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maximilianh motif [131 articles]

最近 maximilianh さんのライブラリに追加された論文の中から タグ motif. You can also see everyone's motif.
  • MotifVoter: a novel ensemble method for fine-grained integration of generic motif finders.
    Bioinformatics (Oxford, England) (12 August 2008)
    by Edward Wijaya, Siu-Ming M Yiu, Ngo Thanh T Son, Rajaraman Kanagasabai, Wing-Kin K Sung
    posted to motif discovery competition by maximilianh on 2008-09-03 09:05:51 as ** along with 2 people idonaldson chad_davis
  • Seeder: Discriminative Seeding DNA Motif Discovery.
    Bioinformatics (Oxford, England) (21 August 2008)
    by François Fauteux, Mathieu Blanchette, Martina V V Strömvik
    posted to rennes motif discovery competition by maximilianh on 2008-08-25 15:00:09 as ** along with 3 people brant isimpson idonaldson
  • Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data.
    Nature methods (17 August 2008)
    by Anton Valouev, David S S Johnson, Andreas Sundquist, Catherine Medina, Elizabeth Anton, Serafim Batzoglou, Richard M M Myers, Arend Sidow
    posted to chipseq discovery motif by maximilianh on 2008-08-21 18:31:46 as ** along with 9 people mdperry idonaldson gdb megraw kengg alhufton jyuh kjglennie bryankr
  • The cis-regulatory map of Shewanella genomes.
    Nucleic acids research (13 August 2008)
    by Jiajian Liu, Xing Xu, Gary D D Stormo
    posted to comparative discovery motif scanning by maximilianh on 2008-08-18 09:23:53 as **
  • Differential binding of quadruplex structures of muscle-specific genes regulatory sequences by MyoD, MRF4 and myogenin
    Nucl. Acids Res. (29 May 2008), gkn340.
    by Anat Yafe, Jeny Shklover, Pnina Weisman-Shomer, Eyal Bengal, Michael Fry
    posted to combination motif trainingset by maximilianh on 2008-08-14 08:47:27 as ** along with 2 people and 1 group nklee jmrivort G-quadruplex
  • A deterministic motif finding algorithm with application to the human genome
    Bioinformatics, Vol. 22, No. 9. (1 May 2006), pp. 1047-1054.
    by Lawrence S Hon, Ajay N Jain
    posted to discovery motif by maximilianh on 2008-07-26 10:48:29 as ** along with 3 people and 1 group idonaldson dquest nklee Motif Discovery
  • Integrating regulatory motif discovery and genome-wide expression analysis
    Proceedings of the National Academy of Sciences, Vol. 100, No. 6. (18 March 2003), pp. 3339-3344.
    by Erin M Conlon, Shirley X Liu, Jason D Lieb, Jun S Liu
    posted to discovery microarray motif by maximilianh on 2008-07-26 10:46:48 as ** along with 2 people danish_punter nuin
  • Modeling Promoter Grammars with Evolving Hidden Markov Models.
    Bioinformatics (Oxford, England) (5 June 2008)
    by Kyoung-Jae J Won, Albin Sandelin, Troels Torben T Marstrand, Anders Krogh
    posted to combination motif by maximilianh on 2008-07-22 00:06:04 as ** along with 2 people lusk niallhaslam
  • MOPAT: a graph-based method to predict recurrent cis-regulatory modules from known motifs
    Nucl. Acids Res. (7 July 2008), gkn407.
    by Jianfei Hu, Haiyan Hu, Xiaoman Li
    posted to cns-similarity combination motif noalignment scanning by maximilianh on 2008-07-07 17:15:10 as **
  • Discovering sequence motifs.
    Methods in molecular biology (Clifton, N.J.), Vol. 452 (2008), pp. 231-251.
    by TL Bailey
    posted to motif review by maximilianh on 2008-06-22 21:36:09 as ** along with 1 person zdai
  • Associating transcription factor-binding site motifs with target GO terms and target genes
    Nucl. Acids Res. (10 June 2008), gkn374.
    by Mikael Boden, Timothy L Bailey
    posted to discovery go motif by maximilianh on 2008-06-11 15:28:01 as ** along with 4 people aramesh2 mikaelboden jyuh dgroth
  • Systematic identification of cell cycle regulated transcription factors from microarray time series data
    BMC Genomics, Vol. 9 (03 March 2008), 116.
    by Chao Cheng, Lei M Li
    posted to application discovery motif rennes by maximilianh on 2008-06-06 23:38:57 as **
  • Finding sequence motifs with Bayesian models incorporating positional information: an application to transcription factor binding sites
    BMC Bioinformatics, Vol. 9 (04 June 2008), 262.
    by Nak-Kyeong Kim, Kannan Tharakaraman, Leonardo Marino-Ramirez, John L Spouge
    posted to discovery motif by maximilianh on 2008-06-06 23:38:01 as ** along with 1 person xili03
  • RSAT: regulatory sequence analysis tools
    Nucl. Acids Res. (21 May 2008), gkn304.
