Search results
Results from the WOW.Com Content Network
Name Method description Type Link Initial release RaptorX-SS8 : predict both 3-state and 8-state secondary structure using conditional neural fields from PSI-BLAST profiles ...
Some of these oncogenes include c-KIT, PDGF-A, c-Myc and VEGF, showing the importance of this secondary structure in cancer growth and development. While the formation of G-quadruplex structure vary to some extent for the different promoter regions of oncogenes, the consistent stabilization of these structures have been found in cancer ...
Distributed-computing implementation of Rosetta algorithm: Downloadable program Abalone: Molecular Dynamics folding: Program C-QUARK C-QUARK is a method for ab initio protein structure prediction. Based on deep-learning based contact-map predictions into the fragment assembly simulations. Webserver
The protein structure prediction remains an extremely difficult and unresolved undertaking. The two main problems are the calculation of protein free energy and finding the global minimum of this energy. A protein structure prediction method must explore the space of possible protein structures which is astronomically large.
The DSSP algorithm is the standard method for assigning secondary structure to the amino acids of a protein, given the atomic-resolution coordinates of the protein. The abbreviation is only mentioned once in the 1983 paper describing this algorithm, [2] where it is the name of the Pascal program that implements the algorithm Define Secondary Structure of Proteins.
Prediction of transmembrane helices to identify transmembrane proteins. [111] 2001 TMPred: The TMpred program makes a prediction of membrane-spanning regions and their orientation. The algorithm is based on the statistical analysis of TMbase, a database of naturally occurring transmembrane proteins (bio.tools entry) [112]
I-TASSER is a template-based method for protein structure and function prediction. [1] The pipeline consists of six consecutive steps: 1, Secondary structure prediction by PSSpred; 2, Template detection by LOMETS [6] 3, Fragment structure assembly using replica-exchange Monte Carlo simulation [7]
HMM-based gene structure prediction: multiple genes, both chains: Eukaryotes [12] FrameD: Find genes and frameshift in G+C rich prokaryote sequences: Prokaryotes, Eukaryotes [13] GeMoMa: Homology-based gene prediction based on amino acid and intron position conservation as well as RNA-Seq data [14] [15] GENIUS II