Register | Log in | FAQ      [?] 
Recent | Unread | Search | Authors | Tags | Export

xili03's library [94 articles]

Recent papers added to xili03's library ordered by importance.
  • notes Discovering gapped binding sites of yeast transcription factors
    Proceedings of the National Academy of Sciences, Vol. 105, No. 7. (19 February 2008), pp. 2527-2532.
    by Chien-Yu Chen, Huai-Kuang Tsai, Chen-Ming Hsu, May, Hao-Geng Hung, Grace T Huang, Wen-Hsiung Li
    posted to gapped motif by xili03 on 2008-04-05 05:11:24 as ***
  • Identification of weak motifs in multiple biological sequences using genetic algorithm
    (2006), pp. 271-278.
    by Topon K Paul, Hitoshi Iba
    posted to algorithm genetic by xili03 on 2008-01-15 03:25:53 as ***
  • TFBS Identification Based on Genetic Algorithm with Combined Representations and Adaptive Post-processing.
    Bioinformatics (6 December 2007)
    by Tak-Ming M Chan, Kwong-Sak S Leung, Kin-Hong H Lee
    posted to algorithm genetic by xili03 on 2008-01-14 03:05:50 as *** along with 5 people isimpson nklee maximilianh idonaldson csdhwang
  • Statistical significance of cis-regulatory modules
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Dustin Schones, Andrew Smith, Michael Zhang
    posted to cis-element statistical by xili03 on 2008-01-10 02:37:44 as *** along with 9 people and 1 group sconlan indigoviolet dpollard dquest sebastien_vigneau shigepong SeungjoonOh GustavoLacerda nklee EisenLab
  • Efficient and accurate P-value computation for Position Weight Matrices
    Algorithms for Molecular Biology, Vol. 2, No. 1. (2007)
    by Helene Touzet, Jean S Varre
    posted to p-value by xili03 on 2008-01-08 10:29:02 as *** along with 2 people nklee barriot
  • A genetic algorithm for the detection of new cis-regulatory modules in sets of coregulated genes.
    Bioinformatics, Vol. 20, No. 12. (12 August 2004), pp. 1974-1976.
    by S Aerts, P Van Loo, Y Moreau, B De Moor
    posted to algorithms genetic by xili03 on 2008-01-08 10:27:02 as *** along with 1 person LeightonP
  • Toucan: deciphering the cis-regulatory logic of coregulated genes.
    Nucleic Acids Res, Vol. 31, No. 6. (15 March 2003), pp. 1753-1764.
    by S Aerts, G Thijs, B Coessens, M Staes, Y Moreau, B De Moor
    posted to p-value by xili03 on 2008-01-08 10:25:38 as *** along with 5 people and 1 group troels_marstrand kaspermunch nur77 nklee yevishere Bioinformatics
  • Discovery of novel transcription factor binding sites by statistical overrepresentation.
    Nucleic Acids Res, Vol. 30, No. 24. (15 December 2002), pp. 5549-5560.
    by S Sinha, M Tompa
    posted to statistical by xili03 on 2008-01-08 10:23:52 as *** along with 8 people wenhan ep161302 kaarsinogen dquest xiaobeizhao smiddha GeeSharpMinor xi03
  • PhyME: a probabilistic algorithm for finding motifs in sets of orthologous sequences.
    BMC Bioinformatics, Vol. 5 (28 October 2004)
    by S Sinha, M Blanchette, M Tompa
    posted to orthologous by xili03 on 2008-01-07 00:45:46 as *** along with 4 people eckart_bindewald dquest adsmitty lusk
  • Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE.
    Bioinformatics, Vol. 22, No. 14. (15 July 2006)
    by BC Foat, AV Morozov, HJ Bussemaker
    posted to affinity by xili03 on 2008-07-10 06:33:06 as ** along with 3 people dquest lusk yevishere
  • Predicting transcription factor affinities to DNA from a biophysical model.
    Bioinformatics (10 November 2006)
    by Helge Roider, Aditi Kanhere, Thomas Manke, Martin Vingron
    posted to affinity by xili03 on 2008-07-10 05:16:38 as ** along with 2 people and 1 group indigoviolet dpollard EisenLab
  • Whole-Genome Discovery of Transcription Factor Binding Sites by Network-Level Conservation
    Genome Res., Vol. 14, No. 1. (1 January 2004), pp. 99-108.
    by Moshe Pritsker, Yir-Chung Liu, Michael A Beer, Saeed Tavazoie
    posted to affinity by xili03 on 2008-07-10 05:13:22 as ** along with 2 people kaarsinogen koller
  • Rank order metrics for quantifying the association of sequence features with gene regulation.
    Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 212-218.
    by ND Clarke, JA Granek
    posted to no-tag by xili03 on 2008-07-10 05:08:25 as ** along with 2 people and 1 group kaspermunch nklee Bioinformatics
  • A biophysical approach to transcription factor binding site discovery.
    Genome Res, Vol. 13, No. 11. (November 2003), pp. 2381-2390.
    by M Djordjevic, AM Sengupta, BI Shraiman
    posted to affinity by xili03 on 2008-07-10 02:59:48 as ** along with 2 people dquest discreteonyxorb
  • Predicting functional transcription factor binding through alignment-free and affinity-based analysis of orthologous promoter sequences
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i165-171.
    by Lucas D Ward, Harmen J Bussemaker
    posted to affinity by xili03 on 2008-07-10 02:51:00 as ** along with 1 person maximilianh
  • On counting position weight matrix matches in a sequence, with application to discriminative motif finding.
    Bioinformatics, Vol. 22, No. 14. (15 July 2006)
    by S Sinha
    posted to algorithm by xili03 on 2008-07-09 06:03:48 as ** along with 2 people eckart_bindewald samal
  • 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 position information by xili03 on 2008-06-17 06:53:06 as ** along with 1 person maximilianh
  • Computational identification of transcriptional regulatory elements in DNA sequence
    Nucl. Acids Res., Vol. 34, No. 12. (19 July 2006), pp. 3585-3598.
    by Debraj Guhathakurta
    posted to survey by xili03 on 2008-05-07 03:08:27 as ** along with 8 people and 1 group tmmurali jfr johncumbers reidy giovanni cabbagezs ankur_iitg vietanh0 GeschwindLab
  • 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 cis-element by xili03 on 2008-05-05 07:29:43 as ** along with 2 people and 1 group maximilianh cisevol cis-regulatory-evolution
  • A survey of DNA motif finding algorithms
    BMC Bioinformatics, Vol. 8, No. Suppl 7. (2007)
    by Modan Das, Ho K Dai
    posted to survey by xili03 on 2008-05-05 03:25:38 as ** along with 6 people brant dquest nklee maximilianh yevishere csdhwang
  • Multi-objective optimization using genetic algorithms: A tutorial
    Reliability Engineering & System Safety, Vol. 91, No. 9. (September 2006), pp. 992-1007.
    by Abdullah Konak, David W Coit, Alice E Smith
    posted to evolutionary by xili03 on 2008-04-30 14:54:17 as ** along with 1 person kutabar
  • A co-evolutionary framework for regulatory motif discovery
    Evolutionary Computation, 2007. CEC 2007. IEEE Congress on (2007), pp. 3894-3901.
    by Michael A Lones, Andy M Tyrrell
    posted to evolutionary by xili03 on 2008-04-30 14:26:07 as **
  • Comparative analysis of methods for representing and searching for transcription factor binding sites
    Bioinformatics, Vol. 20, No. 18., 3516.
    by Robert Osada, Elena Zaslavsky
    posted to information by xili03 on 2008-04-30 09:15:35 as **
  • Effective transcription factor binding site prediction using a combination of optimization, a genetic algorithm and discriminant analysis to capture distant interactions
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Victor Levitsky, Elena Ignatieva, Elena Ananko, Igor Turnaev, Tatyana Merkulova, Nikolay Kolchanov, T Hodgman
    posted to genetic algorithm by xili03 on 2008-04-30 09:04:09 as ** along with 4 people nklee maximilianh yevishere csdhwang
  • Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm.
    Nucleic acids research, Vol. 34, No. Web Server issue. (1 July 2006)
    by T Waleev, D Shtokalo, T Konovalova, N Voss, E Cheremushkin, P Stegmaier, O Kel-Margoulis, E Wingender, A Kel
    posted to genetic algorithm by xili03 on 2008-04-29 08:10:02 as **
  • Composite Module Analyst: a fitness-based tool for identification of transcription factor binding site combinations
    Bioinformatics, Vol. 22, No. 10. (15 May 2006), pp. 1190-1197.
    by A Kel, T Konovalova, T Waleev, E Cheremushkin, O Kel-Margoulis, E Wingender
    posted to genetic algorithm by xili03 on 2008-04-29 08:01:34 as **
  • CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments
    Bioinformatics, Vol. 19, No. 1. (2003)
    by Roded
    posted to statistical by xili03 on 2008-04-29 07:38:34 as **
  • Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm.
