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maximilianhs library [757 articles]

Neue Artikel in maximilianhs Bibliothek.
  • Interchromosomal associations between alternatively expressed loci
    Nature (08 May 2005)
    by Charalampos G Spilianakis, Maria D Lalioti, Terrence Town, Gap R Lee, Richard A Flavell
    posted to interchromosomal by maximilianh on 2008-05-16 17:22:29 as ** along with 2 people lingchong JeffR100
  • Interchromosomal Interactions and Olfactory Receptor Choice
    Cell, Vol. 126, No. 2. (28 July 2006), pp. 403-413.
    by Stavros Lomvardas, Gilad Barnea, David J Pisapia, Monica Mendelsohn, Jennifer Kirkland, Richard Axel
    posted to interchromosomal by maximilianh on 2008-05-16 17:21:38 as ** along with 1 person margaritis
  • A transcriptional enhancer from the coding region of ADAMTS5.
    PLoS ONE, Vol. 3, No. 5. (2008)
    by KK Barthel, X Liu
    posted to enhancerincodingregion by maximilianh on 2008-05-16 12:38:11 as **
  • A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning
    Genome Res. (13 May 2008), gr.076463.108.
    by Anton Valouev, Jeffrey Ichikawa, Thaisan Tonthat, Jeremy Stuart, Swati Ranade, Heather Peckham, Kathy Zeng, Joel A Malek, Gina Costa, Kevin Mckernan, Arend Sidow, Andrew Fire, Steven M Johnson
    posted to nucleosome nomotif motif chromatin by maximilianh on 2008-05-16 12:23:42 as ** along with 1 person caseybrown
  • Multigene Analyses of Bilaterian Animals Corroborate the Monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia
    Molecular Biology and Evolution, Vol. 22, No. 5. (15 May 2005), pp. 1246-1253.
    by Herve Philippe, Nicolas Lartillot, Henner Brinkmann
    posted to phylogeny ascidians by maximilianh on 2008-05-13 13:52:21 as **
  • OGtree: a tool for creating genome trees of prokaryotes based on overlapping genes.
    Nucleic acids research (2 May 2008)
    by Li-Wei W Jiang, Kuang-Lun L Lin, Chin Lung L Lu
    posted to syntenytools syntenypaper synteny by maximilianh on 2008-05-11 22:20:19 as **
  • Transcription factor and microRNA motif discovery: The Amadeus platform and a compendium of metazoan target sets.
    Genome research (14 April 2008)
    by Chaim Linhart, Yonit Halperin, Ron Shamir
    posted to motif discovery by maximilianh on 2008-05-09 16:05:47 as ** along with 3 people and 1 group ealloza idonaldson maralena BergmanLab
  • The Otx binding site is required for the activation of HpOtxL mRNA expression in the sea urchin, Hemicentrotus pulcherrimus.
    Development, growth & differentiation, Vol. 46, No. 1. (February 2004), pp. 61-67.
    by Y Hayashibara, K Mitsunaga-Nakatsubo, N Sakamoto, T Shimotori, K Akasaka, T Yamamoto
    posted to enhancer-vertebrate-invertebrate cross-species-enhancer by maximilianh on 2008-05-09 16:02:38 as **
  • Acetylated YY1 regulates Otx2 expression in anterior neuroectoderm at two cis-sites 90 kb apart
    The EMBO Journal, Vol. aop, No. current. (01 March 2007)
    by Nobuyoshi Takasaki, Daisuke Kurokawa, Rika Nakayama, Jun-Ichi Nakayama, Shinichi Aizawa
    posted to enhancer-vertebrate-invertebrate cross-species-enhancer by maximilianh on 2008-05-09 15:58:56 as **
  • An evaluation of information content as a metric for the inference of putative conserved noncoding regions in DNA sequences using a genetic algorithms approach.
    IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM, Vol. 5, No. 1. (r 2008), pp. 1-14.
    by CB Congdon, JC Aman, GM Nava, HR Gaskins, CJ Mattingly
    posted to motif discovery by maximilianh on 2008-05-07 18:36:26 as **
  • Lifting the veil on the transcriptome
    Genome Biology, Vol. 9 (24 April 2008), 218.
    by Kevin P Callahan, Scott J Butler
    posted to ncrna mirna by maximilianh on 2008-05-07 18:13:20 as **
  • Global chromatin domain organization of the Drosophila genome.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by E de Wit, U Braunschweig, F Greil, HJ Bussemaker, B van Steensel
    posted to dna chromatin 3dstructure by maximilianh on 2008-05-07 15:55:50 as **
  • CompariMotif: quick and easy comparisons of sequence motifs
    Bioinformatics, Vol. 24, No. 10. (15 May 2008), pp. 1307-1309.
    by Richard J Edwards, Norman E Davey, Denis C Shields
    posted to pwmcomparison motif by maximilianh on 2008-05-07 15:30:59 as ** along with 2 people GustavoLacerda jyuh
  • Combining Statistical Alignment and Phylogenetic Footprinting to Detect Regulatory Elements.
