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Advancing Biomarker Analysis
Through Reliable Protein Profiling
Protein biomarker discovery is revolutionizing personalized medicine, enabling earlier and more precise diagnosis and characterization of diseases and the development of targeted therapies. By focusing on proteins—dynamic indicators influenced by genetic and environmental factors—researchers can unlock key insights into disease mechanisms and progression. Advanced protein profiling techniques, particularly liquid chromatography-mass spectrometry (LC-MS), empower the detection and quantification of proteins, offering an ideal tool for biomarker discovery. Large-cohort studies, utilizing robust and efficient workflows and bioinformatic tools to precisely identify disease-specific biomarkers, are paramount to driving breakthroughs in cancer, cardiovascular, and neurological disorder research.
The challenge
Despite its promise, biomarker discovery in LC-MS-based proteomics faces challenges such as time-consuming, complex workflows, low throughput, and a lack of standardization. Variability in sample collection, analyte extraction, and preparation protocols leads to inconsistent data and unreliable results. Automation for proteomics sample preparation remains insufficient, limiting the scalability and reproducibility required for standardized, comparable, and reliable results. This is especially critical for large-cohort studies essential to biomarker analysis. Without standardized, high-throughput processes, reproducible and meaningful biomarker identification remains out of reach.
The solution
PreOmics®’ advanced technologies address these challenges by streamlining and standardizing proteomics sample preparation workflows, from protein extraction to clean peptides ready for mass spectrometry analysis. The BeatBox® tissue homogenizer, iST proteomics sample prep kits, and ENRICH technology for plasma, serum, and similar biofluid preparation offer innovative, user-friendly, reliable, and standardized solutions that are fully automatable and seamlessly integrated. These tools optimize protein extraction, digestion, and cleanup, ensuring reproducibility and high-quality results across labs and studies. With PreOmics, researchers can efficiently navigate biomarker discovery, advancing early detection, personalized therapies, and improved patient care.
Results
Age-dependent differences in the plasma proteome identified with ENRICH-iST
Analyzing plasma samples of two healthy age groups with ENRICH-iST automated on the Tecan Fluent® Resolvex® i300 reveals age-dependent differences in the proteome. Eight of these proteins have been reported to be age-regulated (marked in red), including GDF-15, a known aging biomarker.
Deep and reproducible FFPE tissue profiling with BeatBox workflow for improved biomarker discovery
Comparison of BeatBox plate and tube kits for FFPE processing (A) revealed high consistency of both kit formats with deep proteome coverage (B) and excellent technical repeatability (C), ideal for large-scale biomarker discovery studies.
Identification of Plasmodium vivax hypnozoites biomarkers associated with plasma-derived extracellular vesicles using standardized iST sample preparation
Proteomic characterization of plasma-derived EVs from P. vivax-infected mice using iST sample preparation revealed the presence of proteins from human, mouse, and P. vivax.
What do our customers say?
“[…] Our services enable answering various biological questions, such as biomarker discovery and studying biological pathways from a broad range of sample types and species, which requires us to use highly standardized methods. Acquiring the BeatBox® technology for the homogenization of large series of tissues has improved our throughput with the same protein extraction efficiency as manual extraction. […]”
Blandine Guével
Study Officer at Protim, France
"We tested several options for biomarker discovery on plasma samples, but many were very long and tedious. With the novel ENRICH technology, we have a fast, efficient, and reliable enrichment workflow to get deeper into the proteome from human plasma and serum. […]”
Catherine Nury
Manager Proteomics at Philip Morris International, Switzerland
"The ETH PHRT Swiss Multi-Omics Center receives on a regular basis larger sample cohorts of clinical biospecimen. Standard operating procedures are critical for consistent and reproducible data generation and analysis. Switching to the PreOmics®' [iST] kits in combination with the PreON robot enabled us now to routinely focus on biomedical discoveries and not technical workflows and variations. […]”
Dr. Audrey van Drogen
Lab Manager & Project Scientist, Wollscheid laboratory & ETH PHRT Swiss Multi-Omics Center Switzerland
Advancing Biomarker Discovery Through Reliable Protein Profiling
References & Further Reading
Soni, R.K.
Protocol for deep proteomic profiling of formalin-fixed paraffin-embedded specimens using a spectral library-free plasma proteomics for the identification of the putative biomarkers of oral squamous cell approach.
STAR Protocols. 2023; 4(3):102381.
Read
Wang, Q.Q. et al.
Comprehensive proteomic signature and identification of CDKN2A as a promising prognostic biomarker and therapeutic target of colorectal cancer.
World J Clin Cases. 2022; 10(22):7686-7697.
Read
Silbereisen, A. et al.
Probing the salivary proteome for prognostic biomarkers in response to non-surgical periodontal therapy.
Journal of Clinical Periodontology. 2023; 52(1):56-67.
Read
Gautam, S.S. et al.
Label-free plasma proteomics for the identification of the putative biomarkers of oral squamous cell carcinoma.
Journal of Proteomics. 2022; 259:104541.
Read
Tonelotto, V. et al.
1,4-dihydroxy quininib activates ferroptosis pathways in metastatic uveal melanoma and reveals a novel prognostic biomarker signature.
Cell Death Discov. 2024; 10:70.
Read
Gaun, A. et al.
Automated 16-Plex Plasma Proteomics with Real-Time Search and Ion Mobility Mass Spectrometry Enables Large-Scale Profiling in Naked Mole-Rats and Mice.
Journal of Proteome Research, 2021; 20 (2):1280-1295.
Read
Carpenter, A.D. et al.
Proteomic analysis of plasma at the preterminal stage of rhesus nonhuman primates exposed to a lethal total-body dose of gamma-radiation.
Sci Rep. 2024; 14:13571.
Read
Shanbhag, S. et al.
Proteomic Analysis of Human Serum Proteins Adsorbed onto Collagen Barrier Membranes.
Journal of Functional Biomaterials. 2024; 15(10):302.
Read
