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Homology-based gene prediction based on amino acid and intron position conservation as well as RNA-Seq data [14] [15] GENIUS II Links ORFs in complete genomes to protein 3D structures: Prokaryotes, Eukaryotes [16] geneid: Program to predict genes, exons, splice sites, and other signals along DNA sequences: Eukaryotes [17] GeneParser
This list of protein subcellular localisation prediction tools includes software, databases, and web services that are used for protein subcellular localization prediction. Some tools are included that are commonly used to infer location through predicted structural properties, such as signal peptide or transmembrane helices , and these tools ...
Predict the probability that particular portions of a protein will form amyloid. sequence length Amyloidogenic regions FoldAmyloid [17] 2010 Web Server - FoldAmyloid: Secondary structure-related. Prediction of amyloid regions using expected probability of hydrogen bonds formation and packing densitites of residues. sequence
Constituent amino-acids can be analyzed to predict secondary, tertiary and quaternary protein structure. This list of protein structure prediction software summarizes notable used software tools in protein structure prediction, including homology modeling, protein threading, ab initio methods, secondary structure prediction, and transmembrane helix and signal peptide prediction.
Ab Initio gene prediction is an intrinsic method based on gene content and signal detection. Because of the inherent expense and difficulty in obtaining extrinsic evidence for many genes, it is also necessary to resort to ab initio gene finding, in which the genomic DNA sequence alone is systematically searched for certain tell-tale signs of protein-coding genes.
Protein function prediction methods are techniques that bioinformatics researchers use to assign biological or biochemical roles to proteins. These proteins are usually ones that are poorly studied or predicted based on genomic sequence data.
Accurate prediction of protein function can have longstanding implications on biomedical and pharmaceutical research. The CAFA experiment is designed to provide unbiased assessment of computational methods, to stimulate research in computational function prediction, and provide insights into the overall state-of-the-art in function prediction.
PredictProtein (PP) is an automatic service that searches up-to-date public sequence databases, creates alignments, and predicts aspects of protein structure and function. Users send a protein sequence and receive a single file with results from database comparisons and prediction methods.