    by Morgane Thomas-Chollier, Olivier Sand, Jean-Valery Turatsinze, Rekin's Janky, Matthieu Defrance, Eric Vervisch, Sylvain Brohee, Jacques van Helden
    posted to application comparison discovery motif review by maximilianh on 2008-05-23 14:55:45 as ** along with 2 people jyuh dullhunk
  • 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 chromatin motif nomotif nucleosome by maximilianh on 2008-05-16 12:23:42 as ** along with 6 people and 2 groups tharris caseybrown vega dpollard Stew aalibes C. elegans / WormBase RockmanLab
  • 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 discovery motif by maximilianh on 2008-05-09 16:05:47 as ** along with 7 people and 1 group jfr ealloza idonaldson maralena fpattyn isimpson tmmurali BergmanLab
  • 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 discovery motif by maximilianh on 2008-05-07 18:36:26 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 motif pwmcomparison by maximilianh on 2008-05-07 15:30:59 as ** along with 2 people jyuh GustavoLacerda
  • 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 alignment conserved motif promoter by maximilianh on 2008-05-06 15:56:53 as ** along with 3 people idonaldson maralena jyuh
  • 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 combination motif scanning by maximilianh on 2008-05-06 15:27:19 as ** along with 3 people tmmurali idonaldson isimpson
  • Computational intelligence approaches for pattern discovery in biological systems
    Brief Bioinform (5 May 2008), bbn021.
    by Gary B Fogel
    posted to motif review by maximilianh on 2008-05-06 13:22:16 as ** along with 2 people jyuh renatomilani
  • 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 motif scanning by maximilianh on 2008-04-24 08:43:41 as ** along with 1 person jyuh
  • 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 discovery motif 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 conserved discovery motif 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 motif review by maximilianh on 2008-04-24 08:41:49 as ** along with 8 people oannes hplatero heliopais bootsy Ema sameetmehta jyuh chad_davis
  • 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 cis-trans factors motif by maximilianh on 2008-04-23 21:10:22 as ** along with 3 people djkt brant inesdesantiago
  • 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
  • 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 **
  • 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
  • Motif discovery in tissue-specific regulatory sequences using directed information.
    EURASIP J Bioinform Syst Biol (2007)
    by A Rao, AO Hero Iii, DJ States, JD Engel
    posted to discovery motif by maximilianh on 2008-03-17 21:37:29 as ** along with 2 people idonaldson isimpson
  • Positional bias of general and tissue-specific regulatory motifs in mouse promoters
    BMC Genomics, Vol. 8, No. 1. (2007)
    by Nicolas Bellora, Domenec Farre, Mar
    posted to motif position by maximilianh on 2008-03-15 20:57:06 as ** along with 3 people barriot gjuggler yevishere
  • Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Xochitl Morgan, Shulin Ni, Daniel Miranker, Vishwanath Iyer
    posted to combination motif by maximilianh on 2008-03-15 18:06:50 as ** along with 4 people barriot idonaldson dps sconlan
  • W-AlignACE: An improved Gibbs sampling algorithm based on more accurate position weight matrices learned from sequence and gene expression/ChIP-chip data.
    Bioinformatics (5 March 2008)
    by Xin Chen, Lingqiong Guo, Zhaocheng Fan, Tao Jiang
    posted to discovery expression motif by maximilianh on 2008-03-09 19:38:22 as ** along with 2 people idonaldson isimpson
  • Computational prediction of novel components of lung transcriptional networks
    Bioinformatics, Vol. 23, No. 1. (1 January 2007), pp. 21-29.
    by Juanita M Martinez, Andrew D Smith, Bilan Li, Michael Q Zhang, Kevin S Harrod
    posted to enhancerprediction motif scanning by maximilianh on 2008-02-29 17:19:30 as ** along with 1 person olympos
  • Computational discovery of cis-regulatory modules in Drosophila, without prior knowledge of motifs
    Genome Biology, Vol. 9, No. 1. (2008)
    by Andra Ivan, Marc Halfon, Saurabh Sinha
    posted to combination discovery enhancerprediction motif by maximilianh on 2008-02-29 16:39:34 as ** along with 2 people and 1 group cisevol csdhwang cis-regulatory-evolution
  • Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae.
    J Mol Biol, Vol. 296, No. 5. (10 March 2000), pp. 1205-1214.
    by JD Hughes, PW Estep, S Tavazoie, GM Church
    posted to discovery enhancerprediction motif by maximilianh on 2008-02-29 14:22:57 as ** along with 4 people and 2 groups kaspermunch dquest dandaman Auger Bioinformatics Dead 60's
  • Assessment of composite motif discovery methods
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Kjetil Klepper, Geir Sandve, Osman Abul, Jostein Johansen, Finn Drablos
    posted to comparison motif rennes review by maximilianh on 2008-02-29 14:18:25 as ** along with 7 people and 1 group chad_davis nklee idonaldson xili03 csdhwang isimpson yoonk Motif Discovery
  • Computation-based discovery of related transcriptional regulatory modules and motifs using an experimentally validated combinatorial model.
