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bootsy tool [21 articles]

Recent papers added to bootsy library classified by the tag tool. You can also see everyone's tool.
  • Synchronous vs. Asynchronous Modeling of Gene Regulatory Networks.
    Bioinformatics (Oxford, England) (9 July 2008)
    by Abhishek Garg, Alessandro Dicara, Ioannis Xenarios, Luis Mendoza, Giovanni De D Micheli
    posted to tool systems_biology regulatory_network qualitative_modeling boolean_simulation by bootsy on 2008-07-14 08:05:54 as **
  • Identifying functional modules in protein-protein interaction networks: an integrated exact approach.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by MT Dittrich, GW Klau, A Rosenwald, T Dandekar, T Müller
    posted to tool ppi functional_module by bootsy on 2008-07-06 07:43:33 as ** along with 1 person marck
  • MicroRNA prediction with a novel ranking algorithm based on random walks.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by Y Xu, X Zhou, W Zhang
    posted to tool prediction microrna by bootsy on 2008-07-06 07:35:57 as **
  • A max-margin model for efficient simultaneous alignment and folding of RNA sequences.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by CB Do, CS Foo, S Batzoglou
    posted to tool rna by bootsy on 2008-07-06 07:33:45 as ** along with 1 person and 1 group stajich Berkeley Mycology
  • Systems biology driven software design for the research enterprise
    BMC Bioinformatics, Vol. 9 (25 June 2008), 295.
    by John Boyle, Christopher Cavnor, Sarah Killcoyne, Ilya Shmulevich
    posted to tool systems_biology software by bootsy on 2008-06-30 11:16:35 as ** along with 6 people GeeSharpMinor dullhunk jmuhlich jyuh reyez raistrick
  • The Systems Biology Research Tool: evolvable open-source software
    BMC Systems Biology, Vol. 2, No. 1. (2008)
    by Jeremiah Wright, Andreas Wagner
    posted to tool systems_biology by bootsy on 2008-06-30 11:00:21 as ** along with 3 people jyuh renatomilani reyez
  • Combinatorial microRNA target predictions
    Nature Genetics, Vol. 37, No. 5. (03 April 2005), pp. 495-500.
    by Azra Krek, Dominic Grün, Matthew N Poy, Rachel Wolf, Lauren Rosenberg, Eric J Epstein, Philip Macmenamin, Isabelle d da Piedade, Kristin C Gunsalus, Markus Stoffel, Nikolaus Rajewsky
    posted to tool regulation prediction microrna by bootsy on 2008-06-10 08:01:05 as ** along with 10 people and 1 group maralena tmmurali textoris jfr eckart_bindewald tardigrade mtagaya feipan lp2 heliopais microRNA
  • NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways.
    Nucleic acids research (4 June 2008)
    by Sylvain Brohée, Karoline Faust, Gipsi Lima-Mendez, Olivier Sand, Rekin's Janky, Gilles Vanderstocken, Yves Deville, Jacques van Helden
    posted to tool pathway network analysis by bootsy on 2008-06-07 22:48:22 as ** along with 2 people jyuh Borelli
  • RNALogo: a new approach to display structural RNA alignment.
    Nucleic acids research (21 May 2008)
    by Tzu-Hao H Chang, Jorng-Tzong T Horng, Hsien-Da D Huang
    posted to tool structure nc_rna alignment by bootsy on 2008-05-24 10:15:54 as ** along with 1 person reyez
  • WAR: Webserver for aligning structural RNAs.
    Nucleic acids research (20 May 2008)
    by Elfar Torarinsson, Stinus Lindgreen
    posted to tool structure nc_rna alignment by bootsy on 2008-05-23 09:00:02 as **
  • Identification of tissue-specific cis-regulatory modules based on interactions between transcription factors
    BMC Bioinformatics, Vol. 8 (09 November 2007), 437.
    by Xueping Yu, Jimmy Lin, Donald J Zack, Jiang Qian
    posted to transcription_factor tool cis_regulatory_elements by bootsy on 2008-05-19 13:23:13 as ** along with 7 people jyuh chad_davis mikaelhuss nklee maximilianh idonaldson njcitulike
  • MicroRNAs accurately identify cancer tissue origin.