    Bioinformatics, Vol. 19 Suppl 1 (2003)
    by O Johansson, W Alkema, WW Wasserman, J Lagergren
    posted to statistical by xili03 on 2008-04-29 07:34:26 as ** along with 1 person and 1 group indigoviolet EisenLab
  • Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences
    Nucl. Acids Res., Vol. 30, No. 14. (15 July 2002), pp. 3214-3224.
    by Martin C Frith, John L Spouge, Ulla Hansen, Zhiping Weng
    posted to statistical by xili03 on 2008-04-29 07:30:02 as ** along with 1 person and 1 group indigoviolet EisenLab
  • Searching for statistically significant regulatory modules.
    Bioinformatics, Vol. 19 Suppl 2 (October 2003)
    by TL Bailey, WS Noble
    posted to statistical by xili03 on 2008-04-29 07:27:27 as ** along with 2 people and 2 groups indigoviolet stajich EisenLab Berkeley Mycology
  • A GA Approach to the Definition of Regulatory Signals in Genomic Sequences
    Genetic and Evolutionary Computation – GECCO 2004 (2004), pp. 380-391.
    by Giancarlo Mauri, Roberto Mosca, Giulio Pavesi
    posted to genetic algorithm by xili03 on 2008-04-29 04:29:24 as **
  • Modeling within-motif dependence for transcription factor binding site predictions.
    Bioinformatics, Vol. 20, No. 6. (12 April 2004), pp. 909-916.
    by Q Zhou, JS Liu
    posted to dependency by xili03 on 2008-04-29 01:59:20 as ** along with 1 person dquest
  • A graph-based motif detection algorithm models complex nucleotide dependencies in transcription factor binding sites.
    Nucleic Acids Res, Vol. 34, No. 20. (2006), pp. 5730-5739.
    by BT Naughton, E Fratkin, S Batzoglou, DL Brutlag
    posted to dependency by xili03 on 2008-04-29 01:57:17 as ** along with 3 people and 1 group indigoviolet nklee yevishere EisenLab
  • A Clustering Method for Improving the Global Search Capability of Genetic Algorithms
    (2000)
    by Leizer Schnitman, Takashi Yoneyama
    posted to algorithm genetic by xili03 on 2008-04-22 02:00:15 as **
  • Fitness sharing and niching methods revisited
    Evolutionary Computation, IEEE Transactions on, Vol. 2, No. 3. (1998), pp. 97-106.
    by B Sareni, L Krahenbuhl
    posted to algorithm genetic by xili03 on 2008-04-22 00:41:00 as **
  • A self-adaptive mate selection model for genetic programming
    Evolutionary Computation, 2005. The 2005 IEEE Congress on, Vol. 3 (2005), pp. 2707-2714 Vol. 3.
    by R Fry, Smith, AM Tyrrell
    posted to algorithm genetic by xili03 on 2008-04-22 00:40:31 as **
  • Integrated analysis of yeast regulatory sequences for biologically linked clusters of genes.
    Funct Integr Genomics, Vol. 3, No. 3. (July 2003), pp. 125-134.
    by A Sandelin, A Höglund, B Lenhard, WW Wasserman
    posted to algorithm by xili03 on 2008-04-21 03:55:29 as ** along with 2 people aalibes nklee
  • Evolutionary computation method for pattern recognition of cis-acting sites
    Biosystems, Vol. 72, No. 1-2. (November 2003), pp. 19-27.
    by Daniel Howard, Karl Benson
    posted to evolutionary by xili03 on 2008-04-21 03:44:44 as **
  • Discovery of sequence motifs related to coexpression of genes using evolutionary computation.