    Genome Res, Vol. 12, No. 7. (July 2002), pp. 1019-1028.
    by MS Halfon, Y Grad, GM Church, AM Michelson
    posted to combination conserved enhancerprediction motif scanning by maximilianh on 2008-02-29 13:02:28 as **
  • fdrMotif: Identifying cis-elements by an EM Algorithm Coupled with False Discovery Rate Control.
    Bioinformatics (22 February 2008)
    by Leping Li, Robert L L Bass, Yu Liang
    posted to discovery motif by maximilianh on 2008-02-27 17:11:20 as ** along with 3 people idonaldson csdhwang isimpson
  • Statistical methods to infer cooperative binding among transcription factors in Saccharomyces cerevisiae
    Bioinformatics, Vol. 24, No. 4. (15 February 2008), pp. 545-552.
    by Debayan Datta, Hongyu Zhao
    posted to combination motif by maximilianh on 2008-02-13 16:05:26 as **
  • Grammatical model of the regulation of gene expression.
    Proc Natl Acad Sci U S A, Vol. 89, No. 20. (15 October 1992), pp. 9405-9409.
    by J Collado-Vides
    posted to combination enhanceosome motif promoter by maximilianh on 2008-02-02 09:29:27 as ** along with 3 people and 1 group irenas andytseng discreteonyxorb dbk-lab
  • A Caenorhabditis motif compendium for studying transcriptional gene regulation
    BMC Genomics, Vol. 9 (23 January 2008), 30.
    by Christoph Dieterich, Ralf J Sommer
    posted to conserved discovery motif whole by maximilianh on 2008-01-26 10:23:21 as ** along with 1 person and 1 group tharris C. elegans / WormBase
  • High-throughput Biochemical Analysis of in-vivo Location Data Reveals Novel Classes of POU5F1(Oct4)/DNA complexes.
    Genome Res (22 January 2008)
    by Dean Tantin, Matt Gemberling, Catherine Callister, Will Fairbrother
    posted to chipchip discovery enhanceosome motif by maximilianh on 2008-01-25 10:39:53 as ** along with 2 people caseybrown xingxu
  • A global genomic transcriptional code associated with CNS-expressed genes
    Experimental Cell Research, Vol. 312, No. 16. (1 October 2006), pp. 3108-3119.
    by Peter J Bailey, Joanna M Klos, Elisabet Andersson, Mattias Karlen, Magdalena Kallstrom, Jasmina Ponjavic, Jonas Muhr, Boris Lenhard, Albin Sandelin, Johan Ericson
    posted to enhancerprediction motif scanning by maximilianh on 2008-01-15 18:01:27 as **
  • MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by G Pavesi, P Mereghetti, F Zambelli, M Stefani, G Mauri, G Pesole
    posted to discovery motif by maximilianh on 2008-01-14 18:31:52 as **
  • Trawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation
    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 discovery enhancerprediction motif by maximilianh on 2008-01-14 17:38:41 as ** along with 3 people and 1 group brant zwang fpattyn EisenLab
  • A Hybrid Model for Robust Detection of Transcription Factor Binding Sites.
    Bioinformatics (9 January 2008)
    by Sumedha Gunewardena, Zhaolei Zhang
    posted to discovery motif pwm scanning by maximilianh on 2008-01-12 11:11:46 as ** along with 2 people jyuh idonaldson
  • Analysis of computational approaches for motif discovery
    Algorithms for Molecular Biology, Vol. 1, No. 1. (19 May 2006), 8.
    by Nan Li, Martin Tompa
    posted to discovery motif review by maximilianh on 2008-01-10 16:39:07 as ** along with 9 people and 2 groups ana barry tuck chad_davis dquest lusk nklee xi03 csdhwang structural_bioinformatics Bioinformatics
  • Integrating quantitative information from ChIP-chip experiments into motif finding.
    Biostatistics (28 May 2007)
    by Heejung Shim, Sündüz Keles
    posted to chipchip discovery motif by maximilianh on 2007-12-17 12:28:53 as ** along with 4 people and 1 group bryankr kt kengg nklee Plantandetc
  • A Comparative Study on Computational Two-Block Motif Detection: Algorithms and Applications.
    Mol Pharm (13 December 2007)
    by Chengpeng Bi, J S Leeder, Carrie A Vyhlidal
    posted to discovery motif review by maximilianh on 2007-12-15 09:55:07 as ** along with 1 person nklee
    • 注: このページを引用する時は次のURLでどうぞ: http://www.citeulike.org/user/maximilianh/tag/motif

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