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Group: EisenLab - with tag drosophila [126 articles]

Recent papers posted by members of the EisenLab group with tag drosophila
  • Genomic Analysis of Adaptive Differentiation in Drosophila melanogaster
    Genetics, Vol. 179, No. 1. (1 May 2008), pp. 455-473.
    by Thomas L Turner, Mia T Levine, Melissa L Eckert, David J Begun
    posted to drosophila clinal adaptation by stajich to the group EisenLab on 2008-05-21 04:40:09 as ***** along with 1 person and 1 group pradiptaray Berkeley Mycology
  • Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome
    Genome Res. (7 November 2007), gr.6691007.
    by Peter Andolfatto
    posted to drosophila hitchhiking positive_selection by dpollard to the group EisenLab on 2008-02-13 06:38:24 as *** along with 3 people djkt usagi-kirin mimulus_99
  • Delimiting the conserved features of hunchback function for the trunk organization of insects.
    Development (23 January 2008)
    by Henrique Marques-Souza, Manuel Aranda, Diethard Tautz
    posted to drosophila expression_pattern gene_function_evolution insects pattern targets transcription_factor tribolium by dpollard to the group EisenLab on 2008-02-01 06:06:54 as **
  • Contrasting the Efficacy of Selection on the X and Autosomes in Drosophila.
    Mol Biol Evol (13 December 2007)
    by Nadia D D Singh, Amanda M M Larracuente, Andrew G G Clark
    posted to drosophila selection x_vs_autosomes by dpollard to the group EisenLab on 2008-01-11 18:03:53 as ****
  • Transcriptional regulation of a pair-rule stripe in Drosophila.
    Genes Dev, Vol. 5, No. 5. (May 1991), pp. 827-839.
    by S Small, R Kraut, T Hoey, R Warrior, M Levine
    posted to drosophila embryonic_patterning grammar repression seminal_paper by dpollard to the group EisenLab on 2007-12-05 19:31:27 as ** along with 1 person lusk
  • Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes
    Genome Res. (7 November 2007), gr.7105007.
    by Matthew D Rasmussen, Manolis Kellis
    posted to drosophila method phylogeny prediction yeast by dpollard to the group EisenLab on 2007-11-21 02:56:16 as read along with 2 people stajich caseybrown
  • Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus.
    Evol Dev, Vol. 6, No. 5. (t 2004), pp. 325-335.
    by J Costas, PS Pereira, CP Vieira, S Pinho, J Vieira, F Casares
    posted to cis_regulatory_elements drosophila expression_divergence expression_pattern turnover by dpollard to the group EisenLab on 2007-11-21 01:23:45 as read along with 1 group cis-regulatory-evolution
  • Turnover of binding sites for transcription factors involved in early Drosophila development.
    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 to the group EisenLab on 2007-11-21 01:22:24 as read along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Evolution of genes and genomes on the Drosophila phylogeny
    Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.
    by Drosophila Consortium
    posted to 12flies annotation comparative drosophila fly genome by indigoviolet to the group EisenLab on 2007-11-19 08:35:38 as ** along with 16 people and 3 groups isimpson CharlesM PetrovLab operon tmmurali djkt timflutre stajich zwang Garamonfok lp2 hpaces caseybrown emptyhb urgi noor Bioinformatics csb_journal_club_public Berkeley Mycology
  • Unmasking Activation of the Zygotic Genome Using Chromosomal Deletions in the Drosophila Embryo
    PLoS Biology, Vol. 5, No. 5. (1 May 2007), e117.
    by Stefano De Renzis, Olivier Elemento, Saeed Tavazoie, Eric F Wieschaus
    posted to drosophila eisen_journal_club embryo gene_expression matt_presented round_robin by dpollard to the group EisenLab on 2007-11-17 00:09:40 as ** along with 1 person and 1 group wrowell Cline_lab
  • Global analysis of patterns of gene expression during Drosophila embryogenesis
    Genome Biology, Vol. 8 (23 July 2007), R145.
    by Pavel Tomancak, Benjamin P Berman, Amy Beaton, Richard Weiszmann, Elaine Kwan, Volker Hartenstein, Susan E Celniker, Gerald M Rubin
    posted to drosophila eisen_journal_club embryonic_patterning expression_pattern gene_expression matt_presented round_robin by dpollard to the group EisenLab on 2007-11-17 00:04:13 as read along with 1 person caseybrown
  • Reliable prediction of regulator targets using 12 Drosophila genomes.
