Parallel Squared Technology Institute
Parallel Squared Technology Institute (PTI) is a non-profit research organization dedicated to advancing high-throughput proteomics technology to understand disease mechanisms, especially neurodegenerative diseases like Alzheimer's. PTI develops innovative mass spectrometry methods, such as plexDIA, PSMtags, timePlex, and JMod, to enable scalable, sensitive, and accurate protein analysis at the single-cell level. The institute fosters open science, collaboration, and community engagement to accelerate biomedical research and discovery.
Industries
Nr. of Employees
small (1-50)
Parallel Squared Technology Institute
Products
Multiplexed proteomics methods for high-throughput LC-MS
Method frameworks that multiplex peptides and samples to boost proteomics throughput and data completeness for low-input and single-cell analyses.
Mass tag reagents for multiplexed DIA workflows
Mass-tag chemical reagents developed to improve fragment ion detection, enable higher-plex DIA labeling, and support increased sample-per-day throughput.
Joint spectral modeling software for multiplexed spectra
Open-source software implementing linear-superposition models to deconvolve overlapping spectra from multiplexed acquisitions and improve identification and quantification.
Time-encoded sample multiplexing implementations
Experimental protocols and computational workflows that stagger chromatographic separations to encode samples in the time domain, enabling combinatorial multiplexing with mass-domain approaches.
Multiplexed proteomics methods for high-throughput LC-MS
Method frameworks that multiplex peptides and samples to boost proteomics throughput and data completeness for low-input and single-cell analyses.
Mass tag reagents for multiplexed DIA workflows
Mass-tag chemical reagents developed to improve fragment ion detection, enable higher-plex DIA labeling, and support increased sample-per-day throughput.
Joint spectral modeling software for multiplexed spectra
Open-source software implementing linear-superposition models to deconvolve overlapping spectra from multiplexed acquisitions and improve identification and quantification.
Time-encoded sample multiplexing implementations
Experimental protocols and computational workflows that stagger chromatographic separations to encode samples in the time domain, enabling combinatorial multiplexing with mass-domain approaches.
Services
Multi-day workshops covering single-cell sorting, automated sample preparation, LC-MS acquisition, and proteomics data analysis for research participants.
Collaborative programs and membership pathways that enable external scientists to propose projects using on-site sample preparation, mass spectrometry analysis, and computational support under open-science guidelines.
Publication and public release of experimental protocols, datasets, and open-source analysis code to support reproducibility and community use.
Multi-day workshops covering single-cell sorting, automated sample preparation, LC-MS acquisition, and proteomics data analysis for research participants.
Collaborative programs and membership pathways that enable external scientists to propose projects using on-site sample preparation, mass spectrometry analysis, and computational support under open-science guidelines.
Publication and public release of experimental protocols, datasets, and open-source analysis code to support reproducibility and community use.
Expertise Areas
- Single-cell proteomics
- Mass spectrometry method development
- Multiplexed proteomics (sample and peptide multiplexing)
- Proteomics reagent design
Key Technologies
- Data-independent acquisition (DIA) mass spectrometry
- Isotopic/nonisobaric mass tags for multiplexing
- Time-encoded (temporal) sample multiplexing
- Liquid chromatography–mass spectrometry (LC-MS)
News & Updates
On May 30 2024, PTI hosted its second annual single-cell proteomics workshop, providing hands-on experience in sample preparation, mass spectrometry, and data analysis.
PTI announced its 2025 single-cell proteomics workshop, with videos available for those who could not attend.
PTI has developed the next generation of applications and methods in single cell proteomics by integrating advances in computational sciences, chemistry, biology, and mass spectrometry.
A publication providing best practices, quality controls, and data-reporting guidelines for reliable single-cell proteomics workflows.
A study demonstrating how plexDIA increases proteomics throughput from tiny samples without losing accuracy, enabling high-coverage analysis at the single-cell level.
On May 30 2024, PTI hosted its second annual single-cell proteomics workshop, providing hands-on experience in sample preparation, mass spectrometry, and data analysis.
PTI announced its 2025 single-cell proteomics workshop, with videos available for those who could not attend.
PTI has developed the next generation of applications and methods in single cell proteomics by integrating advances in computational sciences, chemistry, biology, and mass spectrometry.
A publication providing best practices, quality controls, and data-reporting guidelines for reliable single-cell proteomics workflows.
A study demonstrating how plexDIA increases proteomics throughput from tiny samples without losing accuracy, enabling high-coverage analysis at the single-cell level.