    Nat Biotechnol (23 March 2008)
    by Nitzan Rosenfeld, Ranit Aharonov, Eti Meiri, Shai Rosenwald, Yael Spector, Merav Zepeniuk, Hila Benjamin, Norberto Shabes, Sarit Tabak, Asaf Levy, Danit Lebanony, Yaron Goren, Erez Silberschein, Nurit Targan, Alex Ben-Ari, Shlomit Gilad, Netta Sion-Vardy, Ana Tobar, Meora Feinmesser, Oleg Kharenko, Ofer Nativ, Dvora Nass, Marina Perelman, Ady Yosepovich, Bruria Shalmon, Sylvie Polak-Charcon, Eddie Fridman, Amir Avniel, Isaac Bentwich, Zvi Bentwich, Dalia Cohen, Ayelet Chajut, Iris Barshack
    posted to tool microrna expression classification cancer by bootsy on 2008-05-19 09:37:10 as ** along with 7 people jfr ealloza jyuh giovenko tmmurali jdiezperezj maralena
  • R-Coffee: a web server for accurately aligning noncoding RNA sequences.
    Nucleic acids research (15 May 2008)
    by Sébastien Moretti, Andreas Wilm, Desmond G G Higgins, Ioannis Xenarios, Cédric Notredame
    posted to tool nc_rna alignment by bootsy on 2008-05-18 18:50:04 as **
  • MicroRNA identification based on sequence and structure alignment
    Bioinformatics, Vol. 21, No. 18. (15 September 2005), pp. 3610-3614.
    by Xiaowo Wang, Jing Zhang, Jin Gu, Tao He, Xuegong Zhang, Yanda Li
    posted to tool sequence microrna alignment by bootsy on 2008-05-15 10:38:18 as ** along with 3 people and 2 groups balajis NamJinWu dchughes G4ID Genetics-of-Gambling
  • Characterization and Identification of MicroRNA Core Promoters in Four Model Species.
    PLoS Comput Biol, Vol. 3, No. 3. (9 March 2007)
    by Xuefeng Zhou, Jianhua Ruan, Guandong Wang, Weixiong Zhang
    posted to tool microrna_regulation microrna by bootsy on 2008-05-14 22:34:48 as ** along with 6 people and 2 groups jfr tardigrade andersbj cdawson ale maralena microRNA GIG
  • VisANT: an integrative framework for networks in systems biology
    Brief Bioinform (7 May 2008), bbn020.
    by Zhenjun Hu, Evan S Snitkin, Charles Delisi
    posted to tool systems_biology network by bootsy on 2008-05-13 08:16:24 as ** along with 4 people and 1 group maoxizeng maralena sameetmehta jyuh Bioinformatics
  • The Beta Workbench: a computational tool to study the dynamics of biological systems
    Brief Bioinform (7 May 2008), bbn023.
    by Lorenzo Dematte, Corrado Priami, Alessandro Romanel
    posted to tool systems_biology by bootsy on 2008-05-13 08:16:01 as **
  • Identification of phylogenetically conserved microRNA cis-regulatory elements across 12 Drosophila.
    Bioinformatics (24 November 2007)
    by Xiaowo Wang, Jin Gu, Michael Q Q Zhang, Yanda Li
    posted to tool microrna_regulation drosophila conservation by bootsy on 2008-05-08 12:45:06 as ** along with 4 people and 1 group djkt heliopais Alexander_Kanitz maralena microRNA
  • GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by AG Jegga, J Chen, S Gowrisankar, MA Deshmukh, R Gudivada, S Kong, V Kaimal, BJ Aronow
    posted to tool transcription_factor regulation microrna by bootsy on 2008-05-08 12:36:40 as ** along with 2 people and 1 group jyuh wenhan Bioinformatics
  • Putative promoter regions of miRNA genes involved in evolutionarily conserved regulatory systems among vertebrates.
    Bioinformatics (30 November 2007)
    by Shuji Fujita, Hideo Iba
    posted to tool regulation microrna by bootsy on 2008-03-13 21:02:45 as ** along with 2 people maralena cabbagezs
  • Yeast-based functional genomics and proteomics technologies: the first 15 years and beyond.
    Biotechniques, Vol. 40, No. 5. (May 2006), pp. 625-644.
    by B Suter, D Auerbach, I Stagljar
    posted to tool functional genomics proteomic by bootsy on 2007-04-28 13:29:46 as ** along with 3 people jyuh yeastyboy Dualsystems
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