Zentrum für Arzneimittelforschung, Entwicklung und Sicherheit (ZAFES)
Refine
Year of publication
Document Type
- Article (92) (remove)
Has Fulltext
- yes (92)
Is part of the Bibliography
- no (92)
Keywords
- Inflammation (4)
- Pre-analytics (3)
- inflammation (3)
- neuropathic pain (3)
- pain (3)
- spinal cord (3)
- Gene Regulation (2)
- Interleukin (2)
- Lipidomics (2)
- MLL (2)
- Metabolomics (2)
- PGE2 (2)
- apoptosis (2)
- cytotoxicity (2)
- differentiation (2)
- extracellular matrix (2)
- migration (2)
- prostaglandin (2)
- prostaglandins (2)
- 11q23/MLL rearrangements (1)
- 15-PGDH (1)
- 2-Arachidonoyl glycerol (1)
- 3-hydroxyanthranilic acid (1)
- 5-lipoxygenase (1)
- 5-lipoxygenase; (1)
- ADAM10 (1)
- AF4 (1)
- ARID5B (1)
- Anandamide (1)
- B16 cells (1)
- Best-practice model (1)
- Biglycan (1)
- Biomarker Discovery Study (1)
- Biomarkers & Diagnostic Imaging (1)
- Blood sample handling (1)
- Blood sampling (1)
- CD3 (1)
- CEBPE (1)
- CXCL10 (1)
- CXCL16 (1)
- CXCR3 (1)
- Case management (1)
- Crohn’s disease (1)
- Cyclosporin A (1)
- Cytokines Induction (1)
- DNA G-quadruplex (1)
- DNA pulldown (1)
- DNA-protein-interactions (1)
- Decorin (1)
- Dendritic Cells (1)
- Dendritic cells (1)
- Diabetic nephropathy (1)
- Doubling time (1)
- Endocannabinoid (1)
- Endocannabinoids (1)
- FTY720 (1)
- Fibrosis (1)
- Fingolimod (1)
- Gene/Regulation (1)
- Glomerulonephritis (1)
- HDAC (1)
- HIV-1 (1)
- HODE (1)
- Highwire (1)
- IDO1 (1)
- IKKε (1)
- IKZF1 (1)
- IL-12 (1)
- IL-18 binding protein (1)
- Immunosuppression (1)
- Infant leukemia (1)
- Innate Immunity (1)
- Innate immunity (1)
- Interleukin-1 (1)
- Interleukin-22 (1)
- Interleukin-36 (1)
- Ischemia-reperfusion injury (1)
- K3EDTA plasma sampling (1)
- Kidney disease (1)
- LC-MS-Based Clinical Research (1)
- Lumican (1)
- MLL-Baby (1)
- MLV (1)
- MMP9 (1)
- MRP4 (1)
- MTT (1)
- MYCBP2 (1)
- Macrophage (1)
- Macrophages (1)
- Metabolism (1)
- NADPH oxidase (1)
- NF-кB (1)
- Neuron (1)
- Oral anticoagulation (1)
- PAM (1)
- PHR1 (1)
- Pain (1)
- Plasma (1)
- RNA-templated DNA repair (1)
- RNA/MicroRNA (1)
- Receptors/Nuclear (1)
- S1P lyase (1)
- SAMHD1 knockout mouse (1)
- SAMHD1 phosphorylation (1)
- SERS (1)
- STAT1 (1)
- Sampling protocol (1)
- Serum (1)
- Sphingosine 1-phosphate (1)
- Sphingosine-1-phosphate (1)
- T Cell Biology (1)
- T-bet (1)
- TBK1 (1)
- TEM (1)
- TRP Channels (1)
- Toll-like receptor (1)
- Trafficking (1)
- Ubiquitin Ligase (1)
- Wilms tumor (1)
- acute leukemia (1)
- adipose-derived stem cells (ASCs) (1)
- age (1)
- amlexanox (1)
- analgesics (1)
- antifibrotic therapy (1)
- autoantigen (1)
- autoimmunity (1)
- autophagy (1)
- back pain (1)
- biglycan (1)
- cPLA2 (1)
- cadherin (1)
- calcitriol (1)
- cancer (1)
- cell adhesion (1)
- cell proliferation (1)
- combination therapy (1)
- cortisol (1)
- costimulation (1)
- cyclooxygenase (1)
- decorin (1)
- diabetic nephropathy (1)
- eicosanoids (1)
- epigenetics (1)
- epithelial‐mesenchymal transition (1)
- fibrocytes (1)
- fibromodulin (1)
- fibrosis (1)
- fluorescence confocal laser scanning microscopy (1)
- fluorescent ligand (1)
- flurbiprofen (1)
- genetic rearrangements (1)
- glycosaminoglycan (1)
- growth factor (1)
- histone deacetylase (1)
- human histamine H3 receptor (1)
- hyperalgesia (1)
- idiopathic pulmonary fibrosis (1)
- immunoglobulin superfamily (1)
- infants (1)
- insulitis (1)
- integrin (1)
- interferon-γ (1)
- interleukin-10 (1)
- interleukin-22 (1)
- intervertebral disc (1)
- invasion (1)
- junctional adhesion molecule (1)
- kynureninase (1)
- kynurenine (1)
- labelfree quantitative mass spectrometry (1)
- leukemia; solid tumors (1)
- leukotriene (1)
- linoleic acid metabolites (1)
- lipids inflammatory pain (1)
- lipoproteins (1)
- liver (1)
- liver fibrosis (1)
- lumican (1)
- mPGES-1 (1)
- macrophage (1)
- macrophage polarization (1)
- macrophages (1)
- melanoma (1)
- miRNA let-7e (1)
- microenvironment (1)
- microglia (1)
- mitogenic effects (1)
- nerve injury (1)
- neuroinflammation (1)
- neuropathy (1)
- nociception (1)
- non-classical adhesion molecule (1)
- p38 MAPK (1)
- pain, dorsal root ganglia (1)
- perfusion (1)
- phagocytosis (1)
- pharmacological tool (1)
