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2. Bottom-up proteomics - Wikipedia

   en.wikipedia.org/wiki/Bottom-up_proteomics

   Essentially, bottom-up proteomics is a relatively simple and reliable means of determining the protein make-up of a given sample of cells, tissues, etc. [5] In bottom-up proteomics, the crude protein extract is enzymatically digested, followed by one or more dimensions of separation of the peptides by liquid chromatography coupled to mass ...

3. List of mass spectrometry software - Wikipedia

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

   MetaMorpheus is a proteomics search software developed at the University of Wisconsin-Madison with integrated calibration, post-translational modification discovery, bottom-up and top-down proteomics search, cross-linking mass spectrometry (XL-MS) search, proteogenomic search, and label-free quantification (LFQ) capabilities. [7] MSFragger Freeware

4. Galaxy (computational biology) - Wikipedia

   en.wikipedia.org/wiki/Galaxy_(computational_biology)

   Galaxy is a scientific workflow system. These systems provide a means to build multi-step computational analyses akin to a recipe. They typically provide a graphical user interface [6] for specifying what data to operate on, what steps to take, and what order to do them in. Galaxy is also a data integration platform for biological data.

5. Biognosys Enters Reselling Agreement for Spectronaut ...

   lite.aol.com/tech/story/0022/20240918/1000992571.htm

   The agreement focuses on the co-marketing and co-selling of Biognosys’ Spectronaut software with Thermo Fisher’s mass spectrometry systems for the analysis of data-independent acquisition (DIA) proteomics experiments. The availability of Thermo Fisher’s mass spectrometry instruments with the gold standard for DIA proteomics data analysis ...

6. Shotgun proteomics - Wikipedia

   en.wikipedia.org/wiki/Shotgun_proteomics

   Targeted proteomics using SRM and data-independent acquisition methods are often considered alternatives to shotgun proteomics in the field of bottom-up proteomics. While shotgun proteomics uses data-dependent selection of precursor ions to generate fragment ion scans, the aforementioned methods use a deterministic method for acquisition of ...

7. Kepler scientific workflow system - Wikipedia

   en.wikipedia.org/wiki/Kepler_scientific_workflow...

   Kepler extends Ptolemy II, which is a software system for modeling, simulation, and design of concurrent, real-time, embedded systems developed at UC Berkeley. Collaboration on Kepler quickly grew as members of various scientific disciplines realized the benefits of scientific workflows for analysis and modeling and began contributing to the ...

8. 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.

9. Expasy - Wikipedia

   en.wikipedia.org/wiki/Expasy

   Logo Expasy 2020. Expasy is an online bioinformatics resource operated by the SIB Swiss Institute of Bioinformatics.It is an extensible and integrative portal which provides access to over 160 databases and software tools and supports a range of life science and clinical research areas, from genomics, proteomics and structural biology, to evolution and phylogeny, systems biology and medical ...