Moving your science forward

At Bioinformatics Solutions Inc., we focus on proteomic analysis using mass spectrometry and bioinformatics to resolve the identification, modification, and quantification of proteins.

Proteomics is the study of proteins expressed in a cell, tissue, or organism under a particular biological condition at a given time. The study of proteins has a wide range of applications in basic and applied science including cellular and systems biology, medicine, drug discovery, forensics, personal care products, food sciences and so much more. Importantly, the application of proteomics provides major opportunities to elucidate disease mechanisms and identify new diagnostic biomarkers and novel therapeutic targets.

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Custom proteomic workflows

ID purified proteins
or complex mixtures
Optimised and
de novo-assisted
protein identification
Summary reports
PEAKS viewer

What do we provide?

Bioinformatics Solutions Inc. offers cost-effective services for mass spectrometry (MS) based proteomics with fast turnaround times (1-3 weeks). As a Software company and a Contract Research Organisation, we can perform all sample preparation and complex mass spectrometry experiments in-house using our state-of-the-art equipment and facility. The data is then analysed using our PEAKS Xpro software. Data analysis is included with every experiment. Additionally, our services are individually customised and tailored to your specific needs.

Why use our service?

With over 20 years experience in the proteomics research community, we understand the importance and value of proteomics research to advance our understanding of the complexity underlying biological systems. We provide fast turnaround times, complete confidentiality, and guaranteed results through cost-effective and efficient mass spectrometry solutions for a wide range of industries.

Contact us for a personal consultations to develop your project, and perform all experiments in a professional, accurate, and timely manner.

Discover more about your protein or biological system

The abundance and presence of proteins in a sample offer crucial insight into the biology of a system. The identification and characterisation of thousands of proteins in a sample may allow for a greater understanding of the complexity that underlies biological systems. Our services allow for the identification and quantification of thousands of proteins even those in lower abundance that may hold biological significance. Application areas include protein expression profiling, protein quantification, protein-protein interactions, protein modifications, biomarker discovery and drug discovery (target and validation).

We can process: purified proteins, protein complexes, plasma, serum, cell lysates from tissues, tissue culture, bacteria, yeast, plants, insects, and more

Our experienced scientists can help you optimise your sample preparation to improve identification

Custom digestion protocols: Your sample is unique, and your sample preparation should be too. We can help optimise all steps to ensure optimal protein and peptide yields and MS-compatibility

Target enrichment: A common method for improving the identification of post-translational modifications (PTM), such as phosphorylation, that occurs on a subset of your total proteome

Clean-up: removal of detergents and salts that may interfere with the performance of your peptide during MS

Fractionation: Sample pre-fractionation can reduce the complexity of your sample, increasing the number of proteins that can be identified in a complex mixture, and improving identification of low-abundance targets

Depletion: Some samples, such as serum or plasma, can benefit from the removal of high-abundance proteins that may mask low-abundance targets or biomarkers

Match your science to the best mass spectrometry technique

Discovery or Targeted Mass Spectrometry: Find out what is right for you

Advances in mass spectrometry-based methods have expanded the limits of what is possible using mass spectrometry-based techniques. Depending on your research goals, we can help choose the best approach to maximise your chances of success.

Discovery-based: identify and quantify as many proteins as possible

Depending on your sample source and biological question, our scientists will work with you to customise and generate the best discovery-based (also known as bottom up or “shotgun”) workflow for your needs. Discovery based workflows form the basis of proteomics, and can be broken down into two subclasses of analysis – Data Dependent Acquisition (DDA) and Data Independent Acquisition (DIA).

Both DDA and DIA generate data that can be used to identify and quantify proteins in your sample. The number of proteins that gets identified depends on a host of factors including sample source, acquisition type, gradient type, sample processing, instrument type and methodology, however, up to 10000 proteins from a cell lysate or tissue is reliably possible.

We offer various quantification techniques as well including but not limited to:

  • Label Free Quantification (DDA and DIA)
  • Reporter Ion based Quantification (TMT)
  • SILAC based quantification

Finally, we do offer specialised applications such as phosphorylation site identification and quantification, N-linked glycosylation site identification, and isomerisation analysis in experiments that can be discovery based or targeted for specific amino acids and peptide of interest.

Targeted Proteomics: monitor individual proteins with high sensitivity, quantitative accuracy, and reproducibility

Targeted proteins allows for the absolute or relative quantification of up to hundreds of proteins in a single run. It can be equated to doing as many Western blots, but in a single run and without the cost and troubleshooting of antibodies! In these methods (termed SRM or PRM), the instrument is tuned to monitor for specific peptides only, allowing the user to interrogate the abundances of specific proteins without interfering noise. Often times, these experiments are complimented with heavy labelled peptides which can be spiked into the sample in known amounts, and used as both a positive control and a reference point for absolute quantification.

Intact Mass

Our state of the art lab is also able to provide intact mass measurements for proteins and antibodies up to 150kDa. This can be used to confirm the sequence of a synthetically derived peptide, or validate the sequence of a de novo sequenced antibody.


Every proteomics experiment done at BSI includes a database search and or quantification analysis. We will provide you the identified proteins and relative abundances. However, we do offer an extensive data analysis service in which our scientists will analyse your data, and prepare a complete report based on the findings. These analyses are completely customisable to the user, and will be discussed upon in consultation!

Your research is important to us. We want to help you get the results you’re looking for. Contact us to schedule a free consultation to discuss your project. We will help you determine the optimal experimental setup for a fast turnaround time and with the best price.

Our Instruments

Orbitrap Fusion Lumos

  • An ultra-high resolution Tribrid Mass Spectrometer
  • Excelling at low-level PTM and intact mass analysis
  • Flexible fragmentation modes with EThcD capabilities

Orbitrap Exploris 240

  • A powerful and versatile Orbitrap-based Mass Spectrometer
  • Discovery and identification
  • Intelligent data acquisition for targeted methods

timsTOF Pro with PASEF® technology

  • Trapped ion mobility spectrometry paired with high-resolution QTOF
  • Structural isomers and Chimeric spectrum
  • Captive nanoBooster technology for increased sensitivity

Custom deliverables and interactive PEAKS viewer

The assembly of your results will be customised to your project, but may include:

  • de novo peptide sequences
  • Identification and/or abundance of proteins in your sample
  • Statistical analysis, such as ANOVA, volcano plots, Venn diagrams, and assistance with third-party bioinformatic software or applications
  • Comprehensive PEAKS Studio report including metadata
  • Interactive PEAKS viewer
  • Raw LC-MS/MS data (optional)

Want to know more? Request more details to learn why our methodology and experience gives you better results than our competitors. Have questions? We’ll be happy to answer any of your inquiries today.