• SOSUI

  • Referenced in 8 articles [sw35979]
  • SOSUI: classification and secondary structure prediction system for membrane proteins. The system SOSUI ... discrimination of membrane proteins and soluble ones together with the prediction of transmembrane helices ... transmembrane helix prediction was 97%. AVAILABILITY: The system SOSUI is available through internet access...
  • P-Lingua

  • Referenced in 33 articles [sw27718]
  • Membrane Computing which aims to be a standard to define P systems...
  • MeCoSim

  • Referenced in 8 articles [sw14527]
  • biological phenomena by means of P System. MeCoSim (Membrane Computing Simulator) is a software that ... different types of models based on P systems...
  • ESPResSo

  • Referenced in 17 articles [sw06335]
  • colloids, ferrofluids and biological systems, for example DNA and lipid membranes http://espressomd.org...
  • Smoldyn

  • Referenced in 23 articles [sw23962]
  • bind to membranes much as they would in a real biological system. Smoldyn is easy...
  • PDB-REPRDB

  • Referenced in 5 articles [sw26865]
  • REPRDB. In April 2001, the system was moved to the Computational Biology Research Center (CBRC ... residues. The number of entries including membrane protein structures in the PDB has increased rapidly ... REPRDB system. Moreover, the PDB-REPRDB system for membrane protein chains begins at the same...
  • DL_POLY

  • Referenced in 31 articles [sw09140]
  • membranes; proteins; solid and liquid interfaces; catalysis; liquid crystals; intercalation and clathrates; and novel systems...
  • Memtype-2L

  • Referenced in 39 articles [sw16472]
  • protein or not? If it is, which membrane protein type it belongs to? These questions ... process with other molecules in a biological system. Particularly, with the avalanche of protein sequences ... identify a query protein as membrane or non-membrane; if it is a membrane protein...
  • CLIPS

  • Referenced in 2 articles [sw25378]
  • CLIPS Simulator for Recognizer P Systems with Active Membranes. In this paper we propose ... represent recognizer P systems with active membranes based on Production Systems techniques. This representation allows...
  • iLoc-Animal

  • Referenced in 20 articles [sw22427]
  • prediction quality of a multi-label system in a rigorous way, five indices were introduced ... location sites: (1) acrosome, (2) cell membrane, (3) centriole, (4) centrosome, (5) cell cortex ... microsome, (16) nucleus, (17) peroxisome, (18) plasma membrane, (19) spindle, and (20) synapse, where many ... more locations. For such a complicated system, the outcomes achieved by iLoc-Animal...
  • JPLANT

  • Referenced in 1 article [sw13533]
  • system becomes a hard task when the number of membranes and objects increases. In this ... evolution of a P system model with membrane creation. We also present some experiments performed ... research in computer graphics with membrane systems...
  • iLoc-Euk

  • Referenced in 37 articles [sw22434]
  • used to deal with the systems containing both singleplex and multiplex proteins. As a demonstration ... location sites: (1) acrosome, (2) cell membrane, (3) cell wall, (4) centriole, (5) chloroplast ... deal with such a complicated and stringent system. As a user-friendly web-server, iLoc...
  • MemHyb

  • Referenced in 15 articles [sw25194]
  • tackle the interesting problem of classifying membrane protein types using their sequence information. We consider ... features and provide them to our classification system based on support vector machine (SVM) with ... split amino acid composition to effectively discriminate membrane protein types. Linear, polynomial, and RBF based...
  • iLoc-Hum

  • Referenced in 36 articles [sw22433]
  • apparatus, lysosome, microsome, mitochondrion, nucleus, peroxisome, plasma membrane, and synapse, where some proteins belong ... subset. For such a complicated and stringent system, the overall success rate achieved by iLoc...
  • SGN Sim

  • Referenced in 8 articles [sw29325]
  • perturbations, a system of reactions within a compartmentalized environment where membrane crossing is controlled...
  • pLinguaCore

  • Referenced in 6 articles [sw06894]
  • rules and membrane structure read from a file where a P system is defined, detects...
  • iLoc-Plant

  • Referenced in 18 articles [sw22419]
  • used to deal with the systems containing both single- and multiple-location plant proteins ... following 12 location sites: (1) cell membrane, (2) cell wall, (3) chloroplast, (4) cytoplasm ... such a stringent and complicated plant protein system. As a user-friendly web-server, iLoc...
  • SMUTHI

  • Referenced in 1 article [sw38634]
  • photonic crystals and glasses, perforated membranes and plasmonic systems, to name a few relevant examples...
  • Hum-PLoc

  • Referenced in 24 articles [sw26863]
  • many basic individual classifiers through a voting system. The ”engine” of these basic classifiers ... mitochondrion; (10) nucleus; (11) peroxisome; (12) plasma membrane. To get rid of redundancy and homology...
  • Euk-PLoc

  • Referenced in 24 articles [sw22420]
  • many basic individual classifiers through a voting system. Each of these basic classifiers was engineered ... mitochondria, (13) nucleus, (14) peroxisome, (15) plasma membrane, (16) plastid, (17) spindle pole body...