kelsic hkuhn RyuOgawa stubrown ewilban1 tonamswish gdb guhjy dchughes vega kengg vplagnol olympos epigenetics bioyang cabbagezs rschulz slevy03 jasonflannick inesdesantiago EisenLab
	Trawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation [My Copy] Nature Methods, Vol. 4, No. 7. (24 June 2007), pp. 563-565. by Laurence Ettwiller, Benedict Paten, Mirana Ramialison, Ewan Birney, Joachim Wittbrodt posted to chip-chip discovery motif by brant on 2007-07-16 22:00:13 as along with 5 people and 1 group wowalz cisstem zwang maximilianh fpattyn EisenLab
	A Synthetic Maternal-Effect Selfish Genetic Element Drives Population Replacement in Drosophila. [My Copy] Science (29 March 2007) by Chun-Hong H. Chen, Haixia Huang, Catherine M M. Ward, et al.Jessica T T. Su, Lorian V V. Schaeffer, Ming Guo, Bruce A A. Hay posted to no-tag by brant on 2007-05-21 08:32:24 as along with 3 people and 2 groups shuzhens cmmorel andersbj EisenLab microRNA
	The Proteasome Restricts Permissive Transcription at Tissue-Specific Gene Loci in Embryonic Stem Cells [My Copy] Cell, Vol. 127, No. 7. (29 December 2006), pp. 1375-1388. by Henrietta Szutorisz, Andrew Georgiou, Laszlo Tora, Niall Dillon posted to transcription stem_cells proteasome by brant on 2007-01-26 02:22:29 as along with 3 people and 1 group inesdesantiago jjray tdmckee EisenLab
	Differential sensitivities of transcription factor target genes underlie cell type-specific gene expression profiles. [My Copy] Proc Natl Acad Sci U S A (16 October 2006) by Kirby D D. Johnson, Shin-Il I. Kim, Emery H H. Bresnick posted to chromatin dna-binding by brant on 2006-10-26 01:27:28 as along with 1 person and 1 group tuck EisenLab
	Evolution of alternative transcriptional circuits with identical logic [My Copy] Nature, Vol. 443, No. 7110. (28 September 2006), pp. 415-420. by Annie E. Tsong, Brian B. Tuch, Hao Li, Alexander D. Johnson posted to curcuit evolution regulatory yeast by brant on 2006-09-28 17:22:41 as along with 10 people and 4 groups joebilkobailey biomcgary cmzmasek balabu marcius adepace aswin srfairclough cisevol emptyhb EisenLab BioinfoCIPF SGU-CIPF cis-regulatory-evolution
	Reverse Engineering the Gap Gene Network of Drosophila melanogaster [My Copy] PLoS Computational Biology, Vol. 2, No. 5. (1 May 2006), e51. by Theodore J. Perkins, Johannes Jaeger, John Reinitz, Leon Glass posted to modeling network by brant on 2006-09-27 20:03:50 as along with 2 people and 1 group emilyhare adepace EisenLab
	Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene. [My Copy] Nat Genet (17 September 2006) by Hilde Janssens, Shuling Hou, Johannes Jaeger, et al.Ah-Ram R. Kim, Ekaterina Myasnikova, David Sharp, John Reinitz posted to no-tag by brant on 2006-09-27 19:58:03 as along with 6 people and 2 groups okarsligil dpollard adepace allPowerde Stew emptyhb Bioinformatics EisenLab
	Identifying regulatory mechanisms using individual variation reveals key role for chromatin modification [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 38. (19 September 2006), pp. 14062-14067. by Su-In Lee, Dana Pe'er, AimÃ©e M. Dudley, George M. Church, Daphne Koller posted to chromatin regulation variation by brant on 2006-09-22 08:12:14 as along with 8 people and 1 group ajbattle ptrobajo biomcgary balajis adepace stajich lp2 jasonflannick EisenLab
	Coding limits on the number of transcription factors [My Copy] BMC Genomics, Vol. 7 (19 September 2006), 239. by Shalev Itzkovitz, Tsvi Tlusty, Uri Alon posted to no-tag by brant on 2006-09-21 03:35:35 as along with 1 person and 2 groups nickluscombe EisenLab EBI-regulation
	Quantitative models of developmental pattern formation. [My Copy] Dev Cell, Vol. 11, No. 3. (September 2006), pp. 289-300. by G. T. Reeves, C. B. Muratov, T. Schüpbach, S. Y. Shvartsman posted to development modeling review by brant on 2006-09-14 07:47:08 as along with 1 person and 1 group dpollard EisenLab