    Genome Res (7 November 2007)
    by Alexander Stark, Pouya Kheradpour, Sushmita Roy, Manolis Kellis
    posted to cis_regulatory_elements drosophila eisen_journal_club matt_presented prediction round_robin by dpollard to the group EisenLab on 2007-11-17 00:01:35 as *** along with 7 people and 1 group lp2 nklee maximilianh roys caseybrown emptyhb barwil cis-regulatory-evolution
  • Constraint and turnover in sex-biased gene expression in the genus Drosophila
    Nature, Vol. 450, No. 7167., pp. 233-237.
    by Yu Zhang, David Sturgill, Michael Parisi, Sudhir Kumar, Brian Oliver
    posted to dan_presented drosophila eisen_journal_club expression_divergence gene_expression round_robin by dpollard to the group EisenLab on 2007-11-16 23:49:54 as read along with 1 person and 1 group indigoviolet cis-regulatory-evolution
  • The regulatory content of intergenic DNA shapes genome architecture.
    Genome Biol, Vol. 5, No. 4. (2004)
    by CE Nelson, BM Hersh, SB Carroll
    posted to drosophila gene_expression genome_architecture nematode noncoding by dpollard to the group EisenLab on 2007-11-14 21:21:28 as read along with 4 people and 2 groups madhadron elzodw blobbybirdman cisevol cis-regulatory-evolution BergmanLab
  • Principles of Genome Evolution in the Drosophila melanogaster Species Group
    PLoS Biology, Vol. 5, No. 6. (1 June 2007), e152.
    by José M Ranz, Damien Maurin, Yuk S Chan, Marcin von Grotthuss, Ladeana W Hillier, John Roote, Michael Ashburner, Casey M Bergman
    posted to drosophila evolution genome_architecture inversion by dpollard to the group EisenLab on 2007-11-14 21:16:50 as ** along with 4 people operon zwang nosada17 maximilianh
  • Rapid sequence turnover at an intergenic locus in Drosophila.
    Mol Biol Evol, Vol. 21, No. 4. (April 2004), pp. 670-680.
    by ND Singh, DA Petrov
    posted to drosophila genome_architecture genome_size indels noncoding by dpollard to the group EisenLab on 2007-11-14 21:13:48 as read
  • Pseudogene evolution in Drosophila suggests a high rate of DNA loss.
    Mol Biol Evol, Vol. 15, No. 11. (November 1998), pp. 1562-1567.
    by DA Petrov, YC Chao, EC Stephenson, DL Hartl
    posted to drosophila genome_architecture genome_size indels pseudogene by dpollard to the group EisenLab on 2007-11-14 21:12:54 as ** along with 1 person skumagai
  • How intron splicing affects the deletion and insertion profile in Drosophila melanogaster.
    Genetics, Vol. 162, No. 3. (November 2002), pp. 1233-1244.
    by SE Ptak, DA Petrov
    posted to drosophila genome_architecture genome_size indels splicing by dpollard to the group EisenLab on 2007-11-14 21:12:02 as **
  • DNA loss and evolution of genome size in Drosophila.
    Genetica, Vol. 115, No. 1. (May 2002), pp. 81-91.
    by DA Petrov
    posted to drosophila genome_architecture genome_size indels by dpollard to the group EisenLab on 2007-11-14 21:11:15 as ** along with 1 person timflutre
  • Pseudogene evolution and natural selection for a compact genome.
    J Hered, Vol. 91, No. 3. (n 2000), pp. 221-227.
    by DA Petrov, DL Hartl
    posted to drosophila genome_architecture genome_size indels pseudogene selection by dpollard to the group EisenLab on 2007-11-14 21:01:00 as **
  • Evidence for DNA loss as a determinant of genome size.
