• PSIPRED

  • Referenced in 15 articles [sw11340]
  • version of a widely used transmembrane topology prediction method; or GenTHREADER, a sequence profile based...
  • HMMTOP

  • Referenced in 7 articles [sw16868]
  • HMMTOP transmembrane topology prediction server. Summary ... HMMTOP transmembrane topology prediction server predicts both the localization of helical transmembrane segments ... topology of transmembrane proteins. Recently, several improvements have been introduced to the original method ... information about segment localization to enhance the prediction power. This option improves the prediction accuracy...
  • Phobius

  • Referenced in 14 articles [sw27723]
  • predictor. This server is for prediction of transmembrane topology and signal peptides from the amino...
  • OCTOPUS

  • Referenced in 3 articles [sw35319]
  • scores and an extended topological grammar. Motivation: As α-helical transmembrane proteins constitute roughly ... knowledge of transmembrane proteins is difficult to attain experimentally, improved methods for prediction of structural ... OCTOPUS, a new method for predicting transmembrane protein topology is presented and benchmarked using ... artificial neural networks, OCTOPUS predicts the correct topology for 94% of the sequences. In particular...
  • IgTM

  • Referenced in 1 article [sw35357]
  • IgTM: An algorithm to predict transmembrane domains and topology in proteins. Background: Due to their...
  • PRED-TMBB

  • Referenced in 5 articles [sw11338]
  • TMBB: a web server for predicting the topology of beta-barrel outer membrane proteins ... Hidden Markov Model, capable of predicting the transmembrane beta-strands of the gram-negative bacteria ... resolution. We show that we can achieve predictions at least as good comparing with other ... thereafter localize the transmembrane strands and find the topology of the loops...
  • R

  • Referenced in 10196 articles [sw00771]
  • R is a language and environment for statistical...
  • LIBSVM

  • Referenced in 1204 articles [sw04879]
  • LIBSVM is a library for Support Vector Machines...
  • CHARMM

  • Referenced in 120 articles [sw05953]
  • CHARMM (Chemistry at HARvard Macromolecular Mechanics). CHARMM models...
  • ClustalW

  • Referenced in 138 articles [sw12016]
  • CLUSTAL W: improving the sensitivity of progressive multiple...
  • KEGG

  • Referenced in 281 articles [sw13866]
  • KEGG: Kyoto Encyclopedia of Genes and Genomes. KEGG...
  • PISCES

  • Referenced in 31 articles [sw16873]
  • PISCES: a protein sequence culling server. Summary: PISCES...
  • PHAT

  • Referenced in 3 articles [sw17270]
  • PHAT: A transmembrane-specific substitution matrix. Motivation: Database...
  • BLAST

  • Referenced in 251 articles [sw17334]
  • Basic Local Alignment Search Tool. BLAST finds regions...
  • Pfam

  • Referenced in 105 articles [sw23108]
  • Pfam: clans, web tools and services. Pfam is...
  • AAindex

  • Referenced in 47 articles [sw26861]
  • AAindex: amino acid index database. AAindex is a...
  • Hum-PLoc

  • Referenced in 24 articles [sw26863]
  • Hum-PLoc: a novel ensemble classifier for predicting...
  • SOSUI

  • Referenced in 8 articles [sw35979]
  • SOSUI: classification and secondary structure prediction system for...