    Bioinformatics (18 March 2008)
    by R Satija, L Pachter, J Hein
    posted to noalignment footprinting alignment by maximilianh on 2008-05-07 15:29:24 as ** along with 3 people Ema gjuggler eckart_bindewald
  • The words of the regulatory code are arranged in a variable manner in highly conserved enhancers.
    Developmental biology (4 April 2008)
    by Sepand Rastegar, Isabell Hess, Thomas Dickmeis, Jean Christophe C Nicod, Raymond Ertzer, Yavor Hadzhiev, Wolf-Gerolf G Thies, Gerd Scherer, Uwe Strähle
    posted to notconserved core cns-similarity cns-enhancer-screen cns-differences by maximilianh on 2008-05-06 23:57:24 as ** along with 1 person brant
  • ConTra: a promoter alignment analysis tool for identification of transcription factor binding sites across species
    Nucl. Acids Res. (3 May 2008), gkn195.
    by Bart Hooghe, Paco Hulpiau, Frans van Roy, Pieter De Bleser
    posted to promoter motif conserved alignment by maximilianh on 2008-05-06 15:56:53 as ** along with 3 people idonaldson jyuh maralena
  • Detecting cis-regulatory binding sites for cooperatively binding proteins
    Nucl. Acids Res., Vol. 36, No. 8. (1 May 2008), e46.
    by Liesbeth van Oeffelen, Pierre Cornelis, Wouter Van Delm, Fedor De Ridder, Bart De Moor, Yves Moreau
    posted to scanning motif combination by maximilianh on 2008-05-06 15:27:19 as ** along with 2 people idonaldson tmmurali
  • Determinants of a transcriptionally competent environment at the GM-CSF promoter
    Nucl. Acids Res., Vol. 36, No. 8. (1 May 2008), pp. 2639-2653.
    by KH Brettingham-Moore, OR Sprod, X Chen, P Oakford, MF Shannon, AF Holloway
    posted to promoter histones chromatin 3dstructure by maximilianh on 2008-05-06 15:25:04 as **
  • MicroRNAs and the advent of vertebrate morphological complexity
    Proceedings of the National Academy of Sciences (14 February 2008), 0712259105.
    by Alysha M Heimberg, Lorenzo F Sempere, Vanessa N Moy, Philip C Donoghue, Kevin J Peterson
    posted to ncrna mirna by maximilianh on 2008-05-06 13:23:48 as ** along with 6 people and 2 groups djkt stajich heliopais maralena zhanglab prabhubpatil microRNA Berkeley Mycology
  • Computational intelligence approaches for pattern discovery in biological systems
    Brief Bioinform (5 May 2008), bbn021.
    by Gary B Fogel
    posted to review motif by maximilianh on 2008-05-06 13:22:16 as ** along with 1 person renatomilani
  • Genome-wide transcription and the implications for genomic organization.
    Nat Rev Genet (8 May 2007)
    by Philipp Kapranov, Aarron T T Willingham, Thomas R R Gingeras
    posted to ncrna-long ncrna by maximilianh on 2008-05-01 10:10:40 as ** along with 13 people and 5 groups jyuh balicea xico dchughes kengg sebastien_vigneau zwang ajgentles asddd hanansh antonkratz vietanh0 inesdesantiago Bioinformatics WetBiology G4ID Plantandetc Genetics-of-Gambling
  • Identification of active transcriptional regulatory modules by the functional assay of DNA from nucleosome-free regions.
    Genome research (25 April 2008)
    by Mahesh Yaragatti, Claudio Basilico, Lisa Dailey
    posted to assayscisregwetlab by maximilianh on 2008-05-01 10:03:17 as **
  • Nuclear Dvl, c-Jun, beta-catenin, and TCF form a complex leading to stabilization of beta-catenin-TCF interaction.
    The Journal of cell biology, Vol. 180, No. 6. (24 March 2008), pp. 1087-1100.
    by XQ Gan, JY Wang, Y Xi, ZL Wu, YP Li, L Li
    posted to factors factorinteractions combination by maximilianh on 2008-05-01 09:25:57 as **
  • Studying the functional conservation of cis-regulatory modules and their transcriptional output
    BMC Bioinformatics, Vol. 9 (29 April 2008), 220.
    by Denis C Bauer, Timothy L Bailey
    posted to notconserved noalignment enhancerprediction by maximilianh on 2008-05-01 09:16:32 as ** along with 2 people and 1 group xili03 cisevol cis-regulatory-evolution
  • Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting.