- podocytes (1)
- polymorphism (1)
- premature transcript termination (1)
- primary tubular cells (1)
- prostaglandin E (1)
- proteoglycan (1)
- reactive oxygen species (1)
- recurrent chromosomal translocations (1)
- selectin (1)
- signal transducer and activator of transcription (1)
- smooth muscle cells (1)
- sphingosine-1-phosphate (1)
- transient receptor potential channels (1)
- treatment outcome (1)
- tryptophan (1)
- tumor growth (1)
- type I interferons (1)
- vascular biology (1)
- дети первого года жизни (1)
- исходы терапии (1)
- острые лейкозы (1)
- перестройки 11q23/MLL (1)
Institute
The emerging disciplines of lipidomics and metabolomics show great potential for the discovery of diagnostic biomarkers, but appropriate pre-analytical sample-handling procedures are critical because several analytes are prone to ex vivo distortions during sample collection. To test how the intermediate storage temperature and storage period of plasma samples from K3EDTA whole-blood collection tubes affect analyte concentrations, we assessed samples from non-fasting healthy volunteers (n = 9) for a broad spectrum of metabolites, including lipids and lipid mediators, using a well-established LC-MS-based platform. We used a fold change-based approach as a relative measure of analyte stability to evaluate 489 analytes, employing a combination of targeted LC-MS/MS and LC-HRMS screening. The concentrations of many analytes were found to be reliable, often justifying less strict sample handling; however, certain analytes were unstable, supporting the need for meticulous processing. We make four data-driven recommendations for sample-handling protocols with varying degrees of stringency, based on the maximum number of analytes and the feasibility of routine clinical implementation. These protocols also enable the simple evaluation of biomarker candidates based on their analyte-specific vulnerability to ex vivo distortions. In summary, pre-analytical sample handling has a major effect on the suitability of certain metabolites as biomarkers, including several lipids and lipid mediators. Our sample-handling recommendations will increase the reliability and quality of samples when such metabolites are necessary for routine clinical diagnosis.
Small molecule biomarker discovery: Proposed workflow for LC-MS-based clinical research projects
(2023)
Mass spectrometry focusing on small endogenous molecules has become an integral part of biomarker discovery in the pursuit of an in-depth understanding of the pathophysiology of various diseases, ultimately enabling the application of personalized medicine. While LC-MS methods allow researchers to gather vast amounts of data from hundreds or thousands of samples, the successful execution of a study as part of clinical research also requires knowledge transfer with clinicians, involvement of data scientists, and interactions with various stakeholders.
The initial planning phase of a clinical research project involves specifying the scope and design, and engaging relevant experts from different fields. Enrolling subjects and designing trials rely largely on the overall objective of the study and epidemiological considerations, while proper pre-analytical sample handling has immediate implications on the quality of analytical data. Subsequent LC-MS measurements may be conducted in a targeted, semi-targeted, or non-targeted manner, resulting in datasets of varying size and accuracy. Data processing further enhances the quality of data and is a prerequisite for in-silico analysis. Nowadays, the evaluation of such complex datasets relies on a mix of classical statistics and machine learning applications, in combination with other tools, such as pathway analysis and gene set enrichment. Finally, results must be validated before biomarkers can be used as prognostic or diagnostic decision-making tools. Throughout the study, quality control measures should be employed to enhance the reliability of data and increase confidence in the results.
The aim of this graphical review is to provide an overview of the steps to be taken when conducting an LC-MS-based clinical research project to search for small molecule biomarkers.