SpectroMine™ - Biognosys

SpectroMineTM

All in one, vendor-neutral DDA proteomics software supporting labeled and label-free quantification, PTM discovery, nonspecific and open searches.
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16

Ready to use workflows for isobaric label-based quantification

>20%

More immunopeptides identified with Kuiper 

2

Powerful search engines working together

Unsurpassed DDA analysis

SpectroMine offers a seamless, vendor-neutral DDA proteomics solution that delivers deep proteome analysis. Its intuitive interface and automated workflows streamline spectral library creation, PTM analysis, and both labelled and label-free quantification with minimal setup. Optimised for high throughput and reproducibility – and fully compatible with all major mass spectrometers – SpectroMine empowers researchers to generate robust, high-confidence data faster than ever.

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Vendor Agnostic

Analyze DDA data from any major mass spectrometry vendor and most popular methods. 

Superior Immunopeptidomics Identification

The all‑new Kuiper search engine takes peptidomics searches to new depths and record speeds.

Dedicated Product Support

Our team spans the globe enabling fast response whenever you need us.

New update

Introducing SpectroMine™

Explore all new features
Try SpectroMine
Kuiper, our new search engine, shows the power of approaching a challenge with a fresh perspective. Tailor-made to address the complexities of unspecific search spaces in proteomics, Kuiper offers a remarkable reduction in analysis time while boosting peptide identification rates. We believe that Kuiper will contribute significantly to drive meaningful advances in peptidomics, particularly in the field of immunopeptidomics.
Lukas Reiter, PhD, CTO of Biognosys

What users say about SpectroMineTM?

I have been thoroughly impressed by the capabilities of SpectroMine, particularly in the context of MS-based quantitative proteomics for host cell protein monitoring.

Somar Khalil, PhD
GlaxoSmithKline

These companies trust us

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Frequently Asked Questions

SpectroMine is Biognosys’ powerful and user–friendly solution for DDA proteomics. SpectroMine comes with significantly increased processing speed and new functionalities for specialized workflows such as PTM analysis and immunopeptidomics. Take advantage of the most powerful search engine for isobaric labelling quantification with support for the latest acquisition methods and labelling reagents.

Biognosys offers a complimentary 30–day trial of SpectroMine, including full access to all features, training materials, and expert support. During the trial, you can explore key workflows using your own DDA data, with guidance available through video tutorials and a dedicated consultation session.

To request a trial, simply complete the “Start a free trial” form – our team will be in touch with next steps.

Our support team is available at support@biognosys.com.

As a SpectroMine user, the following resources available to help you get the most out of the software:
 
  • Video Tutorials: Explore our library of video tutorials offering in–depth discussions and step–by–step walkthroughs of the most commonly used workflows in SpectroMine.
  • User Manual: For detailed guidance, refer to the software manual, available both online and within the application under the About menu.

If you need further assistance, please contact us at support@biognosys.com.

For consultations or help with specific software questions, kindly include details about your analysis, workflow steps, and any relevant error messages or logs to help us provide efficient and targeted support.

Technical Details

Specifications

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Supported Instruments

SpectroMine supports mass spectrometers from Thermo Scientific™, Sciex, Bruker and Waters.

The specific supported models are:

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

SpectroMine performs two main tasks with MS run files as input: searching, and quantifying isobaric labeled and label-free DDA experiment samples.

  • 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).

SpectroMine is available for Windows and Linux operating systems (operated via command line).

Detailed, recommend specifications:

  • Windows 11 x64 / Windows Server 2016 or late /Ubuntu 22.04 LTS
  • Intel or AMD CPU with 16 cores or more 
  • 2 TB of free hard drive space or more (2x data set size) 
  • 16 GB of memory or more (1 precursor in 1 run amounts to ~0.5 KB of RAM) 
  • .NET 8.0 or higher /.NET 8.0 for Linux

We offer licensing solutions designed to suit your needs. Please reach out via our contact form or email us at support@biognosys.com for more information.

Dedicated to SpectromineTM

Resources

Posters
Efficient Identification of Peptides from Immunopeptidomics DDA Data
Posters
Efficient Identification of Peptides from Immunopeptidomics DDA Data
Posters
Efficient Peptide Identification for Immunopeptidomics DDA data
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