    Molecular biology and evolution, Vol. 23, No. 6. (June 2006), pp. 1293-1303.
    by S De Bodt, G Theissen, Y Van de Peer
    posted to promoter noalignment composition comparison by maximilianh on 2008-04-30 15:54:45 as **
  • Highly similar noncoding genomic DNA sequences: ultraconserved, or merely widespread?
    Genome / National Research Council Canada = Génome / Conseil national de recherches Canada, Vol. 51, No. 5. (May 2008), pp. 396-397.
    by DA Hickey
    posted to whyconserved ultraconserved by maximilianh on 2008-04-30 13:01:09 as **
  • Detection and characterization of silencers and enhancer-blockers in the greater CFTR locus.
    Genome research (24 April 2008)
    by Hanna Petrykowska, Christopher Vockley, Laura Elnitski
    posted to silencer insulator enhancer cns-enhancer-screen by maximilianh on 2008-04-28 18:10:00 as **
  • Implementing arithmetic and other analytic operations by transcriptional regulation.
    PLoS computational biology, Vol. 4, No. 4. (April 2008)
    by SM Cory, TJ Perkins
    posted to transcription factors combination by maximilianh on 2008-04-28 18:07:18 as ** along with 1 person dquest
  • Genome classification by gene distribution: an overlapping subspace clustering approach
    BMC Evolutionary Biology, Vol. 8 (23 April 2008), 116.
    by Jason Li, Saman K Halgamuge, Sen-Lin Tang
    posted to syntenypaper synteny geneorder by maximilianh on 2008-04-28 10:28:20 as ** along with 1 person cmzmasek
  • Confidence in comparative genomics
    Genome Res., Vol. 18, No. 2. (1 February 2008), pp. 199-200.
    by Elliott H Margulies
    posted to alignment by maximilianh on 2008-04-25 16:49:40 as ** along with 4 people boudinot treangen djkt xingxu
  • The role of Polycomb-group response elements in regulation of engrailed transcription in Drosophila.
    Development (Cambridge, England), Vol. 135, No. 4. (February 2008), pp. 669-676.
    by SK DeVido, D Kwon, JL Brown, JA Kassis
    posted to suppressor insulator enhancerpromotercompatibility enhancer by maximilianh on 2008-04-25 14:41:54 as **
  • Using TESS to predict transcription factor binding sites in DNA sequence.
    Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], Vol. Chapter 2 (March 2008)
    by J Schug
    posted to scanning motif by maximilianh on 2008-04-24 08:43:41 as **
  • Using weeder for the discovery of conserved transcription factor binding sites.
    Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], Vol. Chapter 2 (October 2006)
    by G Pavesi, G Pesole
    posted to motif discovery by maximilianh on 2008-04-24 08:43:07 as **
  • Using PhyloCon to identify conserved regulatory motifs.
    Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], Vol. Chapter 2 (September 2007)
    by T Wang
    posted to motif discovery conserved by maximilianh on 2008-04-24 08:42:26 as **
  • Eukaryotic transcription factor binding sites - modeling and integrative search methods
    Bioinformatics (21 April 2008), btn198.
    by Sridhar Hannenhalli
    posted to review motif by maximilianh on 2008-04-24 08:41:49 as ** along with 2 people bootsy hplatero
  • Complex genetic interactions underlying expression differences between Drosophila races: Analysis of chromosome substitutions
    Proceedings of the National Academy of Sciences (22 April 2008), 0711774105.
    by Hurng-Yi Wang, Yonggui Fu, Mary S Mcpeek, Xuemei Lu, Sergey Nuzhdin, Anlong Xu, Jian Lu, Mao-Lien Wu, Chung-I Wu
    posted to motif factors cis-trans by maximilianh on 2008-04-23 21:10:22 as ** along with 2 people brant djkt
  • An ultraconserved Hox-Pbx responsive element resides in the coding sequence of Hoxa2 and is active in rhombomere 4.
    Nucleic acids research (16 April 2008)
    by Xavier Lampe, Omar Abdel A Samad, Allan Guiguen, Christelle Matis, Sophie Remacle, Jacques J J Picard, Filippo M M Rijli, René Rezsohazy
    posted to cns-collaboration cns-enhance enhancerincodingregion by maximilianh on 2008-04-20 23:07:24 as **
  • ReXSpecies - a tool for the analysis of the evolution of gene regulation across species
    BMC Evolutionary Biology, Vol. 8 (14 April 2008), 111.
    by Stephan Struckmann, Marcos J Arauzo-Bravo, Hans R Schoeler, Rolland A Reinbold, Georg Fuellen
    posted to alignment cross-species-enhancer motif by maximilianh on 2008-04-16 22:32:02 as ** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Assessing the relative rate of (mitochondrial) genomic change.