	Predicting transcription factor binding sites using local overrepresentation and comparative genomics [My Copy] BMC Bioinformatics, Vol. 7 (31 August 2006), 396. by Matthieu Defrance, Helene Touzet posted to enhancer_finding prediction tools by brant on 2006-09-13 14:20:55 as along with 3 people and 1 group dpollard gpalidwor natstreet EisenLab
	Chromatin Insulators. [My Copy] Annu Rev Genet (5 September 2006) by Lourdes Valenzuela, Rohinton T T. Kamakaka posted to chromatin insulator review by brant on 2006-09-13 14:18:01 as along with 1 person and 1 group dpollard EisenLab
	Gene Transposition as a Cause of Hybrid Sterility in Drosophila [My Copy] Science, Vol. 313, No. 5792. (8 September 2006), pp. 1448-1450. by John P. Masly, Corbin D. Jones, Mohamed A. Noor, John Locke, Allen H. Orr posted to speciation transposons by brant on 2006-09-13 13:44:05 as along with 2 people and 1 group larios bpcusack EisenLab
	Dynamics of heat shock factor association with native gene loci in living cells [My Copy] Nature, Vol. 442, No. 7106. (23 August 2006), pp. 1050-1053. by Jie Yao, Katherine M. Munson, Watt W. Webb, John T. Lis posted to subnuclear_localization transcription by brant on 2006-09-02 20:14:15 as along with 1 person and 1 group skoch3 EisenLab
	Dpp-responsive Silencers Are Bound by a Trimeric Mad-Medea Complex [My Copy] J. Biol. Chem., Vol. 280, No. 43. (28 October 2005), pp. 36158-36164. by Sheng Gao, Janet Steffen, Allen Laughon posted to dna-binding smads by brant on 2006-08-31 06:17:11 as along with 1 group EisenLab
	Anatomic Demarcation by Positional Variation in Fibroblast Gene Expression Programs [My Copy] PLoS Genetics, Vol. 2, No. 7. (1 July 2006), e119. by John L. Rinn, Chanda Bondre, Hayes B. Gladstone, Patrick O. Brown, Howard Y. Chang posted to non-developmental_gene-reg by brant on 2006-08-21 15:50:29 as along with 2 people and 1 group brewbooks jasonflannick EisenLab
	The Literary Animal : Evolution and the Nature of Narrative (Rethinking Theory) [My Copy] (26 December 2005) posted to arts book evolution by brant on 2006-05-11 19:49:27 as along with 1 person and 1 group kinoved EisenLab
	Arthropod segmentation: beyond the Drosophila paradigm [My Copy] Nature Reviews Genetics, Vol. 6, No. 12. (10 November 2005), pp. 905-916. by Andrew D. Peel, Ariel D. Chipman, Michael Akam posted to no-tag by brant on 2006-01-13 20:35:57 as along with 2 people and 1 group emilyhare adepace EisenLab
	The genesis and evolution of homeobox gene clusters [My Copy] Nature Reviews Genetics, Vol. 6, No. 12. (10 November 2005), pp. 881-892. by Jordi Garcia-Fernàndez posted to no-tag by brant on 2006-01-13 20:33:36 as along with 7 people and 2 groups balicea emilyhare nickluscombe BioMaxi timflutre blobbybirdman blackm0k EisenLab EBI-regulation
	Maternal torso signaling controls body axis elongation in a short germ insect. [My Copy] Curr Biol, Vol. 15, No. 23. (6 December 2005), pp. 2131-2136. by M. Schoppmeier, R. Schröder posted to evolution patterning terminal tribolium by brant on 2005-12-13 08:25:21 as along with 1 group EisenLab
	Allele-Specific Chromatin Remodeling in the ZPBP2/GSDMB/ORMDL3 Locus Associated with the Risk of Asthma and Autoimmune Disease [My Copy] The American Journal of Human Genetics, Vol. 85, No. 3. (11 September 2009), pp. 377-393. by Dominique J. Verlaan, Soizik Berlivet, Gary M. Hunninghake, et al.Anne-Marie Madore, Mathieu Larivière, Sanny Moussette, Elin Grundberg, Tony Kwan, Manon Ouimet, Bing Ge posted to nucleosomes expression_domain cis-regulation chromatin association by brant on 2009-09-08 22:03:52 as along with 1 person pkonings