    Science, Vol. 287, No. 5455. (11 February 2000), pp. 1060-1062.
    by DA Petrov, TA Sangster, JS Johnston, DL Hartl, KL Shaw
    posted to drosophila genome_architecture genome_size indels insects by dpollard to the group EisenLab on 2007-11-14 20:59:23 as ** along with 1 person and 1 group penka Nie
  • High rate of DNA loss in the Drosophila melanogaster and Drosophila virilis species groups.
    Mol Biol Evol, Vol. 15, No. 3. (March 1998), pp. 293-302.
    by DA Petrov, DL Hartl
    posted to drosophila genome_architecture genome_size indels by dpollard to the group EisenLab on 2007-11-14 20:58:27 as ** along with 1 person skumagai
  • Trash DNA is what gets thrown away: high rate of DNA loss in Drosophila.
    Gene, Vol. 205, No. 1-2. (31 December 1997), pp. 279-289.
    by DA Petrov, DL Hartl
    posted to drosophila genome_architecture genome_size indels by dpollard to the group EisenLab on 2007-11-14 20:57:45 as ** along with 1 person klo
  • High intrinsic rate of DNA loss in Drosophila.
    Nature, Vol. 384, No. 6607. (28 November 1996), pp. 346-349.
    by DA Petrov, ER Lozovskaya, DL Hartl
    posted to drosophila genome_architecture genome_size indels by dpollard to the group EisenLab on 2007-11-14 20:55:15 as ** along with 3 people skumagai timflutre urgi
  • Similar Levels of X-linked and Autosomal Nucleotide Variation in African and non-African populations of Drosophila melanogaster
    BMC Evolutionary Biology, Vol. 7 (25 October 2007), 202.
    by Nadia D Singh, Michael J Macpherson, Jeffrey D Jensen, Dmitri A Petrov
    posted to drosophila polymorphism population_genetics population_structure by dpollard to the group EisenLab on 2007-11-14 20:37:17 as *** along with 1 person PetrovLab
  • Rampant Adaptive Evolution in Regions of Proteins with Unknown Function in Drosophila simulans.
    PLoS ONE, Vol. 2, No. 10. (2007)
    by AK Holloway, DJ Begun
    posted to adaptive drosophila evolution genomics population_genomics by stajich to the group EisenLab on 2007-11-06 17:46:17 as *** along with 1 person pradiptaray
  • From gradients to stripes in Drosophila embryogenesis: filling in the gaps
    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 to the group EisenLab on 2007-11-05 21:21:07 as **
  • Gradients and thresholds: BMP response gradients unveiled in Drosophila embryos
    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 to the group EisenLab on 2007-11-05 21:19:39 as **
  • Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information.
    Nucleic Acids Res, Vol. 31, No. 20. (15 October 2003), pp. 6016-6026.
    by VJ Makeev, AP Lifanov, AG Nazina, DA Papatsenko
    posted to binding_site cis_regulatory_elements drosophila grammar helical_phasing by dpollard to the group EisenLab on 2007-10-31 22:40:43 as read along with 2 people and 1 group oannes lusk Regulomics_UCHSC
  • Making connections: boundaries and insulators in Drosophila.
    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 to the group EisenLab on 2007-10-25 02:15:41 as ** along with 1 person dchughes
  • Temporal ChIP-on-chip reveals Biniou as a universal regulator of the visceral muscle transcriptional network.
    Genes Dev, Vol. 21, No. 19. (1 October 2007), pp. 2448-2460.
    by JS Jakobsen, M Braun, J Astorga, EH Gustafson, T Sandmann, M Karzynski, P Carlsson, EE Furlong
    posted to chip_chip drosophila by dpollard to the group EisenLab on 2007-10-25 02:13:01 as ** along with 1 person Stew
  • We gather together: insulators and genome organization.
    Curr Opin Genet Dev (1 October 2007)
    by Julie A A Wallace, Gary Felsenfeld
    posted to drosophila insulators by dpollard to the group EisenLab on 2007-10-25 02:00:08 as *** along with 3 people dchughes sebastien_vigneau maximilianh
  • Comparing active and repressed expression states of genes controlled by the Polycomb/Trithorax group proteins.