    Genetics, Vol. 167, No. 2. (June 2004), pp. 1027-1030.
    by M Dowton
    posted to synteny by maximilianh on 2008-04-15 17:57:05 as **
  • Detailed characterization of the mouse embryonic stem cell transcriptome reveals novel genes and intergenic splicing associated with pluripotency.
    BMC Genomics, Vol. 9 (09 April 2008), 155.
    by Galih Kunarso, Kee-Yew Wong, Lawrence W Stanton, Leonard Lipovich
    posted to encode ncrna ncrna-long by maximilianh on 2008-04-13 12:21:49 as **
  • Local conservation scores without a priori assumptions on neutral substitution rates
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Janis Dingel, Pavol Hanus, Niccolo Leonardi, Joachim Hagenauer, Juergen Zech, Jakob Mueller
    posted to cns-ranking by maximilianh on 2008-04-13 12:17:59 as ** along with 3 people and 2 groups aprasad RamuAnandakrishnan cisevol cis-regulatory-evolution BergmanLab
  • An efficient motif discovery algorithm with unknown motif length and number of binding sites.
    International journal of data mining and bioinformatics, Vol. 1, No. 2. (2006), pp. 201-215.
    by HC Leung, FY Chin
    posted to discovery motif by maximilianh on 2008-04-12 23:49:39 as **
  • Long-range regulation of alpha globin gene expression during erythropoiesis.
    Current opinion in hematology, Vol. 15, No. 3. (May 2008), pp. 176-183.
    by DR Higgs, WG Wood
    posted to cns-collaboration long-range review by maximilianh on 2008-04-12 23:47:35 as **
  • Evidence that strong positive selection drives neofunctionalization in the tandemly duplicated polyhomeotic genes in Drosophila
    Proceedings of the National Academy of Sciences (1 April 2008), 0710892105.
    by Steffen Beisswanger, Wolfgang Stephan
    posted to duplicates tandem by maximilianh on 2008-04-09 14:44:35 as ** along with 2 people oelemento gjuggler
  • ModuleMiner: improved computational detection of cis-regulatory modules. Different modes of gene regulation in embryonic development and adult tissues?
    Genome Biology, Vol. 9, No. 4. (2008)
    by Peter Van Loo, Stein Aerts, Bernard Thienpont, Bart De Moor, Yves Moreau, Peter Marynen
    posted to combination discovery motif promoters by maximilianh on 2008-04-09 07:41:36 as ** along with 4 people brant djkt natstreet phoenixzxl
  • The landscape of histone modifications across 1% of the human genome in five human cell lines
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 691-707.
    by Christoph M Koch, Robert M Andrews, Paul Flicek, Shane C Dillon, Ulas Karaoz, Gayle K Clelland, Sarah Wilcox, David M Beare, Joanna C Fowler, Phillippe Couttet, Keith D James, Gregory C Lefebvre, Alexander W Bruce, Oliver M Dovey, Peter D Ellis, Pawandeep Dhami, Cordelia F Langford, Zhiping Weng, Ewan Birney, Nigel P Carter, David Vetrie, Ian Dunham
    posted to encode by maximilianh on 2008-04-07 16:10:22 as ** along with 6 people and 1 group xingxu jyuh djkt olympos ghattem epigenetics Bioinformatics
  • ENCODE: More genomic empowerment.
    Genome Res, Vol. 17, No. 6. (June 2007), pp. 667-668.
    by GM Weinstock
    posted to encode by maximilianh on 2008-04-07 16:07:25 as ** along with 4 people and 4 groups dchughes ghattem wenhan blobbybirdman Bioinformatics G4ID Genetics-of-Gambling UH - Computational Biology
  • A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts
    Genome Res., Vol. 15, No. 8. (1 August 2005), pp. 1061-1072.
    by de La, Carmen G Feijoo, Miguel Manzanares, Juan J Tena, Elisa Rodriguez-Seguel, Annalisa Letizia, Miguel L Allende, Jose L Gomez-Skarmeta
    posted to cns-enhancer-screen cross-species-enhancer by maximilianh on 2008-04-07 15:59:50 as **
  • Cis-regulatory organization of the Pax6 gene in the ascidian Ciona intestinalis.
    Developmental biology (13 February 2008)
    by Steven Q Q Irvine, Vera C C Fonseca, Michael A A Zompa, Rajee Antony
    posted to cross-species-enhancer by maximilianh on 2008-04-07 15:46:57 as **
  • Functional tests of enhancer conservation between distantly related species.
    Development, Vol. 130, No. 21. (November 2003), pp. 5133-5142.
    by I Ruvinsky, G Ruvkun
    posted to cross-species-enhancer by maximilianh on 2008-04-07 15:45:23 as ** along with 2 people and 1 group mikaelhuss cisevol cis-regulatory-evolution
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