• PFRES

  • Referenced in 6 articles [sw26875]
  • PFRES: protein fold classification by using evolutionary information and predicted secondary structure. MOTIVATION: The number ... slowing down. This indicates that the protein structure space will be soon covered and thus ... remaining structures by using the known folding patterns. Present tertiary structure prediction methods behave well ... proposed PFRES method for automated protein fold classification from low identity (<35%) sequences obtains...
  • PIBASE

  • Referenced in 2 articles [sw29350]
  • from the Structural Classification of Proteins and CATH fold classification systems. Results: PIBASE currently contains...
  • SCPRED

  • Referenced in 6 articles [sw26876]
  • sequence. Tests performed with datasets of 1673 protein chains, in which any pair of sequences ... filter to improve performance of modern fold classification methods...
  • iHSP-PseRAAAC

  • Referenced in 16 articles [sw25193]
  • folding and assisting in the establishment of proper protein conformation and prevention of unwanted protein ... sHSP, (ii) HSP40 or J-class proteins, (iii) HSP60 or GroEL/ES, (iv) HSP70, (v) HSP90 ... been achieved in discriminating HSPs from other proteins, it is still a big challenge ... also be used to investigate other protein classification problems. As a user-friendly web server...
  • PIRSF

  • Referenced in 1 article [sw22978]
  • context, and phyletic pattern. The results of classification and expert annotation are summarized in PIRSF ... comparative studies of protein function and evolution. Domain or fold-based searches allow identification ... folds. Functional convergence and functional divergence are revealed by the relationships between protein classification...
  • GPCRpred

  • Referenced in 7 articles [sw22471]
  • GPCRs from the dipeptide composition of proteins. The dataset used in this study for training ... accuracy of 99.5% when evaluated using 5-fold cross-validation. The method is further able ... GPCRs. A server for recognition and classification of GPCRs based on multiclass SVMs has been...
  • PSOFuzzySVM-TMH

  • Referenced in 3 articles [sw27664]
  • exchange group are used to formulate transmembrane protein sequences. The noisy and extraneous attributes ... support vector Machine is utilized as a classification algorithm. Two benchmark datasets, including ... PSOFuzzySVM-TMH model is assessed through 10-fold cross validation test. The empirical results reveal ... framework PSOFuzzySVM-TMH outperforms in terms of classification performance in the examined datasets...
  • PRED-CLASS

  • Referenced in 5 articles [sw26873]
  • CLASS) is presented for the generalized classification of proteins into four distinct classes-transmembrane, fibrous ... Capturing information from as few as 50 protein sequences spread among the four target classes ... predictions out of a set of 387 proteins (success rate approximately 96%) unambiguously assigned into ... assignment or as a preliminary step in fold recognition and ab initio structure prediction methods...
  • MAGRE

  • Referenced in 1 article [sw31180]
  • order to accomplish classification training, we adopted information of primary structure -- protein sequence -- from ... predictor categories according to protein structural information: General and Folding Class. We have selected...
  • pyLEMMINGS

  • Referenced in 1 article [sw22398]
  • optimization large margin algorithms for multiple instance classification and ranking, and provide them ... functionally important segments of proteins: binding sites in Calmodulin binding proteins, prion forming regions ... method has shown more than 100-fold improvement in terms of running time as compared...
  • GAP

  • Referenced in 2876 articles [sw00320]
  • GAP is a system for computational discrete algebra...
  • LAPACK

  • Referenced in 1642 articles [sw00503]
  • LAPACK is written in Fortran 90 and provides...
  • Maple

  • Referenced in 5124 articles [sw00545]
  • The result of over 30 years of cutting...
  • MATCONT

  • Referenced in 376 articles [sw00551]
  • MATCONT: Matlab software for bifurcation study of dynamical...
  • Mathematica

  • Referenced in 5957 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 12309 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

  • Referenced in 8601 articles [sw00771]
  • R is a language and environment for statistical...
  • STATISTICA

  • Referenced in 37 articles [sw00913]
  • Since 1984, StatSoft has been developing the STATISTICA...
  • AUTO

  • Referenced in 885 articles [sw01059]
  • AUTO is a software for continuation and bifurcation...
  • J-MEANS

  • Referenced in 68 articles [sw02649]
  • J-MEANS: A new local search heuristic for...