    Proc Natl Acad Sci U S A, Vol. 104, No. 42. (16 October 2007), pp. 16615-16620.
    by C Beisel, A Buness, IM Roustan-Espinosa, B Koch, S Schmitt, SA Haas, M Hild, T Katsuyama, R Paro
    posted to chip_chip chromatin_modification drosophila transcription by dpollard to the group EisenLab on 2007-10-25 01:52:45 as **
  • CAF-1 is essential for Drosophila development and involved in the maintenance of epigenetic memory.
    Dev Biol, Vol. 311, No. 1. (1 November 2007), pp. 213-222.
    by Y Song, F He, G Xie, X Guo, Y Xu, Y Chen, X Liang, I Stagljar, D Egli, J Ma, R Jiao
    posted to chromatin development drosophila by dpollard to the group EisenLab on 2007-10-25 01:37:16 as **
  • X Chromosome Inactivation during Drosophila Spermatogenesis.
    PLoS Biol, Vol. 5, No. 10. (9 October 2007)
    by Winfried Hense, John F F Baines, John Parsch
    posted to drosophila x_inactivation by dpollard to the group EisenLab on 2007-10-25 01:13:13 as **
  • The gap gene system of Drosophila melanogaster: Model-fitting and validation.
    Ann N Y Acad Sci (12 October 2007)
    by Theodore J J Perkins
    posted to drosophila embryonic_patterning modeling regulatory_network by dpollard to the group EisenLab on 2007-10-25 01:09:03 as **
  • Global Analysis of mRNA Localization Reveals a Prominent Role in Organizing Cellular Architecture and Function
    Cell, Vol. 131, No. 1. (5 October 2007), pp. 174-187.
    by Eric Lecuyer, Hideki Yoshida, Neela Parthasarathy, Christina Alm, Tomas Babak, Tanja Cerovina, Timothy R Hughes, Pavel Tomancak, Henry M Krause
    posted to drosophila gene_expression in_situ by dpollard to the group EisenLab on 2007-10-19 23:10:47 as *** along with 2 people wrowell oelemento
  • Ultraconserved elements in insect genomes: A highly conserved intronic sequence implicated in the control of homothorax mRNA splicing.
    Genome Res (17 May 2005)
    by Evgeny A A Glazov, Michael Pheasant, Elizabeth A A McGraw, Gill Bejerano, John S S Mattick
    posted to ultraconserved splicing mrna insect drosophila by Stew to the group EisenLab on 2007-09-19 18:41:01 as **** along with 2 people ujh sujaikumar
  • Comprehensive identification of Drosophila dorsal-ventral patterning genes using a whole-genome tiling array
    Proceedings of the National Academy of Sciences, Vol. 103, No. 34. (22 August 2006), pp. 12763-12768.
    by Frederic Biemar, David A Nix, Jessica Piel, Brant Peterson, Matthew Ronshaugen, Victor Sementchenko, Ian Bell, Robert J Manak, Michael S Levine
    posted to dv drosophila chip-chip by Stew to the group EisenLab on 2007-09-18 01:02:00 as ** along with 1 person emptyhb
  • A conserved developmental program for sensory organ formation in Drosophila melanogaster.
    Nat Genet, Vol. 36, No. 3. (March 2004), pp. 293-297.
    by N Niwa, Y Hiromi, M Okabe
    posted to drosophila conserved by Stew to the group EisenLab on 2007-09-18 00:54:47 as **
  • Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome.
    Proc Natl Acad Sci U S A, Vol. 99, No. 2. (22 January 2002), pp. 757-762.
    by BP Berman, Y Nibu, BD Pfeiffer, P Tomancak, SE Celniker, M Levine, GM Rubin, MB Eisen
    posted to prediction modules drosophila clustering cis-regulatory by Stew to the group EisenLab on 2007-09-17 20:14:51 as read along with 3 people indigoviolet emptyhb csdhwang
  • Purifying Selection Maintains Highly Conserved Noncoding Sequences in Drosophila.
