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GEN Protocols

OMICS

OMICS

Protocol

Detergent-Free Nuclei Isolation

A novel spin column-based approach to isolate intact single nuclei from tissues (fresh or frozen) and cells without using a detergent. The protocol is fast, easy, and reliable, producing high-quality single nuclei with minimized clumping and possible leakage of the nuclear envelope. The protocol is ... More


Protocol

Filter Capture, Extraction, and Sequencing of Coastal Metagenomes

In order to analyze the metagenomes of coastal microbial communities, we have standardized a protocol to collect, extract, and sequence near-shore microbiome samples. This procedure involves on-site filter capture of microbiomes from coastal water, DNA extraction via ceramic bead processing and sili... More


Protocol

Rapid metabolic phenotyping in SARS-CoV-2 patients using the impact II QTOF MS system

The impact II QTOF system meets the critical elements of sensitivity, selectivity, accuracy, and precision for targeted metabolite analysis. The continuous collection of both MS and MS/MS data provides an exponentially deeper and broader pool of data valuable for subsequent retrospective discovery o... More


Protocol

4D-Lipidomics™ workflow for increased throughput

Lipid profiling from complex lipid extracts can be a challenging and time consuming task. The high complexity of samples and co-elution of isobaric or isomeric compounds complicate the confident annotation of lipids. The presented 4D-Lipidomics workflow simplifies and streamlines the annotation and ... More


Protocol

Investigating the increased lifespan in C. elegans daf-2 mutants by 4D-Lipidomics™

The small nematode Caenorhabditis elegans is one of the premier biomedical model organisms and employed in many aspects of basic and applied science.... More


Protocol

Achieving Reproducible and Automated Region-Specific Lipid Annotations using CCS-aware SpatialOMx®

The CCS-aware SpatialOMx® workflow opens new dimensions by combining the molecular and spatial information measured by MALDI-TIMS Imaging with highly confident 4D-Omics annotations. MetaboScape® 2021b and SCiLS™ Lab 2021a provide the interface to match data from both ionization techniques and enable... More


Protocol

How to Determine Glycan Profiles of Biopharmaceuticals from Peptide Mapping Data

Glycosylation is a common critical quality attribute (CQA) of therapeutic proteins and needs to be characterized during product development. Typically, this analysis is conducted after enzymatic release and tagging of the glycans followed by fluorescence and MS detection. However, that approach lose... More


Protocol

High throughput 4D-Proteomics – Application of dia-PASEF® and the Evosep One for short gradients

In this application note, we demonstrate the benefits of dia-PASEF technology on the timsTOF Pro platform coupled to an Evosep One for high-throughput in-depth proteome analysis of up to 300 samples per day (SPD). We quantify about 5200 protein groups in only 21-minutes run time. In 4.8-minutes ultr... More


Protocol

Elucidation of metabolic changes in HFD-ApoE–/– model by SP6 peptide: A flow injection analysis magnetic resonance mass spectrometry (FIA-MRMS) study

The employment of natural peptides in the treatment of cardiovascular diseases is an attractive option to pharmacological therapy. In this study, a novel antihypertensive peptide from Spirulina Platensis (SP6) was employed to evaluate its potential anti-atherosclerotic effect in high fat diet ApoE–/... More


Protocol

Magnetic Resonance Mass Spectrometry (MRMS) discriminates yeast mutants through metabolomics

A eukaryote model of Saccharomyces cerevisiae was used to study the methylglyoxal pathway by Magnetic resonance mass spectrometry (MRMS). It was discovered that glutathione plays a major role in driving metabolomic differences between different strains. It is expected that metabolomics-based discrim... More