	Single-molecule imaging of DNA curtains reveals intrinsic energy landscapes for nucleosome deposition. [My Copy] Nature structural & molecular biology (6 September 2009) by Mari-Liis L. Visnapuu, Eric C. Greene posted to nucleosomes deposition by brant on 2009-09-08 21:03:53 as
	Personalized copy number and segmental duplication maps using next-generation sequencing. [My Copy] Nature genetics, Vol. 41, No. 10. (30 October 2009), pp. 1061-1067. by Can Alkan, Jeffrey M. Kidd, Tomas Marques-Bonet, et al.Gozde Aksay, Francesca Antonacci, Fereydoun Hormozdiari, Jacob O. Kitzman, Carl Baker, Maika Malig, Onur Mutlu, S. Cenk Sahinalp, Richard A. Gibbs, Evan E. Eichler posted to sequencing next_generation cnv by brant on 2009-09-02 19:23:10 as along with 30 people and 1 group ongenetics chvlyl leemachado daed gbenson n00c bozdagd dakelley sbmontgomery eshirdel merpublic shyamsg scmelton qayub natstreet fenghezi Annab djkt nuin xingxu jamesmorris rdiaz torfinnnome jandot pkonings danmaclean daforerog frohike rschulz gangcai Journal picks
	Evolving enhancer-promoter interactions within the tinman complex of the flour beetle, Tribolium castaneum. [My Copy] Development (Cambridge, England), Vol. 136, No. 18. (15 September 2009), pp. 3153-3160. by Jessica Doran D. Cande, Vivek S. Chopra, Michael Levine posted to heart enhancer-promoter by brant on 2009-08-29 23:49:09 as along with 2 people and 2 groups cisevol emmahe cis-regulatory-evolution BergmanLab
	Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention. [My Copy] Genome research, Vol. 19, No. 11. (29 November 2009), pp. 2036-2051. by Andrew L. Hufton, Susanne Mathia, Helene Braun, et al.Udo Georgi, Hans Lehrach, Martin Vingron, Albert J. Poustka, Georgia Panopoulou posted to noncoding genome conserved by brant on 2009-08-29 23:41:40 as along with 4 people and 1 group provero djkt alhufton maximilianh Journal picks
	Seeder: discriminative seeding DNA motif discovery [My Copy] Bioinformatics (Oxford, England) In Bioinformatics, Vol. 24, No. 20. (15 October 2008), pp. 2303-2307. by Francois Fauteux, Mathieu Blanchette, Martina V. Stromvik posted to motif_finding by brant on 2008-09-11 22:20:22 as along with 8 people bsamal wowalz druvus natstreet nuin maximilianh isimpson idonaldson
	The Regulation and Evolution of a Genetic Switch Controlling Sexually Dimorphic Traits in Drosophila [My Copy] Cell, Vol. 134, No. 4. (22 August 2008), pp. 610-623. by Thomas M. Williams, Jane E. Selegue, Thomas Werner, Nicolas Gompel, Artyom Kopp, Sean B. Carroll posted to carroll evo-devo sexual_dimorphism by brant on 2008-09-11 22:19:27 as along with 2 people emptyhb caseybrown
	Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology [My Copy] Nucl. Acids Res., Vol. 36, No. 19. (1 November 2008), e122. by Richard Cronn, Aaron Liston, Matthew Parks, David S. Gernandt, Rongkun Shen, Todd Mockler posted to bias multiplex solexa by brant on 2008-09-10 23:31:10 as along with 9 people druvus natstreet usagi-kirin reyez mlog pdexheimer abizar ojabado aconesa
	Intron length increases oscillatory periods of gene expression in animal cells [My Copy] Genes & Development, Vol. 22, No. 17. (1 September 2008), pp. 2342-2346. by Ian A. Swinburne, David G. Miguez, Dirk Landgraf, Pamela A. Silver posted to expression intron by brant on 2008-09-10 23:27:40 as along with 2 people and 1 group inesdesantiago stajich Mycology
	Turnover of binding sites for transcription factors involved in early Drosophila development [My Copy] Gene, Vol. 310 (22 May 2003), pp. 215-220. by Javier Costas,, Fernando Casares,, Jorge Vieira, posted to binding binding_site site turnover by brant on 2008-08-04 15:20:55 as along with 1 person emptyhb
	The lepidopteran transposon vector, piggyBac, mediates germ-line transformation in the Mediterranean fruit fly. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 95, No. 13. (23 June 1998), pp. 7520-7525. by A. M. Handler, S. D. McCombs, M. J. Fraser, S. H. Saul posted to tephritid transposons by brant on 2008-06-11 19:47:53 as