    Mol Biol Evol (23 July 2007)
    by Sònia Casillas, Antonio Barbadilla, Casey M M Bergman
    posted to selection non-coding drosophila dna by emilyhare to the group EisenLab on 2007-08-04 00:28:09 as ** along with 7 people and 1 group brant operon dpollard Garamonfok Stew cisevol emptyhb cis-regulatory-evolution
  • Gsalpha Is Involved in Sugar Perception in Drosophila melanogaster
    J. Neurosci., Vol. 26, No. 23. (7 June 2006), pp. 6143-6152.
    by Kohei Ueno, Soh Kohatsu, Catherine Clay, Michael Forte, Kunio Isono, Yoshiaki Kidokoro
    posted to gustatory drosophila by Stew to the group EisenLab on 2007-08-02 23:36:13 as **
  • Drosophila Gr5a encodes a taste receptor tuned to trehalose.
    Proc Natl Acad Sci U S A, Vol. 100 Suppl 2 (25 November 2003), pp. 14526-14530.
    by S Chyb, A Dahanukar, A Wickens, JR Carlson
    posted to trehalose gustatory drosophila by Stew to the group EisenLab on 2007-08-02 23:31:39 as ***
  • Taste and pheromone perception in the fruit fly Drosophila melanogaster.
    Pflugers Arch, Vol. 454, No. 5. (August 2007), pp. 735-747.
    by ML Ebbs, H Amrein
    posted to tase smell review olfactory gustatory drosophila by Stew to the group EisenLab on 2007-08-02 00:52:06 as read
  • Prediction of Gene Expression in Embryonic Structures of Drosophila melanogaster
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e144.
    by Anastasia A Samsonova, Mahesan Niranjan, Steven Russell, Alvis Brazma
    posted to tissue prediction expression drosophila by brant to the group EisenLab on 2007-07-24 19:58:38 as ** along with 2 people dpollard sebastien_vigneau
  • Biological function of unannotated transcription during the early development of Drosophila melanogaster
    Nature Genetics, Vol. 38, No. 10. (03 September 2006), pp. 1151-1158.
    by Robert J Manak, Sujit Dike, Victor Sementchenko, Philipp Kapranov, Frederic Biemar, Jeff Long, Jill Cheng, Ian Bell, Srinka Ghosh, Antonio Piccolboni, Thomas R Gingeras
    posted to noncoding_transcription drosophila array by dpollard to the group EisenLab on 2007-07-13 06:13:53 as read along with 5 people and 5 groups neveaire djkt wrowell Stew xingxu Biostatistics Computational-Genomics Bioinformatics Neuroscience Cline_lab
  • Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses
    Genome Biology, Vol. 8 (05 June 2007), R101.
    by Long Li, Qianqian Zhu, Xin He, Saurabh Sinha, Marc S Halfon
    posted to round_robin regulatory_sequence_evolution enhancer eisen_journal_club drosophila crm cis_regulatory_elements angela_presented by dpollard to the group EisenLab on 2007-07-02 21:12:58 as *** along with 4 people isimpson lusk cjeans maximilianh
  • PIF-like Transposons Are Common in Drosophila and Have Been Repeatedly Domesticated to Generate New Host Genes.
    Mol Biol Evol (7 June 2007)
    by Claudio Casola, A Michelle M Lawing, Esther Betrán, Cédric Feschotte
    posted to transposable_elements te drosophila domestication by dpollard to the group EisenLab on 2007-06-29 05:51:44 as ** along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • Life cycle transcriptome of the malaria mosquito Anopheles gambiae and comparison with the fruitfly Drosophila melanogaster
    PNAS (11 June 2007), 0703988104.
    by Anastasios C Koutsos, Claudia Blass, Stephan Meister, Sabine Schmidt, Robert M Maccallum, Marcelo B Soares, Frank H Collins, Vladimir Benes, Evgeny Zdobnov, Fotis C Kafatos, George K Christophides
    posted to round_robin regulatory_evolution rate insect expression_divergence eisen_journal_club drosophila dan_presented array by dpollard to the group EisenLab on 2007-06-29 05:48:18 as *** along with 2 people cjeans george_g
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