Proteomics Analysis Software | Shotgun Proteomics | DDA Proteomics


SpectroMine ™

Unsurpassed Performance for DDA Proteomics.

Shotgun proteomics, also known as data-dependent acquisition (DDA), plays an important role in the generation of spectral libraries, qualitative proteome analysis, and the identification of post-translational modifications. In addition, recent innovations in isobaric labeling quantification, with the introduction of novel tags and wider multiplexing options, add accurate quantification of the proteome and widen the applications of shotgun proteomics for quantitative analysis.

      SpectroMine™ expands the possibilities for researchers in shotgun proteomics:

      • DIA, DDA and PRM Searchable: Increased versatility with the opportunity to search multiple data acquisition formats.
        Scalability to 1’000s of Runs: Memory-efficient data handling enables concurrent processing of >1’000 of MS runs.
        Accurate Statistics: FDR control on PSM, peptide, and protein level.
      • Differential Abundance Analysis: Detect previously undetectable information contrasting different biological or medical conditions.
        GO Support: Link your protein identifications to gene ontology annotations.
      • All-In-One Workflow: With integrated quality control, spectra, and post-analysis visualization.
        Isobaric Labeling Quantification: Compatible with Tandem Mass Tags (TMT), iTRAQ and EASI-tag reagents.
      Supported Instruments


      • Thermo Scientific™ Orbitrap Exploris™ 480
      • Thermo Scientific™ Q Exactive™ Series
      • Thermo Scientific™ Orbitrap Fusion™ Series
      • SCIEX TripleTOF® Series (5600, 5600+, 6600)
      • Bruker Impact II and timsTOF™ and timsTOF™ Pro
      • Waters Xevo® G2-XS QToF , Synapt G2-Si
      Supported Methods and Workflows


      • SpectroMine™ can search DDA, DIA, and PRM with MS1 information.
      • SpectroMine™ can search and quantify DDA runs from isobaric-labeled experiments using labels such as TMT, EASI-tag, and iTRAQ.
      • MS2 and SPS-MS3 methods are supported. All ion trap resolutions are supported. SpectroMine™ supports neutral loss-based fragmentation label methods (such as EASI-tag).
      Recommended System Requirements


      • Windows 10 x64
      • Intel or AMD CPU with 4 cores or more
      • 2 TB of hard drive space or more (2x data set size)
      • 16 GB of memory space or more

      If you are interested in ordering one of our softwares, please submit a request form or contact us. Our team will review your inquiry and get back to you within 5 working days.

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