    Nucleic Acids Res, Vol. 32, No. 13. (2004), pp. 3826-3835.
    by GB Fogel, DG Weekes, G Varga, ER Dow, HB Harlow, JE Onyia, C Su
    posted to evolutionary by xili03 on 2008-04-21 03:37:46 as ** along with 2 people gpalidwor dquest
  • Evolutionary computation in bioinformatics: a review
    Systems, Man, and Cybernetics, Part C: Applications and Reviews, IEEE Transactions on, Vol. 36, No. 5. (2006), pp. 601-615.
    by SK Pal, S Bandyopadhyay, SS Ray
    posted to survey by xili03 on 2008-04-21 03:30:22 as **
  • The state of the art of mammalian promoter recognition
    Brief Bioinform, Vol. 4, No. 1. (1 January 2003), pp. 22-30.
    by Thomas Werner
    posted to survey by xili03 on 2008-04-21 03:24:03 as **
  • Statistical analysis of over-represented words in human promoter sequences.
    Nucleic Acids Res, Vol. 32, No. 3. (2004), pp. 949-958.
    by L Mariño-Ramírez, JL Spouge, GC Kanga, D Landsman
    posted to statistical by xili03 on 2008-04-15 05:33:38 as ** along with 2 people and 1 group kaspermunch smiddha Bioinformatics
  • Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment.
    Science, Vol. 262, No. 5131. (8 October 1993), pp. 208-214.
    by CE Lawrence, SF Altschul, MS Boguski, JS Liu, AF Neuwald, JC Wootton
    posted to gibbssampling by xili03 on 2008-04-13 05:52:39 as ** along with 6 people wenhan dquest AaronDarling johncumbers jguinney seitentaisei
  • Finding motifs using random projections.
    J Comput Biol, Vol. 9, No. 2. (2002), pp. 225-242.
    by J Buhler, M Tompa
    posted to algorithm by xili03 on 2008-04-08 12:22:20 as ** along with 1 person dquest
  • Detection of potential positive regulatory motifs of transcription in yeast introns by comparative analysis of oligonucleotide frequencies
    Computational Biology and Chemistry, Vol. 27, No. 4-5. (October 2003), pp. 497-506.
    by Jing Zhang, Jun Hu, Xiu-Fan Shi, Huai Cao, Wei-Bo Liu
    posted to intron by xili03 on 2008-04-08 02:09:54 as **
  • notes An algorithm for finding signals of unknown length in DNA sequences.
    Bioinformatics, Vol. 17 Suppl 1 (2001)
    by G Pavesi, G Mauri, G Pesole
    posted to algorithm by xili03 on 2008-04-06 03:11:28 as ** along with 5 people ep161302 dquest xiaobeizhao smiddha nklee
  • Particle Swarm Optimisation for Protein Motif Discovery
    Genetic Programming and Evolvable Machines, Vol. 5, No. 2. (June 2004), pp. 203-214.
    by Bill C Chang, Asanga Ratnaweera, Saman K Halgamuge, Harry C Watson
    posted to no-tag by xili03 on 2008-04-03 04:13:26 as **
  • Computational evaluation of TIS annotation for prokaryotic genomes
    BMC Bioinformatics, Vol. 9 (25 March 2008), 160.
    by Gang-Qing Hu, Xiaobin Zheng, Li-Ning Ju, Huaiqiu Zhu, Zhen-Su She
    posted to unread by xili03 on 2008-03-31 04:52:00 as **
  • Efficient computation of absent words in genomic sequences
    BMC Bioinformatics, Vol. 9 (26 March 2008), 167.
    by Julia Herold, Stefan Kurtz, Robert Giegerich
    posted to unread by xili03 on 2008-03-31 04:51:45 as ** along with 1 person operon
  • A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling
    Bioinformatics, Vol. 17, No. 12. (1 December 2001), pp. 1113-1122.
    by Gert Thijs, Magali Lescot, Kathleen Marchal, Stephane Rombauts, Bart De Moor, Pierre Rouze, Yves Moreau
    posted to statistical by xili03 on 2008-03-26 04:08:33 as ** along with 5 people chad_davis lyongu dquest natstreet nklee
    • Note: You may cite this page as: http://www.citeulike.org/user/xili03/order/to_read

    Result page: 1 2 Next RIS BibTeX RSS
    CiteULike organises scholarly (or academic) papers or literature and provides bibliographic (which means it makes bibliographies) for universities and higher education establishments. It helps undergraduates and postgraduates. People studying for PhDs or in postdoctoral (postdoc) positions. The service is similar in scope to EndNote or RefWorks or any other reference manager like BibTeX, but it is a social bookmarking service for scientists and humanities researchers.