• PONDR-FIT

  • Referenced in 2 articles [sw16904]
  • predictor of intrinsically disordered amino acids. Protein intrinsic disorder is becoming increasingly recognized in proteomics ... many different experimental methods for characterizing intrinsically disordered proteins and regions; nevertheless, the prediction ... intrinsic disorder from amino acid sequence remains a useful strategy especially for many large-scale ... combining the outputs of several individual disorder predictors. By eight-fold cross-validation, this meta...
  • MFDp2

  • Referenced in 1 article [sw16903]
  • Intrinsic Disorder in Proteins Using MFDp2. Intrinsically disordered proteins (IDPs) are either entirely disordered...
  • CHARMM36m

  • Referenced in 1 article [sw35721]
  • improved force field for folded and intrinsically disordered proteins. The all-atom additive CHARMM36 protein ... polypeptide backbone conformational ensembles for intrinsically disordered peptides and proteins...
  • MetaDisorder

  • Referenced in 1 article [sw16901]
  • server for the prediction of intrinsic disorder in proteins. Background: Intrinsically unstructured proteins (IUPs) lack ... protein. As of December 2011, approximately 60 methods for computational prediction of protein disorder from ... Results: Given the diversity of existing intrinsic disorder prediction methods, we decided to test whether ... disorder predictor GSmetaDisorder3D that used no third-party disorder predictors, but alignments to known protein...
  • ESpritz

  • Referenced in 1 article [sw16911]
  • accurate and fast prediction of protein disorder. Motivation: Intrinsically disordered regions...
  • IUPred

  • Referenced in 7 articles [sw16915]
  • based on estimated energy content. Summary: Intrinsically unstructured/disordered proteins and domains (IUPs) lack a well ... sets optimized for predicting short or long disordered regions and structured domains. Availability: The IUPred...
  • MoRFpred

  • Referenced in 0 articles [sw25074]
  • characterization of short disorder-to-order transitioning binding regions in proteins. Motivation: Molecular recognition features ... regions located within longer intrinsically disordered regions that bind to protein partners via disorder...
  • DFLpred

  • Referenced in 0 articles [sw25081]
  • quantify propensities to form certain secondary structures, disordered regions and structured regions, which are processed ... independent test dataset with low sequence-identity proteins, it secures area under the receiver operating ... prediction of flexible linkers, flexible residues, intrinsically disordered residues and various combinations of these methods ... human proteome reveals that about 10% of proteins have a large content of over...
  • IDP-Seq2Seq

  • Referenced in 1 article [sw40045]
  • Seq2Seq: Identification of Intrinsically Disordered Regions based on Sequence to Sequence Learning. Results: In this ... from natural language processing (NLP) to map protein sequences to ‘semantic space’ to reflect...
  • LAPACK

  • Referenced in 1695 articles [sw00503]
  • LAPACK is written in Fortran 90 and provides...
  • Maple

  • Referenced in 5363 articles [sw00545]
  • The result of over 30 years of cutting...
  • Mathematica

  • Referenced in 6337 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 13460 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

  • Referenced in 9810 articles [sw00771]
  • R is a language and environment for statistical...
  • NEURON

  • Referenced in 187 articles [sw03059]
  • Parallel network simulations with NEURON. The NEURON simulation...
  • UCI-ml

  • Referenced in 3379 articles [sw04074]
  • UC Irvine Machine Learning Repository. We currently maintain...
  • CRAN

  • Referenced in 549 articles [sw04351]
  • R is ‘GNU S’, a freely available language...
  • GAUSSIAN

  • Referenced in 194 articles [sw06118]
  • Gaussian is an electronic structure program, used by...
  • SciPy

  • Referenced in 753 articles [sw06293]
  • SciPy (pronounced ”Sigh Pie”) is open-source software...
  • NumPy

  • Referenced in 537 articles [sw06294]
  • NumPy is the fundamental package for scientific computing...