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neils software [27 articles]

最近 neils さんのライブラリに追加された論文の中から タグ software. You can also see everyone's software.
  • Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3635-3641.
    by JC Obenauer, LC Cantley, MB Yaffe
    posted to transduction structure software sites signal sequence proteome proteins protein phosphorylation motifs internet databases binding article-predikin article-nar analysis amino algorithms by neils on 2008-04-24 16:16:06 as ** along with 2 people Evangelia mloewer
  • MS-DOCK: Accurate multiple conformation generator and rigid docking protocol for multi-step virtual ligand screening
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Nicolas Sauton, David Lagorce, Bruno Villoutreix, Maria Miteva
    posted to conformation docking ligands screen software virtual by neils on 2008-04-11 01:48:58 as ** along with 1 person biehl
  • An online literature mining tool for protein phosphorylation.
    Bioinformatics (27 April 2006)
    by X Yuan, Z Z Z Hu, H T T Wu, M Torii, M Narayanaswamy, K E E Ravikumar, K Vijay-Shanker, C H H Wu
    posted to bioinformatics phosphorylation software text-mining webserver by neils on 2008-04-07 01:57:56 as ** along with 2 people and 2 groups irenas yas dbk-lab T_lab
  • De novo bacterial genome sequencing: Millions of very short reads assembled on a desktop computer
    Genome Res. (2008)
    by David Hernandez, Patrice Francois, Laurent Farinelli, Magne Osteras, Jacques Schrenzel
    posted to assembly bacteria genome illumina sequencing software by neils on 2008-04-04 03:39:24 as **
  • OpenMS - An open-source software framework for mass spectrometry
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Marc Sturm, Andreas Bertsch, Clemens Groepl, Andreas Hildebrandt, Rene Hussong, Eva Lange, Nico Pfeifer, Ole S Trieglaff, Alexandra Zerck, Knut Reinert, Oliver Kohlbacher
    posted to mass opensource software spectrometry by neils on 2008-03-26 23:37:19 as ** along with 2 people olberd jyuh
  • PepLine: A Software Pipeline for High-Throughput Direct Mapping of Tandem Mass Spectrometry Data on Genomic Sequences
    J. Proteome Res. (19 March 2008)
    by Myriam Ferro, Marianne Tardif, Erwan Reguer, Romain Cahuzac, Christophe Bruley, Thierry Vermat, Estelle Nugues, Marielle Vigouroux, Yves Vandenbrouck, J&#xe9 Garin, R&#xf4, Me, Alain Viari
    posted to bioinformatics genomics mass pipeline proteomics software spectrometry by neils on 2008-03-19 13:49:21 as ** along with 1 person jyuh
  • A Perl toolkit for LIMS development
    Source Code For Biology And Medicine, Vol. 3, No. 4. (19 March 2008)
    by James A Morris, Simon A Gayther, Ian J Jacobs, Christopher Jones
    posted to lims perl software by neils on 2008-03-19 13:25:06 as **
  • DOVIS: an implementation for high-throughput virtual screening using AutoDock
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Shuxing Zhang, Kamal Kumar, Xiaohui Jiang, Anders Wallqvist, Jaques Reifman
    posted to autodock bioinformatics docking hpc screen software by neils on 2008-02-27 23:27:00 as ** along with 1 person kamalkumar
  • MODPROPEP: a program for knowledge-based modeling of protein-peptide complexes.
    Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007)
    by N Kumar, D Mohanty
    posted to binding complexes kinases mhc peptides protein-protein software webserver by neils on 2008-01-16 02:50:32 as **
  • PDBML: the representation of archival macromolecular structure data in XML
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 988-992.
    by Westbrook John, Ito Nobutoshi, Nakamura Haruki, Henrick Kim, M Berman
    posted to bioinformatics pdbml software structure wwpdb xml by neils on 2008-01-15 01:30:08 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Userscripts for the Life Sciences
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Egon Willighagen, Noel O'Boyle, Harini Gopalakrishnan, Dazhi Jiao, Rajarshi Guha, Christoph Steinbeck, David Wild
    posted to bioinformatics greasemonkey javascript software by neils on 2008-01-01 07:56:00 as ** along with 11 people jyuh chad_davis dullhunk sleepingcell laughcry Gaetan sci91078 mircea craigecht mattions wisdom_love
  • GPS: a comprehensive www server for phosphorylation sites prediction.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (Jul 2005), pp. W184-W187.
    by Yu Xue, Fengfeng Zhou, Minjie Zhu, Kashif Ahmed, Guoliang Chen, Xuebiao Yao
    posted to analysis article-nar article-predikin internet kinases microfilament phosphoproteins phosphorylation protein proteins sequence software specificity substrate tissue by neils on 2007-12-04 03:22:14 as **
  • PPSP: prediction of PK-specific phosphorylation site with Bayesian decision theory.
    BMC Bioinformatics, Vol. 7 (2006)
    by Yu Xue, Ao Li, Lirong Wang, Huanqing Feng, Xuebiao Yao
    posted to alignment amino analysis article-nar article-predikin bayes binding data kinases molecular phosphorylation protein sequence sites software theorem by neils on 2007-12-04 03:22:14 as **
  • The Bioperl toolkit: Perl modules for the life sciences.
    Genome Res, Vol. 12, No. 10. (Oct 2002), pp. 1611-1618.
    by Jason E Stajich, David Block, Kris Boulez, Steven E Brenner, Stephen A Chervitz, Chris Dagdigian, Georg Fuellen, James GR Gilbert, Ian Korf, Hilmar Lapp, Heikki Lehväslaiho, Chad Matsalla, Chris J Mungall, Brian I Osborne, Matthew R Pocock, Peter Schattner, Martin Senger, Lincoln D Stein, Elia Stupka, Mark D Wilkinson, Ewan Birney
    posted to algorithms animals article-nar article-predikin biological biology computational computer database databases design genetic graphics humans integration internet management online perl sciences software systems by neils on 2007-12-04 03:22:14 as **
  • ROCR: visualizing classifier performance in R.
    Bioinformatics, Vol. 21, No. 20. (Oct 2005), pp. 3940-3941.
    by Tobias Sing, Oliver Sander, Niko Beerenwinkel, Thomas Lengauer
    posted to article-nar article-predikin automated computer curve data graphics interface interpretation languages pattern programming recognition roc software statistical user-computer validation by neils on 2007-12-04 03:22:14 as **
  • Systematic discovery of in vivo phosphorylation networks.
    Cell, Vol. 129, No. 7. (Jun 2007), pp. 1415-1426.
    by Rune Linding, Lars J Jensen, Gerard J Ostheimer, Marcel ATM van Vugt, Claus Jørgensen, Ioana M Miron, Francesca Diella, Karen Colwill, Lorne Taylor, Kelly Elder, Pavel Metalnikov, Vivian Nguyen, Adrian Pasculescu, Jing Jin, Jin G Park, Leona D Samson, James R Woodgett, Robert B Russell, Peer Bork, Michael B Yaffe, Tony Pawson
    posted to article-predikin binding biology cdc2 cell computational cycle damage dna dna-binding enzymes factors glycogen humans intracellular kinase kinases peptides phosphoproteins phosphorylation protein proteins protein-serine-threonine proteomics repair repressor signal signaling sites software suppressor synthase transcription transduction tumor by neils on 2007-12-04 03:22:14 as **
  • Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.
    J Mol Biol, Vol. 305, No. 3. (Jan 2001), pp. 567-580.
    by A Krogh, B Larsson, G von Heijne, EL Sonnhammer
    posted to article-nar article-predikin bacterial chains computational databases design fungal genome internet markov membrane of plant porins protein proteins reproducibility research results secondary sensitivity signals software solubility sorting specificity structure by neils on 2007-12-04 03:22:13 as **
  • Kinomics: methods for deciphering the kinome.