	Medfly transposable elements: diversity, evolution, genomic impact and possible applications. [My Copy] Insect biochemistry and molecular biology, Vol. 34, No. 2. (February 2004), pp. 139-148. by L. M. Gomulski, C. Torti, V. Murelli, M. Bonizzoni, G. Gasperi, A. R. Malacrida posted to tephritid transposons by brant on 2008-06-11 19:46:22 as along with 1 person operon
	Inferences on the population structure and colonization process of the invasive oriental fruit fly, Bactrocera dorsalis (Hendel) [My Copy] Molecular Ecology, Vol. 16, No. 17. (September 2007), pp. 3522-3532. by N. Aketarawong, M. Bonizzoni, S. Thanaphum, et al.L. M. Gomulski, G. Gasperi, A. R. Malacrida, C. R. Gugliemino posted to colonization population structure tephritid by brant on 2008-06-11 19:45:43 as
	Bactrocera tryoni and closely related pest tephritids--molecular analysis and prospects for transgenic control strategies [My Copy] Insect Biochemistry and Molecular Biology In Insect Transgenesis and its Potential Role in Agriculture, Vol. 34, No. 2. (February 2004), pp. 167-176. by Kathryn A. Raphael, Steven Whyard, Deborah Shearman, Xin An, Marianne Frommer posted to review tephritid transgenic by brant on 2008-06-11 02:31:18 as
	Extending Genomics to Natural Communities and Ecosystems [My Copy] Science, Vol. 320, No. 5875. (25 April 2008), pp. 492-495. by Thomas G. Whitham, Stephen P. Difazio, Jennifer A. Schweitzer, et al.Stephen M. Shuster, Gery J. Allan, Joseph K. Bailey, Scott A. Woolbright posted to ecology mapping molecular review by brant on 2008-05-15 19:05:15 as along with 6 people and 3 groups natstreet ArtemPankin neteler farhat jago jlgreen Khavkin's lab Green Lab iSEEM
	From Genotype to Phenotype: Systems Biology Meets Natural Variation [My Copy] Science, Vol. 320, No. 5875. (25 April 2008), pp. 495-497. by Philip N. Benfey, Thomas Mitchell-Olds posted to genotype-phenotype mapping review by brant on 2008-05-15 19:04:38 as along with 18 people and 5 groups bertelsen balicea maren Keywan slevy03 Zephyrus natstreet stringertheory applebyb zwang bootsy echinotrix ArtemPankin adacier guhjy ashko kaniko daed Ondex SABR - Bioenergy project VUMCGenomics Roswell Cancer Crosstalk R.E.A.D Khavkin's lab
	Conserved distances between vertebrate highly conserved elements [My Copy] Human Molecular Genetics, Vol. 15, No. 19. (1 October 2006), pp. 2911-2922. by Sun, Hong, Skogerbo, Geir posted to spacing ultraconserved_regions vertebrate by brant on 2008-05-15 18:46:00 as along with 1 person operon
	Multiple conserved regulatory elements with overlapping functions determine Sox10 expression in mouse embryogenesis. [My Copy] Nucleic Acids Res (26 September 2007) by Torsten Werner, Alexander Hammer, Mandy Wahlbuhl, Michael R R. Bösl, Michael Wegner posted to conservation enhancer_finding vertebrate by brant on 2008-05-15 18:30:51 as along with 1 person maximilianh
	Purifying Selection Maintains Highly Conserved Noncoding Sequences in Drosophila. [My Copy] Mol Biol Evol (23 July 2007) by Sònia Casillas, Antonio Barbadilla, Casey M M. Bergman posted to evolution molecular non-coding by brant on 2008-05-13 19:01:10 as along with 7 people and 2 groups operon dpollard emilyhare Garamonfok Stew cisevol emptyhb EisenLab cis-regulatory-evolution
	Tracing the evolutionary history of Drosophila regulatory regions with models that identify transcription factor binding sites. [My Copy] Mol Biol Evol, Vol. 20, No. 5. (May 2003), pp. 703-714. by E. T. Dermitzakis, C. M. Bergman, A. G. Clark posted to evolution molecular non-coding by brant on 2008-05-13 19:00:46 as along with 2 people and 1 group cisevol emptyhb cis-regulatory-evolution

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