Computational Innovations Enabling Proteomics
Unlock the potential of your mass spectrometry data. Developed by world-leading experts, our MSFragger-powered FragPipe computational platform is capable of processing even the most challenging proteomics datasets. From immunopeptidomics to chemoproteomics to glycoproteomics, we provide cutting-edge bioinformatics solutions that will address your needs.
Advanced Algorithms
Fragmatics is a University of Michigan spin-out company developing bioinformatics tools for mass spectrometry-based proteomics. Our advanced algorithms significantly enhance the speed and accuracy of peptide and protein identification and quantification, empowering researchers to transform complex mass spectrometry data into valuable insights. At Fragmatics, we are committed to pushing the boundaries of what's possible in proteomics.
Comprehensive Proteomics Platform
Our flagship algorithm, the proteomics search engine MSFragger, along with the MSFragger-powered FragPipe computational platform, support diverse proteomics workflows, including large-scale protein profiling, immunopeptidomics, chemoproteomics, glycoproteomics, and post-translational modification analysis. Fast enough to run on a standard desktop, it processes data from all major mass spectrometry platforms and accommodates various experimental setups, such as data-independent acquisition (DIA), tandem mass tag (TMT), and SILAC quantification, ensuring flexibility and adaptability for diverse research needs.
Unmatched Performance and Versatility
Performance
Incorporating innovative indexing algorithms and optimized signal processing, our tools provide an unparalleled combination of speed, identification sensitivity, and quantification accuracy across diverse proteomics workflows. They are designed to run efficiently on desktops, high-performance clusters, and cloud platforms, offering best-in-class flexibility for various computational needs.
Trusted Tools for Precision Proteomics
Trust
Backed by over 25 years of pioneering computational proteomics research, our algorithms and tools are trusted and used by thousands of researchers worldwide. They are well-documented in numerous publications and validated for rigorous false discovery rate (FDR) control, making them essential for achieving high precision and reliability in peptide identification and quantification.
Smooth Integration for Advanced Analysis
Integration
Our tools seamlessly integrate with downstream data analysis and visualization platforms such as FragPipe-Analyst, Skyline, and MSStats. This interoperability ensures a streamlined workflow, allowing researchers to move effortlessly from raw data processing to in-depth analysis and visualization, resulting in more comprehensive insights and interpretations of proteomics data.
Why Choose Fragmatics
Tailored Solutions
Our computational proteomics software solutions are crafted to meet the rigorous demands of both academic and biotech research, providing advanced insights and capabilities for proteomics data analysis. They excel in drug discovery, biomarker identification, and translational and clinical research settings, continually adapting to your evolving research needs. Additionally, we can collaborate with you to develop custom solutions tailored to your specific requirements.
Cutting-Edge Technology
We integrate cutting-edge computational technology into our research software, offering an indexing-enhanced ultrafast search engine, AI-assisted rescoring, optimized mass spectrometry signal processing, and robust quality control measures. Our algorithms are fully published in leading peer-reviewed journals and undergo rigorous benchmarking and continuous improvement, ensuring you have access to the latest innovations in proteomics bioinformatics technology.
Dedicated Technical Support
Outstanding technical support is central to our services. We provide dedicated assistance, training, and ongoing guidance to help researchers maximize the value of our software solutions and enhance their research outcomes. Our support includes training at major international conferences and workshops, comprehensive web tutorials, and active participation in tool support forums. Fragmatics customers and industrial partners receive special priority access to the core tool development team, ensuring tailored support to meet their unique needs.