    Nat Methods, Vol. 2, No. 1. (Jan 2005), pp. 17-25.
    by Sam A Johnson, Tony Hunter
    posted to adenosine animals article-nar article-predikin biology computational computer-assisted genetic genome humans image kinases mass phosphorylation processing protein proteome software spectrometry structure techniques tertiary triphosphate by neils on 2007-12-04 03:22:13 as **
  • KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (Jul 2005), pp. W226-W229.
    by Hsien Da Huang, Tzong Y Lee, Shih W Tzeng, Jorng T Horng
    posted to analysis article-nar article-predikin biology chains computational internet kinases markov phosphoproteins phosphorylation protein sequence software by neils on 2007-12-04 03:22:12 as **
  • Amino acid substitution matrices from protein blocks.
    Proc Natl Acad Sci U S A, Vol. 89, No. 22. (Nov 1992), pp. 10915-10919.
    by S Henikoff, JG Henikoff
    posted to acid algorithms amino animals article-predikin caenorhabditis data drosophila elegans homology lod mathematics molecular probability proteins score sequence software by neils on 2007-12-04 03:22:12 as **
  • Pfam: clans, web tools and services.
    Nucleic Acids Res, Vol. 34, No. Database issue. (Jan 2006), pp. D247-D251.
    by Robert D Finn, Jaina Mistry, Benjamin S Böckler, Sam G Jones, Volker Hollich, Timo Lassmann, Simon Moxon, Mhairi Marshall, Ajay Khanna, Richard Durbin, Sean R Eddy, Erik LL Sonnhammer, Alex Bateman
    posted to alignment article-predikin chains computer databases graphics interface internet markov protein proteins sequence software structure tertiary user-computer by neils on 2007-12-04 03:22:12 as **
  • Profile hidden Markov models.
    Bioinformatics, Vol. 14, No. 9. (1998), pp. 755-763.
    by SR Eddy
    posted to alignment article-nar article-predikin chains hmm library markov peptide sequence software by neils on 2007-12-04 03:22:12 as **
  • Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins.
    BMC Bioinformatics, Vol. 5 (Jun 2004)
    by Francesca Diella, Scott Cameron, Christine Gemünd, Rune Linding, Allegra Via, Bernhard Kuster, Thomas S Pontén, Nikolaj Blom, Toby J Gibson
    posted to animals article-predikin binding databases design humans mice phosphorylation post-translational processing protein proteins rats research sites software by neils on 2007-12-04 03:22:12 as **
  • ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (Jul 2006), pp. W362-W365.
    by Edouard de Castro, Christian JA Sigrist, Alexandre Gattiker, Virginie Bulliard, Petra, Elisabeth Gasteiger, Amos Bairoch, Nicolas Hulo
    posted to acid acids amino analysis article-predikin databases homology interface internet protein proteins sequence software structure tertiary user-computer by neils on 2007-12-04 03:22:12 as **
  • The Gene Ontology (GO) project in 2006.
    Nucleic Acids Res, Vol. 34, No. Database issue. (Jan 2006), pp. D322-D326.
    by gene O Consortium
    posted to analysis control controlled database databases expression gene genes genetic interface internet management quality sequence software systems user-computer vocabulary article-pka-pkg by neils on 2007-12-04 01:53:37 as **
  • TomoJ: tomography software for three-dimensional reconstruction in transmission electron microscopy
    BMC Bioinformatics, Vol. 8 (06 August 2007), 288.
    by Cedric Messaoudi, Thomas Boudier, Carlos, Sergio Marco
    posted to em microscopy software tomography by neils on 2007-11-29 07:00:54 as **
  • The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications
    BMC Bioinformatics, Vol. 8 (19 November 2007), 456.
    by Christopher J Bare, Paul T Shannon, Amy K Schmid, Nitin S Baliga
    posted to software bioinformatics by neils on 2007-11-20 00:02:19 as ** along with 6 people and 1 group selatham jyuh jfr dullhunk ryanraaum mircea NCCT Lab Reading Group
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