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  2. List of protein structure prediction software - Wikipedia

    en.wikipedia.org/wiki/List_of_protein_structure...

    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.

  3. SOSUI - Wikipedia

    en.wikipedia.org/wiki/SOSUI

    SOSUI is a free online tool that predicts a part of the secondary structure of proteins from a given amino acid sequence (AAS). The main objective is to determine whether the protein in question is a soluble or a transmembrane protein .

  4. List of protein subcellular localization prediction tools

    en.wikipedia.org/wiki/List_of_protein_sub...

    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]

  5. RaptorX - Wikipedia

    en.wikipedia.org/wiki/RaptorX

    RaptorX is the successor to the RAPTOR protein structure prediction system. RAPTOR was designed and developed by Dr. Jinbo Xu and Dr. Ming Li at the University of Waterloo. RaptorX was designed and developed by a research group led by Prof. Jinbo Xu at the Toyota Technological Institute branch at Chicago.

  6. List of protein secondary structure prediction programs

    en.wikipedia.org/wiki/List_of_protein_secondary...

    server download: 2011 GOR: Information theory/Bayesian inference: Many implementations: Basic GOR GOR V: 2002 (GOR V) Jpred: Multiple Neural network assignment from PSI-BLAST and HMMER profiles. Predicts secondary structure and solvent accessibility: Webserver: server and API: 1998 PredictProtein: Profile-based neural network: Webserver: server ...

  7. Protein aggregation predictors - Wikipedia

    en.wikipedia.org/wiki/Protein_aggregation_predictors

    Prediction of the aggregation propensities single or multiple sequences based on physicochemical properties. sequence hot spot length Amyloidogenic regions Pafig [11] 2009 Web server- AMYLPRED2. Download. Phenomenological. Identification of Hexapeptides associated to amyloid fibrillar aggregates. sequence - Amyloidogenic regions Net-CSSP [12 ...

  8. List of sequence alignment software - Wikipedia

    en.wikipedia.org/wiki/List_of_sequence_alignment...

    REAL is an efficient, accurate, and sensitive tool for aligning short reads obtained from next-generation sequencing. The programme can handle an enormous amount of single-end reads generated by the next-generation Illumina/Solexa Genome Analyzer. cREAL is a simple extension of REAL for aligning short reads obtained from next-generation ...

  9. List of gene prediction software - Wikipedia

    en.wikipedia.org/wiki/List_of_gene_prediction...

    Neural network promoter prediction: Prokaryotes, Eukaryotes [38] NNSPLICE: Neural network splice site prediction: Drosophila, Human [39] ORFfinder: Graphical analysis tool to find all open reading frames: Prokaryotes, Eukaryotes [40] Regulatory Sequence Analysis Tools: Series of modular computer programs to detect regulatory signals in non ...