A proposal for score assignment to characterize biological processes from mass spectral analysis of serum

Autor: Sabine Kasimir-Bauer, Harvey I. Pass, Carlos R. Oliveira, Jeffrey S. Weber, Joanna Roder, Julia Grigorieva, Senait Asmellash, Lelia Net, Heinrich Roder, Krista Meyer
Jazyk: angličtina
Rok vydání: 2020
Předmět:
Proteomics
Multivariate statistics
Medizin
ANG
angiogenesis
Disease
01 natural sciences
CPH
Cox proportional hazards
IFN1
interferon type 1 signaling and response
Medicine
Spectral analysis
Serum proteome
Spectroscopy
0303 health sciences
FDA
US Food and Drug Administration
030302 biochemistry & molecular biology
GLY
glycolysis
WH
wound healing
Proteome
LC MS-MS
liquid chromatography with tandem mass spectrometry
Set enrichment analysis
Biomarker (medicine)
Cancer development
Non small cell
ECM
extracellular matrix organization
PCn
principal component n
IT
immune tolerance
IFNg
Interferon γ signaling and response
IRn
type n immune response
MALDI ToF
matrix-assisted laser desorption/ionization time of flight
Computational biology
MS
mass spectral
Article
Biological scores
PD-1
programmed cell death protein 1
OS
overall survival
03 medical and health sciences
AIR
acute inflammatory response
NSCLC
non-small cell lung cancer
PCA
principal component analysis
HbA1c
hemoglobin A1c
Mass spectrometry
business.industry
ALK
anaplastic lymphoma kinase
010401 analytical chemistry
CV
coefficient of variation
PC
principal component
Biomarker
HR
hazard ratio
m/Z
mass/charge
APR
acute phase reaction
0104 chemical sciences
EGFR
epidermal growth factor receptor
CI
confidence interval
QC
quality control
PD-L1
programmed death-ligand 1
BRCA1/2
Breast Cancer Gene 1
Breast Cancer Gene 2
business
CA
complement activation
MRM
multiple reaction monitoring
Zdroj: Clinical Mass Spectrometry
ISSN: 2376-9998
2213-8005
Popis: Highlights • Biological process-associated scores generated from mass spectrometry of serum. • Scores demonstrated acceptable levels of reproducibility. • Scores associated with biological processes and clinical outcome in cancer patients. • Possible application to biomarker studies for treatment or monitoring of disease. • Multiple biological processes assessed from 3 µL of serum.
Introduction Most diseases involve a complex interplay between multiple biological processes at the cellular, tissue, organ, and systemic levels. Clinical tests and biomarkers based on the measurement of a single or few analytes may not be able to capture the complexity of a patient’s disease. Novel approaches for comprehensively assessing biological processes from easily obtained samples could help in the monitoring, treatment, and understanding of many conditions. Objectives We propose a method of creating scores associated with specific biological processes from mass spectral analysis of serum samples. Methods A score for a process of interest is created by: (i) identifying mass spectral features associated with the process using set enrichment analysis methods, and (ii) combining these features into a score using a principal component analysis-based approach. We investigate the creation of scores using cohorts of patients with non-small cell lung cancer, melanoma, and ovarian cancer. Since the circulating proteome is amenable to the study of immune responses, which play a critical role in cancer development and progression, we focus on functions related to the host response to disease. Results We demonstrate the feasibility of generating scores, their reproducibility, and their associations with clinical outcomes. Once the scores are constructed, only 3 µL of serum is required for the assessment of multiple biological functions from the circulating proteome. Conclusion These mass spectrometry-based scores could be useful for future multivariate biomarker or test development studies for informing treatment, disease monitoring and improving understanding of the roles of various biological functions in multiple disease settings.
Databáze: OpenAIRE
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