Illumina Protein Prep

This automated NGS-based proteomics solution with SOMAmer technology and Illumina sequencing and analysis detects and quantifies 9.5K human proteins in 2.5 days.

Illumina Protein Prep is available for Early Access
Early access to our innovative solution is now available for plasma and serum samples with a 9.5K unique human protein panel

Overview

Illumina Protein Prep enables discovery and quantification of human proteins across more than 200 biological pathways using a SOMAmer-based proteomics assay with an NGS readout. 

Key features

  • 9.5K unique human protein targets in a single plasma or serum sample with NGS readout on NovaSeq Systems

  • Sample to results in under 2.5 days with just 4 hours of hands-on time 

  • Integrated analysis with DRAGEN secondary analysis and Illumina Connected Multiomics

Rigorous validation

SOMAmer Reagents used in the Illumina Protein Prep assay are rigorously characterized by shape specificity and polyionic competition and orthogonally confirmed by methods such as mass spectroscopy and ELISA (enzyme-linked immunosorbent assay).

Sensitive, dynamic, and accurate

SOMAmer Reagents provide market-leading reproducibility with ~5.5%* CV and femtomolar sensitivity with over a 10-log dynamic range.

*Expected median CV calculated using samples from healthy donors.

High throughput scalability

The entire workflow is automated on a single platform, providing an end-to-end solution for processing up to 340 samples and 44 controls per week, with seamlessly integrated secondary analysis pipelines and comprehensive tertiary analysis solutions.

Specifications

Required products

Illumina Protein Prep Automation System (Catalog no. 20116818).
Required one-time purchase. The assay must be automated using the Illumina Protein Prep Automation System. Contact your local Illumina Account Manager to learn more about our Illumina Protein Prep service partners. 

 

Choose either the plasma or serum assay based on your preferred input sample type:

Illumina Protein Prep 9.5K Plasma, 96 Reactions (Catalog no. 20137827), or Illumina Protein Prep 9.5K Serum, 96 Reactions (Catalog no. 20137828).

 

Choose one index plate per 96-reaction kit: 

Illumina DNA/RNA UD Indexes (96 indexes, 96 samples) 

Set A (Catalog no. 20141196)

Set B (Catalog no. 20141197)

Set C (Catalog no. 20141198)

Set D (Catalog no. 20141199)

/ Results

Applications

Illumina Protein Prep enables sequence-ready libraries for the detection of 9464 unique human proteins for proteomic discovery and quantification applications, including biomarker discovery and population genetics studies. 

Example workflow

1
Prep

Illumina Protein Prep

Illumina Protein Prep combines sequencing by synthesis chemistry with SOMAmer Reagents for a comprehensive NGS-based assay. The entire workflow is automated on the Illumina Protein Prep Automation System.

 

2
Sequence
3
Analyze

DRAGEN Protein Quantification

Integrated secondary analysis pipeline auto-launches after sequencing for complete normalization and protein expression quantification.

Illumina Connected Multiomics

Unlock deeper biological insights with a powerful omics analysis software featuring interactive visualization and statistical analysis.

 

Project recommendations

Instrument Recommended number of samples Read length
NovaSeq 6000 System

192 reactions per flow cell on S4 35c

40M reads, 1 × 15

NovaSeq X System

192 reactions per flow cell on 10B 100c
384 reactions per flow cell on 25B 100c

40M reads, 1 × 15

Related applications and methods

Documentation

Product literature
Support documentation

A dedicated support section is not currently available for this product

Figures

Overview of the Illumina Protein Prep solution

Overview of the Illumina Protein Prep solution

Human serum or plasma samples are used as input to the SomaScan assay, followed by Illumina library prep, automated on Illumina Protein Prep Automation System, and sequenced on a NovaSeq System.

Protein-capture using the SOMAScan assay

Protein capture using the SOMAScan assay

SOMAmer Reagents (blue) contain a photocleavable linker and biotin. Bound to streptavidin beads, they capture specific proteins and tag with biotin (yellow). UV light breaks the linker, releasing SOMAmer-protein complexes, which are captured on new beads and eluted for quantification using NGS.

lllumina Protein Prep NGS conversion chemistry

lllumina Protein Prep NGS conversion chemistry

Following the SomaScan assay, SOMAmer Reagent abundances are converted to barcoded sequencing-ready libraries using a hybridization-based approach.

FAQs

SOMAmer technology (aptamer-based) is used for protein capture. See Protein capture using the SOMAScan assay in the Figures tab on this page.

Human plasma and serum samples.

The Illumina Protein Prep 9.5K assay detects 9464 unique human proteins. This panel can be used to detect proteins in major biological pathways, including those implicated in oncology, neurology, inflammation, and cardiology.

Secondary analysis generates a protein quantification file (ADAT) and DRAGEN QC report.

Read the data normalization technical note for more information on secondary analysis.

Yes, the assay must be automated using the Illumina Protein Prep Automation System.

/ Results

NovaSeq X Series ordering

Advanced chemistry, optics, and informatics combine to deliver exceptional sequencing speed and data quality, outstanding throughput, and scalability.

NovaSeq X Series Reagent Kits

Reagent kits for the NovaSeq X Series include a reagent cartridge, buffer cartridge, flow cell, lyo insert, pre-load buffer, and library tube strip.

NovaSeq 6000 System ordering

Perform powerful high-throughput sequencing studies with the NovaSeq 6000 System. Match data output and time to results to project needs.

NovaSeq 6000 Reagent Kits

Reagent kits for the NovaSeq 6000 System consisting of ready-to-use pre-filled reagent cartridges and flow cells.

Speak with a specialist

Reach out for information about our products and services, or get answers to questions about our technology.