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  2. List of protein subcellular localization prediction tools

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

    MetaLocGramN is a gateway to a number of primary prediction methods (various types: signal peptide, beta-barrel, transmembrane helices and subcellular localization predictors). In author's benchmark, MetaLocGramN performed better in comparison to other SCL predictive methods, since the average Matthews correlation coefficient reached 0.806 that ...

  3. List of mass spectrometry software - Wikipedia

    en.wikipedia.org/wiki/List_of_mass_spectrometry...

    BACIQ is a mathematically rigorous approach that integrates peptide intensities and peptide-measurement agreement into confidence intervals for protein ratios. Byos Proprietary: Byos commercial software allows XIC of peptide level mass spec data from any MS vendor and relative quantity of PTM vs unmodified.

  4. Mascot (software) - Wikipedia

    en.wikipedia.org/wiki/Mascot_(software)

    Peptide Mass Fingerprint search Identifies proteins from an uploaded peak list using a technique known as peptide mass fingerprinting. Sequence query Combines peptide mass data with amino acid sequence and composition information usually obtained from MS/MS tandem mass spectrometry data. Based on the peptide sequence tag approach. MS/MS Ion Search

  5. sc (spreadsheet calculator) - Wikipedia

    en.wikipedia.org/wiki/Sc_(spreadsheet_calculator)

    sc is a cross-platform, free, TUI, spreadsheet and calculator application that runs on Unix and Unix-like operating systems. It has also been ported to Windows. It can be accessed through a terminal emulator, and has a simple interface and keyboard shortcuts resembling the key bindings of the Vim text editor. It can be used in a similar manner ...

  6. Hierarchical editing language for macromolecules - Wikipedia

    en.wikipedia.org/wiki/Hierarchical_Editing...

    The hierarchical editing language for macromolecules (HELM) is a method of describing complex biological molecules. It is a notation that is machine readable to render the composition and structure of peptides, proteins, oligonucleotides, and related small molecule linkers.

  7. Ramachandran plot - Wikipedia

    en.wikipedia.org/wiki/Ramachandran_plot

    The ω angle at the peptide bond is normally 180°, since the partial-double-bond character keeps the peptide bond planar. [3] The figure in the top right shows the allowed φ,ψ backbone conformational regions from the Ramachandran et al. 1963 and 1968 hard-sphere calculations: full radius in solid outline, reduced radius in dashed, and ...

  8. Peptide microarray - Wikipedia

    en.wikipedia.org/wiki/Peptide_microarray

    A peptide microarray is a planar slide with peptides spotted onto it or assembled directly on the surface by in-situ synthesis. Whereas peptides spotted can undergo quality controls that include mass spectrometer analysis and concentration normalization before spotting and result from a single synthetic batch, peptides synthesized directly on the surface may suffer from batch-to-batch ...

  9. PeptideAtlas - Wikipedia

    en.wikipedia.org/wiki/PeptideAtlas

    PeptideAtlas is a proteomics data resource that gathers tandem mass spectrometry datasets from around the world, reprocesses them with the Trans-Proteomic Pipeline, and makes the combined result freely available to the community.

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